[{"hash":"227682098974883787","title":"Retroviral integration and latency","description":"In this cluster, dominant GO terms describe retroviral-like processes: DNA integration, RNA-templated DNA biosynthesis (reverse transcription), establishment of integrated proviral latency, viral entry/penetration into the host nucleus, and related transposition activities, with additional host defense and entry-related terms. This cohesive pattern points to retroelement activity and proviral maintenance within the host.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":19},{"id":"GO:0006310","count":18},{"id":"GO:0006278","count":18},{"id":"GO:0075713","count":18},{"id":"GO:0039651","count":18}]},{"hash":"270183625095154694","title":"Neural development and ion transport","description":"The top terms point to nervous system development (sensory perception of pain, cerebellum maturation, multicellular development) combined with membrane ion transport (potassium and sodium import/export), suggesting proteins involved in neural development with ion-channel/exchanger roles and related metabolic/stress responses.","confidence":"Medium","size":29,"edges":9,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":17},{"id":"GO:0007275","count":16},{"id":"GO:0097623","count":14},{"id":"GO:1990573","count":13},{"id":"GO:0002024","count":13}]},{"hash":"1774759893666630847","title":"Neural signaling and synaptic plasticity regulation","description":"Cluster appears dominated by terms related to sensory perception (vision), long-term potentiation, and regulation of synaptic plasticity, suggesting a focus on neuronal signaling and plasticity. While there are also terms linked to cell cycle and growth pathways (mitotic cell cycle, Hippo signaling) that may reflect shared components or broader roles, the strongest and most coherent signal centers on neural activity and synaptic modulation.","confidence":"Medium","size":29,"edges":242,"triangles":1156,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007601","count":19},{"id":"GO:0000278","count":19},{"id":"GO:0033160","count":15},{"id":"GO:0060291","count":14},{"id":"GO:0043065","count":14}]},{"hash":"2182108479712986231","title":"Inflammation signaling and neutrophil chemotaxis","description":"This cluster shows themes of inflammatory regulation (negative regulation of TNF production, chronic inflammatory response), neutrophil chemotaxis, and signaling cascades (ERK, GPCR-mediated pathways, protein phosphorylation), suggesting a core function in coordinating inflammation and immune cell recruitment. Some terms (heart development, viral release) are less representative but do not override the dominant inflammatory signal.","confidence":"Medium","size":29,"edges":41,"triangles":20,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032720","count":5},{"id":"GO:0090023","count":5},{"id":"GO:0019076","count":4},{"id":"GO:0002882","count":4},{"id":"GO:0033861","count":4}]},{"hash":"925437621983518149","title":"Embryonic heart and vascular development with complement activation","description":"The top GO terms cluster around embryonic development and heart development, with angiogenesis and cell adhesion, plus immune-related terms for complement activation and membrane attack complex regulation. This suggests a theme of cardiovascular development and vascular remodeling, with involvement of immune/complement signaling, justifying a label centered on embryonic heart/vascular development and complement activity.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0001970","count":6},{"id":"GO:0001701","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0006957","count":6}]},{"hash":"529318203814603886","title":"T cell activation and leukocyte adhesion signaling","description":"The top GO terms cluster around immune cell signaling, adhesion, and trafficking: T cell activation via TCR contact with antigen\u2013MHC, integrin-mediated signaling, and calcium-independent cell-matrix adhesion, plus cellular extravasation. Together these indicate a core role in leukocyte adhesion, migration, and activation. Some terms like dendrite regeneration or light perception appear less related, but the dominant pattern points to immune response dynamics rather than a single specialized pathway.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031104","count":12},{"id":"GO:0070208","count":12},{"id":"GO:0034113","count":12},{"id":"GO:0002291","count":12},{"id":"GO:0007229","count":12}]},{"hash":"217929007046112293","title":"ER Stress Translation and Signaling","description":"This cluster centers on ER stress and unfolded protein response with translation control under stress, as evidenced by terms like positive regulation of translation initiation in response to ER stress and response to unfolded protein. It also includes calcium-calcineurin\u2013NFAT signaling regulation and kinase activity modulation, suggesting a broader stress-response signaling network influencing cell shape and cell cycle, rather than a single tightly focused process.","confidence":"Medium","size":29,"edges":112,"triangles":88,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0006777","count":2},{"id":"GO:0051531","count":2}]},{"hash":"1739615187797134488","title":"Neuronal development and axon guidance","description":"The top GO terms cluster around neural development and axon guidance (axon extension, ephrin signaling, hippocampus development), pointing to neuronal growth and pathfinding as the core function. Some terms (chemotaxis, cell cycle, beta selection) seem ancillary or reflect multi-functional proteins, but they do not override the dominant neural development theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006935","count":21},{"id":"GO:0045719","count":21},{"id":"GO:0006260","count":20},{"id":"GO:0048701","count":19},{"id":"GO:0045773","count":19}]},{"hash":"1696494810892871664","title":"Actin Cytoskeleton and Related Processes","description":"The top GO terms cluster around actin dynamics and cytoskeletal organization (actin crosslink formation, actin filament depolymerization, terminal web assembly) and processes linked to membrane trafficking (positive regulation of pinocytosis) as well as mitotic spindle assembly and signaling pathways (Wnt) that regulate the cytoskeleton; fungal-specific terms like ascospore formation and karyogamy also rely on cytoskeletal remodeling. Overall, the common thread is cytoskeletal dynamics and associated cellular processes.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902896","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0000742","count":2},{"id":"GO:0098907","count":2},{"id":"GO:0030437","count":2}]},{"hash":"1629719398617129327","title":"Embryonic Development and Lineage Differentiation","description":"The GO terms point to diverse developmental processes across multiple lineages, including early embryogenesis (primitive streak formation, trophoblast differentiation), heart development with EMT in the endocardial cushion, and neural development (CNS/PNS), plus hematopoietic differentiation (megakaryocytes, erythrocytes). This suggests a cluster of proteins involved in broad developmental specification and differentiation rather than a single pathway, hence a broad developmental label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060707","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0007417","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0090009","count":5}]},{"hash":"2273506086390179534","title":"Embryonic development and placental differentiation","description":"The top GO terms cluster around developmental processes: endocrine system development, placental and trophoblast differentiation, EMT in heart cushion formation, cartilage morphogenesis, pancreatic cell development, and left-right pattern formation. A note on transcriptional regulation by RNA polymerase II supports a developmental gene-regulatory program. Overall, the terms point to embryogenesis and placental/organogenesis rather than a single specialized function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0003198","count":5},{"id":"GO:0060536","count":5}]},{"hash":"1563335632169206089","title":"Neuronal development and cytoskeletal remodeling","description":"Based on the top GO terms, the cluster is enriched for neural development topics (brain/forebrain development, neuron projection development) and for actin cytoskeleton dynamics (actin filament depolymerization, regulation of Rho signaling), which together point to neuronal differentiation and neurite outgrowth processes that require cytoskeletal remodeling. A few terms about skeletal or lens/osteoblast differentiation appear, but they are less dominant and likely reflect broader developmental roles or pleiotropy rather than a single unified function.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0031175","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0050830","count":3},{"id":"GO:0090307","count":3}]},{"hash":"2107235481613012242","title":"Bacterial cell wall and envelope biosynthesis","description":"The terms cluster around synthesis and modification of envelope components: lipoteichoic acid and teichoic acids (cell wall polymers typical of Gram-positive bacteria), lipid A biosynthesis, and fatty acid biosynthesis, with \u201ccell wall organization\u201d tying them together. Translation-related terms appear but do not define the core theme. Overall, the cluster points to envelope and lipid biosynthesis in bacteria.","confidence":"High","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0015986","count":2},{"id":"GO:0006633","count":2},{"id":"GO:1902987","count":2},{"id":"GO:0070395","count":2}]},{"hash":"992813479866761996","title":"Cytoskeleton Remodeling and Cell Adhesion","description":"The top GO terms point to cytoskeletal dynamics and cell-matrix interactions, including regulation of Rho signaling, integrin-mediated signaling, cell adhesion, fibroblast migration, and microspike assembly. This suggests a coherent theme of cytoskeleton-driven adhesion and movement. Some terms such as DNA transposition or magnesium ion response appear less connected and may be incidental. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0006313","count":3},{"id":"GO:0032026","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0007229","count":2}]},{"hash":"852003562984531634","title":"Vesicle exocytosis regulation","description":"This cluster centers on vesicle release processes: acrosome reaction, synaptic vesicle priming, and neutrophil degranulation (including negative regulation variants). Regulatory signaling terms for Rho and Ras also point to cytoskeletal and trafficking control that underpins exocytosis. A few other terms (proteasome assembly, translation initiation) are broader cellular processes and less tightly tied to vesicle release, but do not override the exocytosis theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":2},{"id":"GO:0007340","count":2},{"id":"GO:0008637","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0016082","count":2}]},{"hash":"964328400812460353","title":"Muscle differentiation and neuromuscular signaling","description":"This cluster's top GO terms cluster around muscle development and function\u2014myotube differentiation, skeletal muscle tissue regeneration, and neuromuscular processes\u2014along with PI3K/AKT signaling that supports muscle growth. Additional terms like vasodilation and glycosylation can relate to muscle tissue physiology. Overall, the proteins seem tied to muscle development, maintenance, and neuromuscular control, justifying a muscle-focused label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035269","count":2},{"id":"GO:0060052","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0009410","count":1},{"id":"GO:0051897","count":1}]},{"hash":"1340284952043481430","title":"Ubiquitin signaling and stress response","description":"The cluster\u2019s top GO terms center on protein ubiquitination and regulation of deubiquitination, combined with several stress-related processes (ER stress\u2013induced apoptotic signaling, DNA repair, endocytosis and calcium signaling regulation, and immune signaling). This suggests proteins involved in post-translational modification and broader cellular stress response pathways rather than a single, tight function, so the label emphasizes ubiquitin-mediated signaling intertwined with stress responses.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0051260","count":1},{"id":"GO:1900186","count":1},{"id":"GO:1903094","count":1},{"id":"GO:0006289","count":1}]},{"hash":"1683454337119877887","title":"Vertebrate Organ Development and Metabolism","description":"The top GO terms point to organ development (heart, liver, post-embryonic development) and a set of metabolic processes (valine catabolism, fatty acid beta-oxidation, steroid biosynthesis), suggesting proteins in this cluster participate in both developmental regulation and metabolic pathways rather than a single, narrow function.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0009791","count":3},{"id":"GO:0009409","count":3},{"id":"GO:0006574","count":3}]},{"hash":"1658630096970848136","title":"Neural development and inflammatory signaling","description":"The GO terms cluster around neural maturation (myelination, axonogenesis, glial regulation) and immune/cytokine responses (IL-12, defense to Gram-positive bacteria), with broader embryonic development processes (heart, placenta) and signaling modulation (Rho, JNK). This suggests a set of vertebrate developmental genes that integrate neural differentiation with immune signaling.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0050830","count":5},{"id":"GO:0022011","count":4},{"id":"GO:0035023","count":4},{"id":"GO:0060385","count":4}]},{"hash":"1901212141191291072","title":"DNA replication and repair with transcription initiation","description":"The cluster is enriched for DNA metabolism and genome maintenance terms (unwinding, topological changes, primer synthesis, nucleotide excision repair) and DNA damage response (SOS), plus transcription initiation and mRNA decay, with an additional broad developmental term. This points to a cohesive theme of genome maintenance coupled with transcription regulation, hence the label.","confidence":"Medium","size":28,"edges":124,"triangles":249,"max_degree":24,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009432","count":14},{"id":"GO:0006268","count":14},{"id":"GO:0006306","count":13},{"id":"GO:0006265","count":13},{"id":"GO:0006269","count":13}]},{"hash":"122821811091612943","title":"Nuclear transport and ribosomal protein import","description":"Most of the top GO terms describe import/export processes to and from the nucleus, including NLS-bearing protein import, mRNA export, and nuclear pore complex assembly, as well as ribosomal protein import into the nucleus. These converge on nuclear trafficking as the central function of this cluster, justifying the label. A few terms about protein desumoylation and catabolic regulation suggest additional regulatory layers but do not outweigh the core theme.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0006607","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0006406","count":8},{"id":"GO:0051301","count":8},{"id":"GO:0006610","count":7}]},{"hash":"1180717830869806699","title":"Cardiac Development and Contraction Regulation","description":"This cluster is enriched for GO terms tied to heart formation and function: heart development, left ventricular morphogenesis, regulation of heart contraction, Purkinje-to-ventricular signaling, and potassium channel clustering\u2014all aligning to cardiac muscle biology. Although a few terms are less specific or obsolete, the dominant theme is cardiac muscle development and contractile regulation, making this label appropriate.","confidence":"High","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042994","count":24},{"id":"GO:0060316","count":24},{"id":"GO:0043388","count":24},{"id":"GO:0007507","count":23},{"id":"GO:0045163","count":23}]},{"hash":"615703483716186411","title":"Developmental proliferation and tissue formation","description":"The top GO terms point to widespread developmental growth processes (cell population proliferation, mitotic cell cycle, cell division, multicellular organism development) along with tissue-specific development (retina and skin). This suggests proteins coordinating proliferative growth and tissue morphogenesis across multiple lineages. The presence of COPII vesicle budding and GTPase regulation hints at supporting trafficking and signaling during development, but the core theme remains developmental proliferation and tissue formation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008283","count":10},{"id":"GO:0060041","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0008284","count":8},{"id":"GO:0043588","count":7}]},{"hash":"802193732953566128","title":"Translational initiation and RNA processing regulation","description":"The cluster centers on translation initiation control (formation of the preinitiation complex, reinitiation, IRES-driven initiation, and related viral processes) and includes RNA processing and silencing activities (spliceosome-mediated splicing, ncRNA- and miRNA-mediated gene silencing, and polyadenylation-related notes), indicating a cohesive module of post-transcriptional gene expression regulation focused on translation initiation and RNA processing pathways.","confidence":"High","size":28,"edges":4,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":20},{"id":"GO:0002188","count":20},{"id":"GO:0075522","count":18},{"id":"GO:0006446","count":18},{"id":"GO:0075525","count":18}]},{"hash":"406527560455414796","title":"Transcriptional Regulation and Development","description":"The cluster is dominated by GO terms for regulation of transcription by RNA polymerase II (both negative and positive regulation) and regulatory ncRNA-mediated gene silencing, indicating a core function in controlling gene expression. The presence of diverse developmental terms (midbrain, cartilage, pituitary, oogenesis, fertilization, locomotory behavior) suggests these regulators play broad roles across developmental contexts, rather than a single tissue-specific process. Taken together, the proteins likely function as transcriptional regulators with developmental relevance.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0045944","count":5},{"id":"GO:0031047","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0007338","count":4}]},{"hash":"1004607319157887470","title":"Cardiac and sensory organ development","description":"The proteins group around developmental processes across heart, craniofacial skeleton, cartilage, and sensory systems, including heart development, retina and cochlea morphogenesis, cartilage development, and forebrain proliferation. This suggests a cohesive theme of organogenesis and morphogenesis during embryonic development, with signaling modulation contributing to these pathways.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0007601","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0060040","count":3},{"id":"GO:0014898","count":3}]},{"hash":"2186037170109140256","title":"Developmental signaling and cytoskeletal remodeling","description":"These terms cluster around developmental processes (neural tube closure, skin development, fertilization) intertwined with core cellular mechanics (actin depolymerization, translation preinitiation complex formation, protein heterotrimerization) and growth signaling (TORC1) plus phagolysosome-related activity. The mix points to developmentally regulated growth and structural remodeling rather than a single pathway, so a label emphasizing developmental signaling with cytoskeletal dynamics fits well.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001843","count":8},{"id":"GO:0001845","count":8},{"id":"GO:0090307","count":8},{"id":"GO:0043588","count":8},{"id":"GO:0007338","count":8}]},{"hash":"2039710930516466567","title":"Endocytosis and intracellular trafficking","description":"This cluster centers on endocytosis (receptor-mediated and ubiquitin-dependent), intracellular protein transport, and related signaling/cytoskeletal processes (TORC1 signaling, Rho signaling, spindle assembly). While some terms touch on development (lens fiber differentiation, myoblast fusion), the common theme is membrane trafficking and signal transduction that govern growth and differentiation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0070306","count":4},{"id":"GO:0048260","count":4},{"id":"GO:1904263","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0043314","count":3}]},{"hash":"906644265163487834","title":"Opsin signaling and GPCR internalization","description":"The top terms strongly point to visual perception and GPCR-related trafficking: visual perception, regulation of opsin-mediated signaling, GPCR internalization, receptor internalization, and cell surface receptor signaling, plus endosome-to-melanosome transport. Together these suggest a cluster of proteins involved in photoreceptor opsin trafficking and GPCR recycling/signaling. A few terms like heart development or TNF regulation appear incidental to broader annotations, but the dominant theme fits photoreceptor receptor trafficking.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":4},{"id":"GO:0090528","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0032720","count":2},{"id":"GO:0002031","count":2}]},{"hash":"1830938037109416743","title":"B cell activation and antibody diversification","description":"The top GO terms cluster around B cell\u2013specific antibody maturation: somatic hypermutation of immunoglobulin genes, isotype switching, and IL-4\u2013mediated signaling. Supporting terms like phagocytosis, cell migration, and regulation of GTPase activity indicate immune cell activation and movement. Although a couple terms (e.g., meiotic mismatch repair, mRNA tail shortening) are less obviously linked, the dominant signal points to B cell immune response and antibody diversification.","confidence":"High","size":28,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000710","count":3},{"id":"GO:0016446","count":3},{"id":"GO:0045190","count":3},{"id":"GO:0060211","count":3},{"id":"GO:0071353","count":3}]},{"hash":"855933268172561324","title":"Chromatin remodeling and transcription regulation","description":"The top GO terms point strongly to chromatin remodeling and transcription initiation control (including chromatin remodeling, initiation-coupled remodeling, and heterochromatin regulation), with supporting signals from nuclear receptor\u2013related transcription (vitamin D receptor signaling) and histone modification cues. A few terms touch on development and cytokine production, but the dominant pattern is regulation of chromatin state and transcription.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070562","count":3},{"id":"GO:0060358","count":2},{"id":"GO:0061038","count":2},{"id":"GO:0044154","count":2},{"id":"GO:0006990","count":2}]},{"hash":"1511155810882987997","title":"Ras/GTPase Signaling and Actin Remodeling","description":"This cluster centers on regulation of Ras and other GTPases, along with actin crosslinking and cytoskeletal processes, and includes signals related to GPCR pathways, calcium channel regulation, and synaptic plasticity. The combination of GTPase regulation, cytoskeletal dynamics (actin, terminal web), membrane trafficking (endocytic recycling), and cardiac/synaptic development points to a coordinated role in signaling modulation tied to cytoskeletal remodeling and membrane dynamics.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0051764","count":4},{"id":"GO:0007205","count":4},{"id":"GO:1901387","count":3}]},{"hash":"2064135460580545005","title":"Embryonic Development and Morphogenesis","description":"The terms cluster around embryo development, placental formation (including trophoblast differentiation and placenta-related processes), heart-related EMT and patterning, and craniofacial/oral development, with supporting transcription regulation and splicing terms; together they indicate a cohesive theme of embryogenesis and organ morphogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":7},{"id":"GO:0060806","count":7},{"id":"GO:0060707","count":7},{"id":"GO:0003198","count":7},{"id":"GO:0003323","count":7}]},{"hash":"622504473323754798","title":"Embryonic organ development","description":"The proteins cluster around several organ morphogenesis processes across multiple tissues (eye, brain, lung, pancreas, digestive tract, kidney ureteric bud). Term enrichment includes embryonic eye morphogenesis, brain segmentation, lung branching, ureteric bud branching, and endocrine pancreas development, indicating a shared role in embryonic organogenesis and tissue patterning, with transcription regulation by RNA polymerase II reflecting developmental gene control.","confidence":"High","size":28,"edges":101,"triangles":114,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0090190","count":12},{"id":"GO:0021571","count":11},{"id":"GO:0035284","count":11},{"id":"GO:0060441","count":11}]},{"hash":"283464386707108428","title":"Fatty Acid Oxidation and Energy Metabolism","description":"The cluster is characterized by fatty acid beta-oxidation, long-chain fatty acid catabolism, and fatty-acyl-CoA biosynthesis terms, along with energy-regulation processes such as regulation of gluconeogenesis and response to starvation, indicating lipid catabolism as a central theme. Some unrelated terms like heart development and ascaroside biosynthesis are present but less represented.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0033540","count":2},{"id":"GO:1904070","count":2},{"id":"GO:0042758","count":2}]},{"hash":"1142159278429661303","title":"Ubiquitin-Dependent Degradation and Antiviral Defense","description":"The cluster is strongly enriched for ubiquitination-related processes (ubiquitin-dependent protein catabolic process, protein polyubiquitination, autoubiquitination) and ERAD, along with innate immune response and defense against virus, indicating a set of proteins involved in ubiquitin-mediated protein turnover in antiviral defense. Occasional reads to DNA replication may reflect broader ubiquitin system roles, but the dominant theme is ubiquitin-dependent degradation linked to antiviral defense.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0051865","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0030433","count":5},{"id":"GO:1901253","count":5}]},{"hash":"1149882292151616110","title":"Ubiquitin-Dependent Proteolysis and Immune Signaling","description":"The GO terms point to ubiquitination and proteasome-mediated turnover (polyubiquitination, ubiquitin-dependent proteolysis, autoubiquitination, ERAD) and to immune pathway regulation (TLR signaling, TNF signaling) with related control of cell cycle and apoptosis, suggesting a coherent cluster of ubiquitin-system proteins that also modulate immune responses.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0000209","count":7},{"id":"GO:1901253","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0030433","count":5},{"id":"GO:1903265","count":4}]},{"hash":"2042578109051107245","title":"Ciliogenesis and Organ Development","description":"This cluster is characterized by GO terms centered on cilium assembly and broad developmental processes, including skeletal system development, lens fiber cell differentiation, neuron projection development, and multicellular organism development, suggesting proteins involved in ciliogenesis and tissue/organ differentiation during development. The presence of multiple development-related terms with a shared emphasis on ciliary processes supports a cohesive theme, though a few broader cellular terms appear as secondary associations.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0031175","count":3},{"id":"GO:0007275","count":3}]},{"hash":"811367078127957099","title":"Retina development and neural signaling","description":"The proteins are enriched for retina-specific processes such as photoreceptor maintenance and retina development, and for neural signaling roles including regulation of GABAergic transmission and dopamine secretion. Calcium release and GTPase activity also feature, fitting a signaling and synaptic modulating theme. Some terms touch vascular permeability, coagulation, and immune cell chemotaxis, suggesting broader neurovascular-immune roles, but the core cluster centers on retinal neural function.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043114","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0032228","count":3},{"id":"GO:0014059","count":3}]},{"hash":"2204238842846130158","title":"Cardiac signaling and hormone regulation","description":"The top GO terms point to GPCR-mediated signaling and downstream phosphorylation (serotonin/dopamine receptor pathways with adenylate cyclase inhibition, ERK cascade, protein phosphorylation) linked to heart development and hormone secretion, as well as smooth muscle contraction. This suggests a cluster centered on signaling networks governing cardiovascular and endocrine regulation. Note: there is one outlier term (viral release) that may reflect annotation noise or broader host\u2013pathogen interaction context.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":26},{"id":"GO:0002882","count":26},{"id":"GO:0033861","count":26},{"id":"GO:0007198","count":26},{"id":"GO:0070374","count":26}]},{"hash":"425588526414863500","title":"GPCR Signaling and ERK Activation","description":"The top GO terms point to G protein-coupled receptor (GPCR) signaling, including serotonin and dopamine receptor pathways that inhibit adenylate cyclase, and involvement of the ERK1/2 kinase cascade and protein phosphorylation. These reflect a core theme of GPCR-mediated signal transduction and downstream phosphorylation events controlling physiological processes like hormone secretion, heart development, and smooth muscle contraction. An outlier term about viral release is present but does not override the dominant signaling-focused pattern, supporting a label centered on GPCR signaling and ERK pathway activation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":17},{"id":"GO:0002882","count":17},{"id":"GO:0033861","count":17},{"id":"GO:0007198","count":17},{"id":"GO:0070374","count":17}]},{"hash":"6894203448626736","title":"RNA processing and translation initiation","description":"The terms cluster around mRNA maturation (splicing, spliceosome, preinitiation complex, small-subunit processome), mRNA export and stability, and translation initiation (including IRES-dependent initiation), indicating a shared role in RNA processing and the onset of translation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":3},{"id":"GO:0035278","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0034462","count":2}]},{"hash":"1986393711301723386","title":"Cardiovascular and Hormonal GPCR Signaling","description":"The cluster\u2019s terms center on GPCR signaling (serotonin/dopamine receptors), ERK cascade activation, and protein phosphorylation, tied to physiological outputs like heart development, hormone secretion, and smooth muscle contraction. This suggests a cohesive theme of cardiovascular and endocrine signaling, though one term about viral release appears incidental and does not define the group.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":20},{"id":"GO:0002882","count":20},{"id":"GO:0033861","count":20},{"id":"GO:0007198","count":20},{"id":"GO:0070374","count":20}]},{"hash":"1635840961869992589","title":"Vesicle trafficking and RNA processing cluster","description":"This cluster shows strong signals for intracellular membrane transport (ER-Golgi and Golgi-ER retrograde) alongside RNA processing and transport activities (mRNA transport, splicing, transcription), with supporting roles in TORC1 signaling and GTPase regulation. While stress-related terms (cadmium response) and cell division appear, the dominant shared theme appears to be a link between membrane trafficking and post-transcriptional gene expression regulation.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0070262","count":3}]},{"hash":"1873041847406457356","title":"Unknown","description":"The GO terms cover mitochondrial matrix import, one-carbon metabolism, porphyrin/heme biosynthesis, thyroid hormone transport and metabolism, and aromatic amino acid/chorismate-related pathways. These represent multiple, diverse processes rather than a single cohesive function, so a precise label is not evident.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0006730","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0070327","count":1},{"id":"GO:0042403","count":1}]},{"hash":"2153489578809563279","title":"Neuromuscular signaling and sensory perception","description":"This cluster centers on neuromuscular transmission and sensory organ function, with terms about acetylcholine receptor clustering, neuromuscular processes, cochlear development, stereocilium organization, and balance. A few outliers (flagellated sperm motility, lactation, vitamin D response, cardiac hypertrophy) are present but do not dominate the theme.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030317","count":2},{"id":"GO:0071305","count":2},{"id":"GO:0071340","count":2},{"id":"GO:0007595","count":1},{"id":"GO:0060088","count":1}]},{"hash":"1354400403344573329","title":"Retroviral Integration and Latency","description":"The cluster is dominated by GO terms tied to the retroviral life cycle: DNA recombination, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), DNA replication, and the establishment of integrated proviral latency, plus entries related to viral penetration into the host nucleus. Additional terms about symbiont entry and host apoptosis, and negative regulation of siRNA processing, reflect host\u2013pathogen interaction and antiviral defense, respectively. Together these points converge on processes governing proviral integration, reverse transcription, and latent proviral maintenance.","confidence":"High","size":27,"edges":347,"triangles":2829,"max_degree":26,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":21},{"id":"GO:0015074","count":20},{"id":"GO:0039651","count":20},{"id":"GO:1903704","count":20},{"id":"GO:0075713","count":20}]},{"hash":"1107514319149468710","title":"Retroviral integration and proviral latency","description":"These terms cluster around viral genome integration, reverse transcription, and establishment of proviral latency (DNA integration, RNA-templated DNA biosynthetic process, DNA replication, proviral latency). The additional terms about viral entry into the host nucleus and host-symbiont interactions reinforce a viral/retroviral lifecycle theme, with host defense aspects suggested by regulation of siRNA processing. Overall, the cluster fits a retroviral replication/latency module.","confidence":"High","size":27,"edges":120,"triangles":128,"max_degree":16,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":20},{"id":"GO:0006310","count":20},{"id":"GO:0006278","count":20},{"id":"GO:0006260","count":20},{"id":"GO:0075713","count":20}]},{"hash":"504827216480110202","title":"Retroviral DNA integration and latency","description":"The cluster's top GO terms heavily emphasize retroviral lifecycle steps: RNA-templated DNA synthesis (reverse transcription), DNA integration, DNA replication, and establishment of integrated proviral latency, along with viral entry/penetration into the host nucleus. These together form a coherent retroviral replication/latency theme, with some host interaction terms like apoptosis activation by symbionts, reinforcing a virus\u2013host interaction pattern rather than typical host cellular processes.","confidence":"High","size":27,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":23},{"id":"GO:0015074","count":22},{"id":"GO:0006278","count":22},{"id":"GO:0006260","count":22},{"id":"GO:0075713","count":22}]},{"hash":"1341039987019172633","title":"Unknown","description":"Unknown","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0042787","count":6},{"id":"GO:0051865","count":5},{"id":"GO:0070534","count":4}]},{"hash":"1833366345814238971","title":"Retroviral DNA Integration and Latency","description":"This cluster is dominated by GO terms tied to retroviral biology: DNA integration, RNA-templated DNA biosynthesis, DNA recombination, and establishment of integrated proviral latency, plus viral entry into the host nucleus. Together these point to processes involved in retroviral genome insertion and maintenance of latency within host cells, with accompanying infection-related host interactions; ribosome biogenesis appears as a broader, less specific signal. ","confidence":"High","size":27,"edges":59,"triangles":31,"max_degree":15,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":9},{"id":"GO:0090502","count":9},{"id":"GO:0006278","count":9},{"id":"GO:0006310","count":9},{"id":"GO:0075713","count":9}]},{"hash":"204450814306427095","title":"Mitochondrial translation and respiratory chain assembly","description":"The cluster is enriched for mitochondrial-focused processes: translation (likely mitochondrial ribosomes), protein import into the mitochondrial matrix, and assembly of the respiratory chain (especially complex III) with NADH to ubiquinone electron transport, plus protein folding within mitochondria. Minor terms like glucagon/IL-6 responses are incidental. This points to a cohesive theme around mitochondrial protein synthesis, import, and assembly of the respiratory machinery.","confidence":"High","size":27,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0006120","count":2},{"id":"GO:0006457","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0034551","count":2}]},{"hash":"1721470676583119141","title":"Tyrosine Phosphatase Signaling Regulators","description":"The cluster is dominated by GO terms for negative regulation of MAPK/ERK cascades, T cell receptor signaling, and general peptidyl-tyrosine dephosphorylation, indicating a core role for protein tyrosine phosphatases in dampening signaling pathways. Additional terms point to regulatory effects on PI3K-AKT signaling, synaptic organization, and adhesion, suggesting these proteins broadly modulate signaling across immune, neural, and cellular-attachment contexts.","confidence":"High","size":27,"edges":322,"triangles":2335,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0070373","count":23},{"id":"GO:0050860","count":23},{"id":"GO:0000200","count":23},{"id":"GO:0035335","count":17},{"id":"GO:0051898","count":16}]},{"hash":"1632619213095282021","title":"Copper Transport and Homeostasis in Nematodes","description":"The GO terms are strongly skewed toward copper ion handling\u2014import across the membrane, intracellular copper ion homeostasis, and regulation of copper transport\u2014with an additional xenobiotic transport term and cisplatin response that are commonly tied to copper transporter systems. The presence of nematode-specific terms (molting cycle, pharyngeal pumping) suggests this is a nematode-focused copper metabolism module, making the label a concise and representative summary.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046718","count":2},{"id":"GO:0018996","count":2},{"id":"GO:0043050","count":2},{"id":"GO:0006855","count":1},{"id":"GO:1902311","count":1}]},{"hash":"997300822382790062","title":"Unknown","description":"The terms include developmental regulation (meristem identity, masculinization of hermaphroditic germ-line), photosystem regulation, and broad signaling pathway modulation (NF-kappaB, TGF-beta/BMP), plus nuclear export and vacuole fusion. The mixture across plant and animal processes suggests no single cohesive function for the cluster, so a robust, specific label is not supported.","confidence":"","size":27,"edges":123,"triangles":201,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046827","count":6},{"id":"GO:0042347","count":5},{"id":"GO:0010074","count":5},{"id":"GO:0035970","count":5},{"id":"GO:0080005","count":5}]},{"hash":"607005372796061003","title":"Translational Initiation and Regulation","description":"The cluster is dominated by GO terms tied to translation initiation and control, including formation of the preinitiation complex, cytoplasmic translation, reinitiation, and IRES-dependent initiation, along with miRNA-mediated translational silencing and regulation of initiation. While a couple of terms relate to splicing or viral translation, the central pattern points to translational initiation and its regulation.","confidence":"High","size":27,"edges":82,"triangles":74,"max_degree":14,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0001731","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0002181","count":4},{"id":"GO:0035278","count":3},{"id":"GO:0075522","count":3}]},{"hash":"340409465824666828","title":"Developmental gene regulation and organogenesis","description":"This cluster centers on embryonic development and tissue morphogenesis, with terms spanning pituitary and endocrine pancreas development, lung branching, neural crest migration, and midbrain formation, plus broader multicellular development. The presence of negative regulation of transcription by RNA polymerase II suggests coordinated gene-expression control during these developmental processes.","confidence":"High","size":27,"edges":9,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0021983","count":13},{"id":"GO:0007275","count":12},{"id":"GO:0048557","count":12},{"id":"GO:0031018","count":12}]},{"hash":"2080201134533909216","title":"Extracellular Matrix Organization and Cell Adhesion","description":"The cluster is dominated by collagen fibril organization, cell-cell adhesion, and fibroblast proliferation, pointing to extracellular matrix remodeling and tissue structure maintenance. Other terms hint at differentiation in various tissues, but ECM organization and adhesion remain the central theme.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0030199","count":5},{"id":"GO:0097350","count":4},{"id":"GO:0030216","count":4},{"id":"GO:0006909","count":4},{"id":"GO:0098609","count":4}]},{"hash":"780444096126871546","title":"Amino acid and ammonium transport","description":"The cluster is dominated by transmembrane transport terms for several amino acids (methionine, D-alanine, D-serine, L-lysine, L-arginine) and transepithelial ammonium transport, with supporting links to arginine catabolism and nitric oxide production. This points to a cohesive theme of membrane amino acid transport and related nitrogen metabolism.","confidence":"Medium","size":27,"edges":30,"triangles":6,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0044690","count":3},{"id":"GO:1902274","count":3},{"id":"GO:0042941","count":3},{"id":"GO:0097639","count":3},{"id":"GO:0035826","count":3}]},{"hash":"132223341242010126","title":"Development and gene expression cluster","description":"The terms cluster around multicellular development (neural tube closure, skeletal development) and core gene expression (DNA-templated transcription, translation initiation/reinitiation), plus proliferation and mitotic spindle assembly. A few terms touch on defense/stress, but overall the set points to broad developmental regulation linked with gene expression rather than a single pathway; hence a broad developmental-expression label is appropriate.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0001731","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0002188","count":3}]},{"hash":"1559429975632441776","title":"Neuronal development and apoptosis signaling","description":"Cluster appears enriched for neuronal development and survival processes, including negative regulation of neuroblast proliferation, neuron apoptotic signaling (extrinsic pathway), and myelination in the peripheral nervous system, along with kinase activation and transcription-related terms. A few cell-cycle/mitosis-related terms are present but less central, suggesting the dominant theme is neural development and apoptotic signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0007406","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0008625","count":2}]},{"hash":"2075620355007835674","title":"Golgi\u2013ER\u2013Plasma Membrane Trafficking","description":"The top GO terms are dominated by vesicle transport between the Golgi, ER, and plasma membrane (Golgi to plasma membrane transport, ER\u2013Golgi trafficking, exocytosis, ER-to-Golgi transport, endocytic recycling), plus general protein transmembrane transport. This indicates a cohesive membrane trafficking module coordinating vesicle formation, trafficking, and fusion in secretory and endocytic pathways; the developmental terms are likely context-specific. ","confidence":"High","size":27,"edges":22,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006893","count":5},{"id":"GO:0006887","count":3},{"id":"GO:0032456","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0007399","count":3}]},{"hash":"1612183720190772551","title":"Ubiquitin signaling in innate immunity and circadian regulation","description":"The cluster is dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, K63- and K6-linked ubiquitination) and immune defense signatures (innate immune response, defense against virus, NF-kappaB/TNF signaling), with circadian rhythm regulation also represented, suggesting a cohesive module of ubiquitin-mediated antiviral immunity and circadian control.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:0042752","count":10},{"id":"GO:0051865","count":9},{"id":"GO:0051607","count":8},{"id":"GO:0045087","count":8}]},{"hash":"561522885799773900","title":"Mitochondrial respiration and ubiquinone biosynthesis","description":"Top GO terms are dominated by mitochondrial energy metabolism: ubiquinone biosynthesis, aerobic respiration, and mitochondrial electron transport. The presence of translation-related terms likely reflects mitochondrial protein synthesis components, while a few other terms appear incidental. Overall, the cluster centers on mitochondrial respiration and related biosynthetic processes.","confidence":"High","size":27,"edges":316,"triangles":2168,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":3},{"id":"GO:0009060","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0006121","count":2},{"id":"GO:0035572","count":1}]},{"hash":"1741054488538696744","title":"Actin Cytoskeleton Remodeling and Mechanotransduction","description":"The top GO terms highlight actin filament branching, regulation of filopodium assembly, and adherens junction organization, which point to cytoskeletal remodeling and cell\u2013cell adhesion. The cellular response to mechanical stimulus reinforces this interpretation, suggesting the core theme is actin dynamics and mechanotransduction rather than a single signaling or transport function.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043407","count":2},{"id":"GO:0071404","count":2},{"id":"GO:0021794","count":2},{"id":"GO:0070634","count":2},{"id":"GO:0060586","count":2}]},{"hash":"623780700026979446","title":"Zinc ion transport and homeostasis","description":"The cluster\u2019s terms are dominated by zinc-related processes: zinc import across membranes, detoxification, and intracellular zinc homeostasis, including a zinc starvation response and related transmembrane transport terms. A couple of unrelated terms (limb development, JNK cascade regulation) appear less central, but do not override the zinc-centered theme. Overall, the proteins are best described as zinc transport and homeostasis related.","confidence":"High","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006831","count":3},{"id":"GO:0010312","count":3},{"id":"GO:0044749","count":3},{"id":"GO:0070574","count":3},{"id":"GO:0034224","count":3}]},{"hash":"580008438148172258","title":"Nitrogen transport and filamentous growth under nutrient limitation","description":"The cluster is driven by nitrogen handling terms\u2014ammonium transmembrane transport, transepithelial ammonium transport, methylammonium transport, nitrogen utilization, and regulation of nitrogen utilization\u2014suggesting a core theme of nitrogen metabolism. In parallel, there are GO terms for nutrient-stress\u2013induced morphological changes, such as pseudohyphal growth and invasive growth in response to glucose limitation, indicating a coordinated growth adaptation under scarcity. While a couple of terms (carbon dioxide transport, iron ion homeostasis) are present, they appear less central to the cluster\u2019s main theme. Overall, the label captures both nitrogen transport/utilization and stress-induced filamentous growth seen in nutrient-limited conditions.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015670","count":3},{"id":"GO:0070634","count":3},{"id":"GO:0001403","count":3},{"id":"GO:0019740","count":3},{"id":"GO:0007124","count":3}]},{"hash":"551953383075185417","title":"Proteoglycans in cardiovascular and hematopoietic biology","description":"The top GO terms center on dermatan sulfate proteoglycan metabolic processes and related extracellular matrix activities, with signals for heart rate regulation and megakaryocyte development, suggesting a proteoglycan/ECM\u2013driven theme linking cardiovascular and blood cell biology; immune-related terms appear less central.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001181","count":2},{"id":"GO:0046716","count":2},{"id":"GO:0045217","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0035855","count":2}]},{"hash":"1616271816416878227","title":"Unknown","description":"The top GO terms are highly diverse, including spindle assembly (mitosis), mRNA processing, various cell adhesion and immune-related activities, platelet activation, and lipid metabolism regulation. There is no single coherent biological theme linking these terms across the 27 proteins, suggesting the cluster does not reflect a specific unified function. Therefore, label as Unknown with no confidence.","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051225","count":2},{"id":"GO:0048265","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0034392","count":1},{"id":"GO:0007157","count":1}]},{"hash":"145400595057648608","title":"Developmental signaling and neural migration","description":"The top GO terms point to broad developmental signaling (KIT pathway, ERK/PI3K cascades), cell adhesion, and neural/sensory development processes (neuron migration, axon guidance, auditory receptor development, kidney development). While heterogeneous, these terms together suggest a theme of signaling-driven development and organization across neural and sensory tissues, rather than a single enzymatic or functional module.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0090197","count":5},{"id":"GO:0038109","count":4},{"id":"GO:0010863","count":4},{"id":"GO:0007155","count":4},{"id":"GO:0001822","count":4}]},{"hash":"1525661769435090252","title":"Thermogenesis and Temperature-Dependent Signaling","description":"The highest-frequency GO terms point to temperature-related biology: diet-induced thermogenesis and cellular responses to temperature stimulus, with sensory perception of pain frequently co-occurring, suggesting a shared function in temperature-driven metabolic signaling. Downstream signals such as calcium release and ERK cascade regulation reinforce a signaling theme in response to thermal or stress cues. Some terms (viral release, chloride transport) are less central but do not override the main thermogenic signaling pattern.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":19},{"id":"GO:0071502","count":19},{"id":"GO:0019233","count":19},{"id":"GO:0051209","count":17},{"id":"GO:0030321","count":16}]},{"hash":"774395852472260440","title":"Retroviral integration and latency","description":"This cluster centers on retroviral life-cycle processes: entry into the host cell and nucleus, reverse transcription (RNA-templated DNA synthesis), and integration into the host genome with establishment of proviral latency, supported by GO terms for DNA integration, DNA recombination, and DNA replication/repair, plus proviral latency and viral entry activities.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":5},{"id":"GO:0006310","count":5},{"id":"GO:0039651","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0006278","count":4}]},{"hash":"1352358612804889443","title":"Neuronal signaling and synaptic plasticity","description":"The top GO terms cluster around neuronal communication and synaptic modulation, including intracellular signal transduction, cGMP biosynthesis, regulation of short-term and long-term synaptic plasticity, receptor internalization, and behavioral readouts like startle response and rhythmic excitation. While a couple terms (e.g., anterior lateral line development, propylene metabolic process) may reflect annotation noise or species-specific roles, the dominant theme is neuronal signaling and plasticity.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006182","count":4},{"id":"GO:0060292","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0048899","count":4},{"id":"GO:0031623","count":4}]},{"hash":"811641363848407483","title":"Developmental gene regulation and organ morphogenesis","description":"This cluster shows enrichment for DNA-templated transcription and multiple tissue-development terms (bone, heart, lung connective tissue, nipple morphogenesis), indicating a general role in developmental gene regulation and organ formation. Additional terms like regulation of Rho signaling and endocytic recycling reflect cell behavior changes that accompany morphogenesis.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0060348","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0060658","count":2}]},{"hash":"1358443987272436201","title":"Adaptive immune signaling and cell migration","description":"The top GO terms cluster around adaptive immune processes (adaptive immune response; B cell receptor signaling; IL-2 production) and cytoskeletal/migration regulation (Rho signaling, cell migration). Additional terms reference development (heart, dendrite) but appear less central. Overall, the proteins seem to participate in immune cell activation and movement, justifying a label focused on immune signaling and mobility.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0035023","count":2},{"id":"GO:2000009","count":2},{"id":"GO:0016358","count":2},{"id":"GO:0050853","count":2}]},{"hash":"2259739241519486677","title":"Retroviral integration and proviral latency","description":"This cluster is dominated by GO terms for DNA recombination, DNA integration, RNA-templated DNA biosynthesis, and proviral latency, pointing to retroviral genome integration and reverse transcription, with the explicit label of proviral latency. The presence of host-entry and apoptosis-related terms further supports infection-related host interactions, making the retroviral integration/latency theme a coherent explanation.","confidence":"High","size":26,"edges":3,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":20},{"id":"GO:0015074","count":17},{"id":"GO:0006278","count":17},{"id":"GO:0006260","count":17},{"id":"GO:0075713","count":17}]},{"hash":"1348401125594244468","title":"DNA replication and cell cycle regulation with chromatin silencing","description":"The top GO terms cluster around DNA replication (DNA replication, DNA strand elongation, regulation of DNA-templated DNA replication initiation, mitotic DNA replication initiation) and cell cycle control, along with chromatin-related processes (silent mating-type cassette heterochromatin formation, negative regulation of transcription by RNA polymerase II). There are also signals for growth/proliferation regulation (root meristem growth, regulation of cell population proliferation). This suggests a cohesive theme of coordinating replication with chromatin state and cell division.","confidence":"Medium","size":26,"edges":14,"triangles":3,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030466","count":8},{"id":"GO:0000122","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0030174","count":5},{"id":"GO:0007307","count":5}]},{"hash":"941092772124192075","title":"Hippo-Wnt Signaling in Development","description":"Top GO terms cluster around Hippo signaling and positive regulation of canonical Wnt signaling, with keratinocyte differentiation and embryonic cranial skeleton morphogenesis also prominent. This suggests a cohesive group of proteins that modulate growth, proliferation, and differentiation during development, particularly in epidermal/craniofacial contexts, with supporting roles in DNA replication and cell cycle regulation.","confidence":"High","size":26,"edges":46,"triangles":21,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035329","count":19},{"id":"GO:0090263","count":19},{"id":"GO:0030216","count":19},{"id":"GO:0006915","count":19},{"id":"GO:0060044","count":19}]},{"hash":"1512105834141223552","title":"Calcium signaling and secretory regulation","description":"The terms center on Ca2+ dynamics (Ca2+ release into cytosol), secretion (vasopressin), and immune/ signaling processes (chemokine production, Wnt signaling), along with stress-related responses (heat) and proteostasis (proteasome assembly). This points to a broad theme of signaling and secretory regulation with Ca2+-dependent control as a common thread.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0051209","count":6},{"id":"GO:0044707","count":5},{"id":"GO:0090501","count":5},{"id":"GO:0046475","count":5},{"id":"GO:0070213","count":5}]},{"hash":"204924713014800174","title":"Unknown","description":"The top GO terms are highly heterogeneous, including bacterial biosynthetic processes (lipoteichoic acid, choline biosynthesis), basic cellular processes (mRNA processing), and vertebrate development/signaling (CNS development, chondrocyte development, GDNF receptor signaling, FGFR signaling), plus smooth muscle contraction. With no interactions (Edges 0, Triangles 0) and only a few proteins re-added, there is no clear shared function linking these proteins. Therefore a coherent, specific label cannot be assigned.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0042425","count":2},{"id":"GO:0070395","count":2},{"id":"GO:0060686","count":2},{"id":"GO:0014846","count":2}]},{"hash":"20887822303735498","title":"Neurocardiac Development and Morphogenesis","description":"This cluster is driven by GO terms related to nervous system development (peripheral myelination, retina layer formation, axonogenesis, synaptic vesicle endocytosis) and heart development, with additional signals tied to growth regulation and developmental patterning (e.g., left/right symmetry, protein kinase activity regulation). The mix suggests a group of proteins involved in broad organogenesis with emphasis on neural and cardiac tissues rather than a single, cohesive pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0022011","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0006469","count":4},{"id":"GO:0014898","count":3},{"id":"GO:1900242","count":3}]},{"hash":"478464482220400201","title":"Embryogenesis and organogenesis","description":"This cluster shows GO terms spanning primitive streak formation, various organ development (roof of mouth, pituitary, digestive tract, outflow tract, ureteric bud), neural development (peripheral nervous system, telencephalon regionalization), and broad transcription regulation. The common thread is involvement in embryonic development and the formation of multiple organs, rather than a single, specific pathway. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0090009","count":8},{"id":"GO:0060021","count":7},{"id":"GO:0048935","count":7},{"id":"GO:0021983","count":7}]},{"hash":"1116959302203649502","title":"Vertebrate eye and neural development","description":"In this cluster, the top GO terms cluster around eye morphogenesis and retina development (camera-type eye development, embryonic eye morphogenesis, retina development) as well as neural patterning and brain segmentation (rhombomere development, brain segmentation, regulation involving nervous system processes). While transcriptional regulation terms are present, the strongest, most specific signals are developmental programs for the eye and nervous system, suggesting these proteins participate in vertebrate eye and neural morphogenesis.","confidence":"High","size":26,"edges":314,"triangles":2344,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0060441","count":12},{"id":"GO:0060041","count":12},{"id":"GO:0002087","count":12},{"id":"GO:0002076","count":12}]},{"hash":"1027908361993066165","title":"Cell envelope biosynthesis and antibiotic response","description":"This cluster is enriched for biosynthetic processes tied to the cell envelope, including lipopolysaccharide and lipoteichoic acid synthesis, along with processes related to antibiotics (antibiotic biosynthetic process and response to antibiotic), suggesting a core theme around envelope construction and antibiotic interactions. While other biosynthetic terms (e.g., serine biosynthesis, poly-hydroxybutyrate) appear, the envelope-related terms dominate the functional signal.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009103","count":7},{"id":"GO:0009718","count":6},{"id":"GO:0055114","count":6},{"id":"GO:0006564","count":5},{"id":"GO:0070395","count":5}]},{"hash":"72398886427594385","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0036265","count":6},{"id":"GO:0042273","count":6},{"id":"GO:0042254","count":6},{"id":"GO:0000724","count":5},{"id":"GO:0050731","count":5}]},{"hash":"274087779452316410","title":"Membrane Transport of Ions and Metabolites","description":"The top GO terms indicate transmembrane transport for a variety of substrates, including ions (potassium, ammonium, rubidium), amino acids (methionine, leucine), neurotransmitter (GABA), xenobiotics, polyamines, and carnitine, all pointing to diverse substrate transport across membranes and contributing to cell volume homeostasis. This cohesive theme supports labeling the cluster as membrane transporters handling multiple substrates.","confidence":"High","size":26,"edges":69,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0044690","count":3},{"id":"GO:0015812","count":3},{"id":"GO:0006884","count":3}]},{"hash":"956763135335817440","title":"Developmental Growth Factor Signaling","description":"This cluster is dominated by GO terms tied to signaling pathways that drive development and morphogenesis, including FGFR signaling involved in brain development, insulin receptor signaling, and Kit signaling, plus placenta and bronchus morphogenesis. The overlap across proteins suggests a cohesive theme of developmental signaling, with a few outliers related to cell cycle regulation that are less representative of the main theme. ","confidence":"Medium","size":26,"edges":172,"triangles":485,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010696","count":26},{"id":"GO:0035607","count":26},{"id":"GO:0008286","count":26},{"id":"GO:0051436","count":26},{"id":"GO:0046827","count":26}]},{"hash":"1965645871435563022","title":"Developmental organogenesis genes","description":"This cluster groups proteins annotated with a range of developmental processes across multiple tissues (brain, inner ear, placenta, heart structures, gonad, etc.), indicating a broad role in embryonic development and organ formation rather than a single specific pathway. The presence of both tissue-specific developmental terms and general regulatory terms (e.g., transcriptional regulation) supports a cohesive theme of developmental biology.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0007338","count":5},{"id":"GO:0048839","count":5}]},{"hash":"6459311414329798","title":"Developmental transcriptional regulators","description":"This cluster\u2019s top GO terms center on development across multiple organs (heart, pituitary, spleen, palate, hypothalamus, AV node) and include a key term for negative regulation of transcription by RNA polymerase II, suggesting a set of transcriptional regulators governing developmental programs. The absence of strong network edges does not undermine a shared theme of transcriptional control in development.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0048536","count":6},{"id":"GO:0007507","count":6},{"id":"GO:0060021","count":6}]},{"hash":"709784061196047174","title":"Cell signaling and cytoskeletal remodeling","description":"The top GO terms cluster around signal transduction (Rho signaling, TGF-beta response, insulin receptor signaling, T cell receptor signaling, GM-CSF response) and actin cytoskeleton dynamics (lamellipodium assembly), with additional hints of transcription regulation and development downstream of these signals. This points to a general theme of signaling pathways that regulate cytoskeletal organization, rather than a single specific pathway.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0021510","count":3},{"id":"GO:0030032","count":3}]},{"hash":"222845915915387560","title":"Complement Activation and Vascular Development","description":"The cluster is dominated by immune-related GO terms for complement activation (classical and alternative pathways) and activation of the membrane attack complex, together with vascular development terms such as angiogenesis and venous endothelial cell differentiation, plus in utero embryonic development. This points to a theme where immune signaling (complement) intersects with vascular development, though there are additional developmental terms (cell cycle, adipocyte differentiation) that suggest a broader embryonic context. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0006957","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0001970","count":3}]},{"hash":"1845278129666959683","title":"Gi-coupled GPCR signaling and ERK activation","description":"The top GO terms point to serotonin- and dopamine-receptor signaling pathways that inhibit adenylate cyclase, coupled with downstream ERK1/2 activation and broad protein phosphorylation. This suggests a cohesive cluster centered on Gi/o-coupled GPCR signaling and its phosphorylation cascades, which also relate to hormone secretion and muscle-related processes (heart development, intestinal smooth muscle contraction). The presence of a viral-release term appears incidental noise rather than a defining theme. Overall, the cluster seems to reflect GPCR-mediated signaling and its downstream regulatory effects.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":20},{"id":"GO:0002882","count":20},{"id":"GO:0033861","count":20},{"id":"GO:0007198","count":20},{"id":"GO:0070374","count":20}]},{"hash":"895508039118000709","title":"Immune Activation and Cell Signaling","description":"Based on the top GO terms, the cluster is enriched for immune-related processes (complement activation pathways, activated T cell proliferation, responses to lipopolysaccharide and yeast) and for signaling and adhesion processes (ephrin receptor signaling, substrate adhesion-dependent cell spreading). Although there are some developmental or behavioral terms present, the strongest recurring themes are immune activation and cell signaling, which justifies the label.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":3},{"id":"GO:0001867","count":3},{"id":"GO:0050798","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0034446","count":3}]},{"hash":"1021935108870117387","title":"RNA Pol II Transcription Regulation and DNA Repair","description":"The cluster is dominated by GO terms tied to RNA Pol II\u2013mediated transcription and its regulation (DNA-templated transcription, negative regulation of transcription by RNA Pol II, regulation of RNA Pol II regulatory region binding), suggesting a core theme of transcriptional control. While there are a few unrelated terms (e.g., DNA repair and immune/viral processes), the transcription regulation signal is the strongest and most representative for the group.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0016197","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0000122","count":2}]},{"hash":"247899346111965386","title":"Neuronal synapse formation and adhesion","description":"The cluster is enriched for GO terms related to synapse development and organization (positive regulation of synapse assembly, neurotransmitter secretion, gephyrin clustering at postsynaptic density) as well as cell\u2013cell adhesion (homophilic and heterophilic). These together point to proteins involved in establishing and maintaining synapses, with axon guidance and developmental signaling providing context. Peripheral terms like bone maturation and vitamin K response are present but secondary. ","confidence":"High","size":26,"edges":4,"triangles":0,"max_degree":2,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0051965","count":8},{"id":"GO:0007156","count":5},{"id":"GO:0007157","count":5},{"id":"GO:0045880","count":5},{"id":"GO:0007269","count":4}]},{"hash":"1677306775293656326","title":"Cell adhesion and axon guidance","description":"The top GO terms cluster around cell-surface interactions and signaling that guide cellular positioning and connectivity: cell-matrix adhesion; receptor clustering; motor neuron axon guidance; neuron migration; axonogenesis; and neuronal connectivity-related terms. A few terms (lipoteichoic acid biosynthetic process and antibiotic biosynthetic process) are bacterial and outliers, but the dominant pattern points to adhesion and signaling at the cell surface shaping neural development and interactions. Therefore the label is Cell adhesion and axon guidance.","confidence":"Medium","size":26,"edges":17,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":6},{"id":"GO:0070395","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0070527","count":4},{"id":"GO:0048936","count":4}]},{"hash":"888173535633419903","title":"Oxidative detoxification and inflammatory signaling","description":"The top GO terms point to detoxification of oxidants and nitrogen compounds, along with immune/inflammatory regulation (IL-1\u03b2 production, leukocyte proliferation, prostaglandin biosynthesis) and signaling modulation (ERK cascade). These converge on redox-homeostasis and inflammatory pathways, with DNA damage repair (nucleotide-excision repair) likely reflecting oxidative stress effects, supporting a cohesive theme of oxidative stress response linked to immune signaling.","confidence":"Medium","size":26,"edges":137,"triangles":413,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":11},{"id":"GO:0071364","count":8},{"id":"GO:0070664","count":7},{"id":"GO:0006289","count":7},{"id":"GO:0070373","count":7}]},{"hash":"1242510625467871675","title":"Neuronal development and synaptogenesis","description":"The cluster shows a clear enrichment for neural development and synapse-related processes, including positive regulation of synapse assembly, dendritic spine development, ephrin signaling, and brain structure formation (corpus callosum, eye morphogenesis). While a few terms are more general or less directly neural, the dominant theme points to neuronal differentiation, connectivity, and synaptic maturation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0071300","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0022038","count":4},{"id":"GO:0048593","count":4}]},{"hash":"231293423142395187","title":"Neural development and synapse formation","description":"The top GO terms cluster around neural development and connectivity (optic nerve morphogenesis, retinal ganglion cell axon guidance, CNS projection neuron axonogenesis, corpus callosum development, dendritic spine morphogenesis, and positive regulation of synapse assembly), indicating a neural development/synapse formation theme. A few terms pertain to lysosomal activity and DNA replication, but the neural development signal is dominant.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001845","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0072428","count":3},{"id":"GO:0060997","count":2},{"id":"GO:0022038","count":2}]},{"hash":"2112205712926998041","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2}]},{"hash":"24811001104314878","title":"Proviral Integration and Latency","description":"Based on the prominent GO terms, the cluster centers on DNA-level events typical of viral genomes integrating into host DNA: DNA recombination, DNA integration, RNA-templated DNA biosynthetic process, and DNA replication. The explicit term establishment of integrated proviral latency reinforces a retroviral latency life cycle. The additional terms describing viral penetration into the host nucleus and symbiont entry into host cells further support a virus\u2013host interaction scenario consistent with proviral integration and latency.","confidence":"High","size":25,"edges":30,"triangles":5,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":20},{"id":"GO:0015074","count":19},{"id":"GO:0006278","count":19},{"id":"GO:0075713","count":19},{"id":"GO:0039651","count":19}]},{"hash":"1627652281700984749","title":"Ribosome Biogenesis and Translation Machinery","description":"This cluster is dominated by GO terms related to protein synthesis and ribosome assembly, including translation, cytoplasmic translation, ribosome biogenesis, and tRNA modification, plus export of the large ribosomal subunit. While there are some cell-cycle signals, the core theme is the ribosome/translational apparatus functioning and maturation.","confidence":"High","size":25,"edges":6,"triangles":0,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0042254","count":6},{"id":"GO:0007049","count":4},{"id":"GO:1901001","count":3},{"id":"GO:0051301","count":3}]},{"hash":"490157726679370793","title":"PNS Myelination and Neural Differentiation","description":"The GO terms strongly point to Schwann cell\u2013mediated myelination in the peripheral nervous system and neuron differentiation, suggesting a neural-developmental cluster. Additional signals (GTPase activity and Ras/Rho pathway regulation) and protein complex stability support cytoskeletal remodeling and signaling during differentiation; a few terms like xenobiotic response and DNA replication may reflect proliferative or stress-related states in related progenitor cells.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0022011","count":4},{"id":"GO:0035690","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0030182","count":3},{"id":"GO:0043547","count":3}]},{"hash":"1081729242256714002","title":"Retroviral integration and proviral latency","description":"The top terms strongly point to retroviral life cycle steps: DNA integration, reverse transcription (RNA-templated DNA biosynthetic process), DNA recombination/transposition, DNA repair, and especially establishment of integrated proviral latency and viral entry into the host nucleus. Some terms about symbiont interactions reflect host-pathogen interactions but do not override the retroviral-focused theme. Confidence: High","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4}]},{"hash":"969024870506543809","title":"Cardiomyocyte signaling and heart morphogenesis","description":"This cluster centers on cardiac-specific processes: signaling between Purkinje and ventricular cardiomyocytes, regulation of SA node action potentials, left ventricular morphogenesis, and calcium handling in the sarcoplasmic reticulum, plus hypertrophy signaling in response to stress. While there are a few non-cardiac terms present, the dominant GO terms point to heart development, electrophysiology, and cardiomyocyte signaling, justifying a label focused on cardiac muscle function and morphogenesis.","confidence":"High","size":25,"edges":109,"triangles":232,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1903244","count":15},{"id":"GO:0086029","count":11},{"id":"GO:0003220","count":11},{"id":"GO:0043931","count":11},{"id":"GO:0003151","count":11}]},{"hash":"1895646374960836583","title":"Regulation of cell cycle, growth, and migration","description":"This cluster centers on controlling proliferation and death (cell cycle regulation, negative proliferation, apoptosis), signaling (GTPase activity), and movement/development (cell migration, limb morphogenesis, renal development), with a note on nuclear import. The convergence of these terms suggests a cohesive role in coordinating growth, division, and migration during development and tissue remodeling.","confidence":"Medium","size":25,"edges":50,"triangles":36,"max_degree":11,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":12},{"id":"GO:0090090","count":10},{"id":"GO:0006607","count":10},{"id":"GO:0007050","count":10},{"id":"GO:0043065","count":10}]},{"hash":"354446572792049650","title":"Signaling Pathways and Differentiation","description":"The terms point to involvement in multiple signaling networks (Hippo, Wnt, insulin, integrin) that regulate growth, differentiation, and survival, along with processes like keratinocyte differentiation and branching morphogenesis. Apoptosis and synaptic modulation appear as downstream or contextual processes, and potassium transport adds a physiological layer. The cluster seems to reflect a general signaling-differentiation program rather than a single, cohesive function, hence a broad \u201cSignaling Pathways and Differentiation\u201d label with moderate confidence.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006813","count":15},{"id":"GO:0060044","count":14},{"id":"GO:0035329","count":14},{"id":"GO:0030216","count":14},{"id":"GO:0006915","count":14}]},{"hash":"1363805658859619398","title":"Heart and Muscle Development Signaling","description":"The cluster is dominated by heart development, myoblast fusion, and angiogenesis, with accompanying signaling and trafficking terms (Rho signaling, protein phosphorylation/dephosphorylation, and Golgi-to-lysosome transport). This points to a coordinated program governing cardiovascular and skeletal muscle development, underpinned by signaling networks and vesicular trafficking.","confidence":"Medium","size":25,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0014850","count":4},{"id":"GO:0006470","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0060291","count":3}]},{"hash":"300736422303329429","title":"Ubiquitin-Proteasome Regulation and Protein Quality Control","description":"This cluster is dominated by terms tied to ubiquitin-related modification and processing (deubiquitination, sumoylation, ERAD), along with protein quality-control pathways (aggrephagy, deglycosylation, unfolded protein maintenance). The convergence on ubiquitin-dependent degradation and autophagic clearance suggests a cohesive theme around protein homeostasis and turnover, with some regulation of trafficking/signaling processes that intersect these pathways.","confidence":"High","size":25,"edges":279,"triangles":1868,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":10},{"id":"GO:0034140","count":8},{"id":"GO:0030433","count":8},{"id":"GO:0016925","count":8},{"id":"GO:1900186","count":7}]},{"hash":"1752685650826757515","title":"Neural ER-Golgi vesicle transport","description":"In this cluster, the dominant GO terms describe vesicle transport between the ER, Golgi, and plasma membrane, including retrograde Golgi-to-ER transport and intracellular protein transport, indicating a cohesive endomembrane trafficking function. The presence of brain and nervous system development terms (brain development, substantia nigra development, nervous system development) suggests these trafficking proteins play roles in neural development or neuron-specific secretion.","confidence":"Medium","size":25,"edges":32,"triangles":0,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0043001","count":6},{"id":"GO:0090316","count":6},{"id":"GO:0007420","count":5},{"id":"GO:0032869","count":5}]},{"hash":"729618822835411340","title":"Unknown","description":"Unknown","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0006468","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0051017","count":2}]},{"hash":"788795985998590340","title":"RNA processing and translation control","description":"The top terms cluster around mRNA maturation (splicing, export, poly(A) tail regulation) and regulation of translation (preinitiation complex formation, translational initiation, miRNA-mediated silencing), with related ribosome biogenesis processes such as small-subunit export and processome assembly, indicating a coherent theme of RNA processing coupled to translational regulation.","confidence":"High","size":25,"edges":143,"triangles":362,"max_degree":22,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":12},{"id":"GO:0001731","count":11},{"id":"GO:0006406","count":11},{"id":"GO:0006446","count":11},{"id":"GO:0010738","count":11}]},{"hash":"1214139976007048885","title":"Developmental Morphogenesis and Tissue Remodeling","description":"The cluster is dominated by terms related to developmental morphogenesis and tissue remodeling, including decidualization, lung epithelial tube branching, basement membrane disassembly, and bone resorption, with supporting signals from Wnt pathway involvement and neural precursor proliferation. While a few terms touch immune or hormonal responses, the strongest common theme is tissue remodeling during organ development and differentiation. ","confidence":"Medium","size":25,"edges":294,"triangles":2165,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0046697","count":25},{"id":"GO:0010813","count":25},{"id":"GO:0035593","count":25},{"id":"GO:0060448","count":25},{"id":"GO:0001913","count":25}]},{"hash":"153898282504476455","title":"Unknown","description":"This cluster shows a mix of GO terms across development, exocytosis, cell cycle, RNA processing, and miscellaneous metabolic/maintenance processes, with no clear, dominant shared function. Because the terms do not point to a single cohesive biological theme, a specific label cannot be confidently assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014032","count":2},{"id":"GO:0006887","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0072670","count":1}]},{"hash":"773327345536962538","title":"Oxidative stress detoxification and toxin response","description":"Dominant GO terms point to cellular oxidant detoxification and response to toxic substances, indicating a core function in managing oxidative stress and toxin exposure. Other terms (lipid catabolism, biotin biosynthesis, plant shoot formation) are present but appear less central to the main detox/oxidative defense theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0098869","count":4},{"id":"GO:0009636","count":4},{"id":"GO:0010223","count":3},{"id":"GO:0046839","count":3}]},{"hash":"1730225160415960095","title":"Unknown","description":"The GO terms span highly diverse processes (cell proliferation, retina development, GTPase regulation, thermogenesis, temperature response, pain perception, viral release, and inflammatory regulation), with no clear unifying function across the cluster. This suggests functional heterogeneity or annotation noise, so an Unknown label is appropriate.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0060041","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0002024","count":4}]},{"hash":"945109083195033223","title":"Tissue remodeling and morphogenesis","description":"These terms cluster around tissue remodeling and morphogenesis across contexts (lung development, decidualization, bone resorption, basement membrane remodeling), with supporting signals from immune and endocrine pathways and peptide catabolism. The common thread is structural shaping of tissues rather than a single pathway.","confidence":"Medium","size":25,"edges":263,"triangles":1588,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0001913","count":25},{"id":"GO:2000179","count":25},{"id":"GO:0050790","count":25},{"id":"GO:0060441","count":25},{"id":"GO:0046697","count":25}]},{"hash":"1837493955185931142","title":"Cell Cycle and Developmental Signaling","description":"Top terms indicate strong involvement in mitotic cell cycle and DNA replication, plus numerous signaling and development-related processes (NF-kappaB-related regulation, B cell receptor signaling, serine/threonine kinase signaling, morphogenesis, corpus callosum development, and angiogenesis). This points to a cohesive theme of proliferation coupled with developmental signaling and immune-related pathways, justifying a label around cell-cycle/developmental signaling rather than a single narrow function.","confidence":"Medium","size":25,"edges":10,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":25},{"id":"GO:0006260","count":24},{"id":"GO:0000902","count":24},{"id":"GO:0051092","count":24},{"id":"GO:0022038","count":24}]},{"hash":"2011995643809273562","title":"Cardiovascular GPCR\u2013Prostaglandin Signaling and Platelet Activation","description":"The cluster shows a pattern of cardiovascular-related signaling: prostaglandin stimulus response, positive regulation of vasoconstriction, GPCR internalization, and regulation of integrin activation with platelet activation. This points to GPCR-driven pathways that govern vascular tone and platelet functions, with heart development also aligning to cardiovascular context. Xenobiotic transport and T cell death terms are less central, but do not override the dominant cardiovascular signaling theme.","confidence":"Medium","size":25,"edges":34,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0071380","count":2}]},{"hash":"1758204358464375384","title":"Immune Inflammation and Apoptotic Signaling","description":"The top GO terms point to immune and inflammatory processes (LPS response, inflammatory response, IL-6 regulation, immunoglobulin production) and apoptotic signaling (TRAIL pathway, activation-induced T cell death), suggesting a cluster of proteins involved in immune activation, inflammation control, and immune cell apoptosis rather than a single enzymatic function. The lack of edges indicates the cluster is defined by shared annotations rather than direct interactions.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0048148","count":3},{"id":"GO:0032675","count":3},{"id":"GO:0006924","count":3}]},{"hash":"747286580491706016","title":"Plant metabolism and development","description":"The GO terms point to plant-specific processes such as chlorophyll catabolic process and secondary shoot formation, alongside various metabolic activities (lipid turnover, biotin biosynthesis, post-translational modification). This suggests a broad, plant-centered cluster tied to general metabolism and developmental regulation rather than a single precise pathway, yielding a moderate level of confidence.","confidence":"Medium","size":25,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0010223","count":3},{"id":"GO:0046839","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0006660","count":3}]},{"hash":"1734808027084052946","title":"Thermogenic and Inflammatory Signaling in Heart","description":"The top GO terms cluster around temperature and thermogenesis, cellular temperature response, inflammatory signaling, ERK cascade, and heart development, suggesting a module of temperature- and inflammation-responsive signaling with cardiovascular relevance; although terms like viral release and pain perception appear, the core pattern points to temperature-driven signaling linked to inflammation and heart-associated signaling pathways.","confidence":"Medium","size":25,"edges":13,"triangles":1,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":12},{"id":"GO:0071502","count":12},{"id":"GO:0019233","count":12},{"id":"GO:0019076","count":11},{"id":"GO:0002882","count":11}]},{"hash":"1496924451766433324","title":"Clathrin-mediated endocytosis and GPCR trafficking","description":"The top GO terms point to clathrin-dependent endocytosis and GPCR internalization, plus signaling and cytoskeletal regulation linked to receptor trafficking (Rho signaling, thrombin receptor signaling). This suggests the cluster groups proteins involved in endocytic uptake and downstream receptor-mediated signaling, especially GPCR pathways, with some broader developmental annotations likely reflecting multifunctional proteins.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0072583","count":5},{"id":"GO:0002031","count":5},{"id":"GO:0035023","count":4},{"id":"GO:0070493","count":4},{"id":"GO:0001865","count":3}]},{"hash":"1569298078094214218","title":"Unknown","description":"The top GO terms are highly mixed, including RNA processing/repair and translation-related processes alongside sterol biosynthesis, renin secretion, and protein tetramerization, with no single functional theme dominating. This lack of a cohesive function suggests the cluster cannot be confidently labeled with a specific biological role.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0051262","count":2},{"id":"GO:0016126","count":2},{"id":"GO:0030259","count":2},{"id":"GO:0043087","count":2}]},{"hash":"175928180216028142","title":"Unknown","description":"The GO terms are spread across highly distinct biological areas (DNA replication and radiation response; metabolism; transport; neural/myelin and cardiac functions; behavior; immunity; phosphorylation; intestinal sterol regulation), with no clear common function or pathway linking the proteins. This broad, disjoint set provides no coherent theme for a specific label beyond Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0010332","count":2},{"id":"GO:0019634","count":1},{"id":"GO:0015886","count":1},{"id":"GO:0035750","count":1}]},{"hash":"648020843767252547","title":"GPCR signaling and calcium-mediated secretion","description":"The top terms point to GPCR-driven signaling and calcium mobilization (including vasopressin secretion and calcium release into the cytosol), all indicative of a signaling axis that controls secretion and cell movement in multicellular context. Some terms are obsolete, but the remaining non-obsolete terms converge on a GPCR-calcium secretion theme, with auxiliary hints toward membrane signaling and cell-cycle regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001275","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0044707","count":2}]},{"hash":"1933979521628910823","title":"Retroviral Integration and Latency","description":"These terms cluster around the retroviral life cycle: reverse transcription (RNA-templated DNA synthesis), DNA replication/recombination, and integration into the host genome, plus establishment of proviral latency and entry into the host nucleus. The presence of host-symbiont interaction terms and RNAi modulation hints at virus\u2013host interactions that affect apoptosis and defense. Taken together, the dominant theme is proviral integration and latent infection, justifying the label.","confidence":"High","size":24,"edges":276,"triangles":2024,"max_degree":23,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":21},{"id":"GO:0006260","count":21},{"id":"GO:0015074","count":20},{"id":"GO:0006278","count":20},{"id":"GO:0075713","count":20}]},{"hash":"120554658102860790","title":"Retroviral Genome Integration and Latency","description":"Based on the top GO terms, the cluster centers on DNA recombination, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), and DNA replication, along with explicit retroviral processes such as proviral latency establishment and viral entry into the host nucleus. This points to steps in the retroviral life cycle (entry, reverse transcription, genome integration, replication) and related host\u2013virus interactions. Some terms about symbiont entry and host apoptosis reflect broader host\u2013microbe interactions but do not outweigh the retroviral theme.","confidence":"High","size":24,"edges":6,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":24},{"id":"GO:0015074","count":22},{"id":"GO:0006278","count":22},{"id":"GO:0006260","count":22},{"id":"GO:0075713","count":22}]},{"hash":"1329127162813499967","title":"Retroviral DNA Integration and Transposition","description":"The top GO terms cluster around DNA integration, recombination, and replication, plus RNA-templated DNA synthesis, and transposition, with specific notes on integrated proviral latency and viral entry into the host nucleus. This pattern strongly suggests proteins involved in retroviral genome integration and transposon-type DNA movement within the host genome, including proviral latency mechanisms, rather than generic DNA replication. Confidence: High","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":14},{"id":"GO:0006310","count":14},{"id":"GO:0006260","count":14},{"id":"GO:0075713","count":14},{"id":"GO:0039651","count":14}]},{"hash":"122820641202823400","title":"Proliferation and Signaling Regulation","description":"The most represented terms center on mitotic cell cycle and positive regulation of cell proliferation, complemented by broad kinase signaling activities (autophosphorylation, serine/threonine kinase activity, GTPase activity) and the Wnt/calcium signaling pathway. Additional terms point to stress responses (hypoxia, xenobiotic) and neural development (substantia nigra), suggesting a cluster of proteins that promote proliferation while regulating diverse signaling networks rather than a single pathway. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":13},{"id":"GO:0008284","count":11},{"id":"GO:0071456","count":10},{"id":"GO:0051028","count":10},{"id":"GO:0031954","count":10}]},{"hash":"77042849297543119","title":"Wnt/PCP signaling in development and cell adhesion","description":"The top GO terms point to Wnt planar cell polarity signaling, CNS development, angiogenesis, stem cell differentiation, and adherens junction organization, all indicating coordinated tissue development and remodeling. Ubiquitination and regulation of nuclear export, along with apoptosis regulation, suggest tight control of protein turnover and survival during these developmental processes, consistent with a cohesive developmental/adherence program driven by Wnt signaling and cell junction dynamics.","confidence":"High","size":24,"edges":20,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0043066","count":5},{"id":"GO:0016567","count":5},{"id":"GO:0046825","count":4},{"id":"GO:0048863","count":4},{"id":"GO:0035264","count":4}]},{"hash":"912643243042801412","title":"Vertebrate embryonic organogenesis","description":"The top GO terms cluster around embryonic development and organ morphogenesis across multiple tissues\u2014eye development, retinal neuron differentiation, neural tube patterning (floor plate, somitogenesis, oligodendrocyte fate), and organ formation (lung vasculature, epithelial tube branching). This suggests a broad developmental program driving early tissue patterning and organogenesis rather than a single specialized function.","confidence":"High","size":24,"edges":275,"triangles":2002,"max_degree":23,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0035470","count":7},{"id":"GO:0060441","count":7},{"id":"GO:0043010","count":7},{"id":"GO:0048048","count":7}]},{"hash":"520161810303101849","title":"Paranodal axon organization and synapse assembly","description":"The cluster is enriched for terms related to neuronal adhesion, axon domain organization (paranode/juxtaparanode), and synapse assembly, indicating roles in establishing neural connections and proper axonal compartmentalization. While a few terms reference immune activity and bone ossification, the strongest signals are about cell\u2013cell adhesion, paranodal junctions, and synaptogenesis.","confidence":"High","size":24,"edges":62,"triangles":43,"max_degree":19,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0007157","count":8},{"id":"GO:0051965","count":7},{"id":"GO:0006958","count":7},{"id":"GO:0001764","count":5},{"id":"GO:0048671","count":5}]},{"hash":"2131550820348096377","title":"Neurovascular signaling and remodeling","description":"The top GO terms point to nervous system development (innervation, myelination) and vascular morphogenesis (endothelial lumen extension), alongside regulation of several signaling pathways (calcineurin-NFAT, GTPase/Rho, insulin signaling). This suggests a cluster of proteins coordinating signaling and tissue remodeling in neurovascular development.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051531","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0046849","count":2}]},{"hash":"1645873629181729241","title":"Signal transduction and cytoskeletal remodeling","description":"The terms show regulation of signaling pathways (Rho, NF-kappaB, JNK, STAT) and processes tied to actin dynamics (filopodium assembly), suggesting a cluster centered on signal transduction that governs cytoskeletal remodeling. Additional terms point to broader cell fate and environmental response roles (extrinsic apoptosis, mechanical stimulus), but the coherent theme is signaling-driven regulation of cytoskeletal and cellular responses. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0042511","count":2},{"id":"GO:0007432","count":2},{"id":"GO:0007249","count":2}]},{"hash":"222232589125699878","title":"Unknown","description":"The GO terms are diverse and show little cohesive functional theme: heat response, bladder development, vasopressin secretion, cell growth, chemokine production, lipid metabolism, and general multicellular processes all appear without a single unifying function. The network shows no edges or triangles, suggesting weak or incidental associations. Because there isn't a clear, interpretable common function, this cluster is best labeled Unknown with no confidence in a specific biological role.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045736","count":3},{"id":"GO:0009408","count":3},{"id":"GO:0060157","count":3},{"id":"GO:0016049","count":3},{"id":"GO:0044707","count":2}]},{"hash":"1758687274262188470","title":"Inflammation and pain signaling with angiogenesis","description":"This cluster centers on inflammatory and nociceptive responses (response to pain, detection of mechanical stimulus for pain, response to cold, chemokine production) and also includes vascular remodeling (sprouting angiogenesis) and bone-related remodeling (ossification). Calcium signaling features in multiple terms, supporting a broad stress-responsive network rather than a single, narrow function. While not all terms map perfectly (e.g., vasopressin secretion), the dominant theme ties inflammation/pain signaling to angiogenesis and remodeling processes.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002040","count":4},{"id":"GO:0030103","count":3},{"id":"GO:0043931","count":3},{"id":"GO:2000340","count":3},{"id":"GO:0043149","count":3}]},{"hash":"1326102199074579310","title":"Dopaminergic Synaptic Vesicle Trafficking","description":"Most terms describe regulation of synaptic vesicle exocytosis/endocytosis and excitatory signaling, with substantia nigra development indicating dopaminergic neurons. While some terms (ERK signaling, Golgi localization, spermatid development, mitotic cycle) are broader or outliers, the dominant theme is synaptic vesicle dynamics in a dopaminergic neuronal context, so the name best fits.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035690","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0021762","count":5},{"id":"GO:1900242","count":5},{"id":"GO:0000278","count":5}]},{"hash":"1939645349518362250","title":"Placental and embryonic morphogenesis","description":"The top GO terms reflect developmental and morphogenetic processes across multiple embryonic tissues: placenta development (including placental morphogenesis and trophoblast differentiation), EMT in heart/cardiac cushion formation, left-right pattern formation, cartilage morphogenesis, and endocrine system development. This points to a cohesive theme of embryonic development and tissue morphogenesis rather than a single tissue pathway.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":8},{"id":"GO:0060806","count":8},{"id":"GO:0060707","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0003323","count":8}]},{"hash":"1827174009647445394","title":"Temperature and Pain Response","description":"Top GO terms are dominated by temperature-related processes (diet-induced thermogenesis, cellular response to temperature stimulus) and nociception (sensory perception of pain), suggesting the proteins collectively engage in environmental sensing and pain signaling. Although there are auxiliary terms related to proliferation, retinal development, GTPase regulation, membrane potential, viral release, and inflammatory regulation, the strongest signal centers on temperature/pain responsiveness, justifying the label. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":20},{"id":"GO:0071502","count":20},{"id":"GO:0019233","count":20},{"id":"GO:0008283","count":17},{"id":"GO:0008284","count":17}]},{"hash":"2283408756433150424","title":"Organ development and tissue differentiation","description":"The top GO terms cluster around organ and tissue formation (heart, skin, retina, and multicellular development) and regulation of cell proliferation, indicating morphogenesis and differentiation across multiple tissues; temperature-related terms may reflect environmental responsiveness but do not define a single function. ","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0002024","count":4},{"id":"GO:0071502","count":4},{"id":"GO:0019233","count":4}]},{"hash":"546613449071781919","title":"Unknown","description":"The top terms cover a wide and heterogeneous mix of processes (chlorophyll biosynthesis, photoreceptor organization, apoptosis signaling, transcription, stress responses, immune functions) with no clear shared function linking most members, so a single representative label isn\u2019t justifiable.","confidence":"","size":24,"edges":20,"triangles":1,"max_degree":8,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051291","count":6},{"id":"GO:0008630","count":4},{"id":"GO:0001041","count":4},{"id":"GO:1902325","count":4},{"id":"GO:0055059","count":4}]},{"hash":"372948936842432123","title":"Nuclear gene expression and genome maintenance","description":"Top terms cluster around transcription and translation, along with DNA replication, repair, and recombination, suggesting a nuclear gene-expression and genome-maintenance module; a few lipid biosynthesis terms appear tangentially but do not define the core function.","confidence":"High","size":24,"edges":272,"triangles":1940,"max_degree":23,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006310","count":2}]},{"hash":"361935917179219846","title":"Neural development and sensory perception","description":"The cluster is enriched for neuronal development and morphology terms (axonogenesis, axon extension, CNS projection neurons, dendritic spine morphogenesis) along with sensory functions (visual and auditory perception). These consistently point to neural growth and sensory processing as the shared theme, with supporting signals from intracellular pathways and neuron structure. ","confidence":"High","size":24,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":4},{"id":"GO:0035556","count":4},{"id":"GO:0021952","count":4},{"id":"GO:0048675","count":4},{"id":"GO:0007601","count":4}]},{"hash":"637207955924756275","title":"Unknown","description":"The top GO terms are highly diverse (vocalization behavior, platelet activation, epithelial junctions, complement activation, T cell regulation, embryonic development), with little overlap suggesting a cohesive function. The sparse edges (2) and lack of a unifying pathway indicate no single common theme among these proteins, so a generic Unknown label is most appropriate.","confidence":"","size":24,"edges":2,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0071625","count":13},{"id":"GO:0010572","count":12},{"id":"GO:0034392","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0051006","count":11}]},{"hash":"648552567150086775","title":"Cardiac and Eye Morphogenesis with Signaling","description":"The cluster centers on morphogenesis of heart structures (venous endothelial differentiation, right atrium morphogenesis) and eye development (camera-type eye morphogenesis), with signaling pathways like Notch and Hedgehog (Smoothened) highlighted, indicating a coherent theme of developmental patterning and organ formation. Some terms are broader or peripheral, but the core theme is embryonic development.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060843","count":4},{"id":"GO:0003270","count":4},{"id":"GO:0003213","count":4},{"id":"GO:0045880","count":3},{"id":"GO:0048593","count":3}]},{"hash":"795584180028973212","title":"Embryonic development and organogenesis","description":"The top GO terms point to broad embryonic development and subsequent organ formation: gastrulation (primitive streak formation); neural development (PNS, cerebellar signaling, hypothalamus differentiation, olfactory placode); craniofacial development (roof of mouth); and heart development (atrioventricular node). The mix suggests a gene cluster involved in coordinating early tissue patterning across germ layers, rather than a single tissue type. The negative regulation of transcription by RNA Pol II hints at shared transcriptional control during these developmental programs.","confidence":"High","size":24,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0048935","count":10},{"id":"GO:0090009","count":10},{"id":"GO:0060021","count":9},{"id":"GO:0021937","count":8}]},{"hash":"1031866597380234919","title":"Unknown","description":"Unknown","confidence":"","size":24,"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:0006366","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000447","count":2}]},{"hash":"1288308208019331511","title":"Wnt signaling and adipocyte differentiation","description":"Based on the top GO terms, a core theme is Wnt signaling (GO:0016055) and fat cell differentiation (GO:0045444), with additional signals of intracellular signal transduction and multicellular organismal processes. This points to a cluster of proteins involved in regulating adipogenesis through Wnt pathway signaling, with broader roles in cellular signaling and tissue-level functions.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0044707","count":2},{"id":"GO:0045736","count":2}]},{"hash":"1840582707470640321","title":"Angiogenesis and coagulation regulation","description":"Based on the GO terms, the cluster centers on vascular processes: positive regulation of VEGF signaling, blood coagulation, and cell adhesion, all pointing to coordinated endothelial signaling, vessel formation, and coagulation control. Some terms (e.g., synapse assembly) appear tangential, but the dominant theme supports angiogenesis and coagulation regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0051918","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0014068","count":2}]},{"hash":"1674181184992986299","title":"Neural development and organogenesis","description":"The majority of top GO terms point to neural development (spinal cord development, axon guidance, neuron projection development), with several terms indicating broader organogenesis (heart and kidney development, metanephric collecting duct development). This mix suggests a cluster centered on developmental signaling affecting neural structures, with secondary involvement in organ formation. The mention of positive regulation of GTPase activity supports cytoskeletal remodeling relevant to neurite outgrowth. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0021510","count":3},{"id":"GO:0007411","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0031175","count":3}]},{"hash":"2261433653032241194","title":"Retroviral DNA Integration and Proviral Latency","description":"The cluster centers on processes involved in retroviral life cycles: DNA recombination, DNA replication, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), and specifically the establishment of integrated proviral latency, along with viral entry into the host nucleus. This combination points to retroviral genome integration and latent provirus maintenance as the core theme, despite some additional host\u2013symbiont interaction terms present. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":9},{"id":"GO:0006260","count":7},{"id":"GO:0015074","count":6},{"id":"GO:0006278","count":6},{"id":"GO:0075713","count":6}]},{"hash":"1494145766749432572","title":"Ubiquitin-Proteasome Mediated Proteolysis","description":"This cluster is dominated by GO terms for ubiquitination and proteasome-dependent protein degradation (e.g., ubiquitin-dependent proteolysis, SCF-dependent proteasomal ubiquitin\u2013protein catabolic processes, and protein polyubiquitination), indicating a primary function in targeted protein turnover. Additional terms point to circadian rhythm regulation and cell-cycle related checkpoints, suggesting broader temporal and cell-cycle regulation tied to proteostasis. Some terms about microtubules and neural development may reflect downstream or structural consequences of proteolytic control. Overall, the core theme is ubiquitin\u2011proteasome\u2013mediated proteolysis and its regulation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":12},{"id":"GO:0031146","count":10},{"id":"GO:0000209","count":10},{"id":"GO:1902916","count":9}]},{"hash":"352931441442223799","title":"Cell polarity and morphogenesis signaling","description":"The terms cluster around polarity and morphogenesis: Rho/GTPase signaling regulation, planar cell polarity and convergent extension, cytoskeletal/microvillus assembly, and developmentally oriented processes like cochlea morphogenesis and endothelial barrier formation. Together they point to polarity-driven cytoskeletal remodeling guiding tissue morphogenesis.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"programmed cell death","top_go_terms":[{"id":"GO:0019933","count":6},{"id":"GO:0035023","count":5},{"id":"GO:1904781","count":4},{"id":"GO:0090179","count":4},{"id":"GO:0022007","count":4}]},{"hash":"2127295211557264181","title":"Retroviral DNA Integration and Latency","description":"This cluster centers on DNA integration and reverse transcription\u2013related processes (RNA-templated DNA biosynthesis, DNA replication, DNA recombination) and the establishment of proviral latency, complemented by terms about viral entry into the host nucleus and host-symbiont interactions. The inclusion of negative regulation of siRNA processing suggests viral interference with host RNA silencing. Together, these terms point to a cohesive theme of retroviral-like genome integration and maintenance within host cells.","confidence":"High","size":23,"edges":241,"triangles":1545,"max_degree":22,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":22},{"id":"GO:0006278","count":22},{"id":"GO:0006310","count":22},{"id":"GO:0006260","count":22},{"id":"GO:0075713","count":22}]},{"hash":"508067877259245383","title":"Retroviral DNA Integration and Latency","description":"The top GO terms cluster around DNA recombination, replication, and integration, including RNA-templated DNA biosynthesis and establishment of integrated proviral latency, which are hallmark steps of retroviral life cycles. Additional terms refer to viral entry into the host nucleus and motifs of host\u2013pathogen interaction and RNA silencing suppression, suggesting these proteins participate in viral genome integration, latency maintenance, and subversion of host defenses. Overall, the cluster seems centered on retroviral DNA integration and proviral latency rather than generic DNA processing. ","confidence":"Medium","size":23,"edges":8,"triangles":0,"max_degree":3,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":16},{"id":"GO:0006260","count":14},{"id":"GO:0015074","count":14},{"id":"GO:0006278","count":14},{"id":"GO:0075713","count":14}]},{"hash":"981577707546680796","title":"Transcriptional Regulation and mRNA Stability","description":"The top GO terms are strongly centered on control of gene expression, with repeated references to regulation of DNA-templated transcription and regulation of mRNA stability, suggesting that the core function of this cluster is transcriptional control. The presence of other terms (immune signaling, viral processes, and metabolism of steroids/pigments) likely reflects multifunctionality or annotation breadth rather than a single cohesive theme, so the predominant signal remains transcriptional regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0010572","count":3},{"id":"GO:0002223","count":3},{"id":"GO:0014912","count":2},{"id":"GO:0043488","count":2}]},{"hash":"5176604671832721","title":"Diverse Membrane Transporters","description":"The top GO terms show transmembrane transport across a variety of substrates (potassium ions, sugars like arabinose and galactose, nitrite/nitrate, xenobiotics) and related processes such as neurotransmitter loading into synaptic vesicles, indicating a cluster enriched for transporter-related functions with broad substrate specificity rather than a single specific substrate. This supports labeling as diverse membrane transporters.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":7},{"id":"GO:1900754","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0006855","count":4},{"id":"GO:0015751","count":4}]},{"hash":"1283598066920414673","title":"Nucleocytoplasmic Transport and Ribosome Biogenesis","description":"GO terms point to proteins involved in importing nuclear-localization signal-bearing proteins, ribosomal protein import into the nucleus, and mRNA export, all hallmarks of nucleocytoplasmic transport and ribosome biogenesis. Translation is also represented, aligning with ribosome assembly and function, while DNA replication and other signals are supportive. Overall, the cluster appears centered on nucleus-to-cytoplasm trafficking and ribosome assembly processes, with some peripheral stress-related terms. ","confidence":"Medium","size":23,"edges":251,"triangles":1730,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0009411","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0006406","count":2}]},{"hash":"1643888546898402028","title":"Cerebellar neural development and insulin signaling","description":"The top GO terms point to cerebellar development (Bergmann glial differentiation, cerebellar cortex formation) and neural signaling, including insulin receptor signaling and axon regeneration, suggesting a cerebellum-centered neural development module. Some terms (kinetochore localization, CDK regulation, T cell signaling) are less related and likely peripheral, but do not override the dominant cerebellar-neural theme.","confidence":"Medium","size":23,"edges":200,"triangles":946,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008286","count":14},{"id":"GO:0060020","count":14},{"id":"GO:0021697","count":14},{"id":"GO:0008285","count":14},{"id":"GO:2001275","count":14}]},{"hash":"1848094588485956528","title":"Calcium-dependent signaling in heart and kidney development","description":"The cluster is dominated by calcium- and phosphorylation-related signaling terms, including protein phosphorylation/dephosphorylation and positive regulation of the calcineurin-NFAT cascade, along with heart and metanephric (kidney) development. Ion-channel organization and memory-related terms further align with calcium signaling roles in excitable cells and neurons, supporting a cohesive theme of calcium-dependent signal transduction guiding cardiac and renal development and related cellular regulation.","confidence":"High","size":23,"edges":69,"triangles":104,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006468","count":23},{"id":"GO:0007507","count":23},{"id":"GO:0090151","count":23},{"id":"GO:0045163","count":23},{"id":"GO:0007616","count":23}]},{"hash":"664229057330070997","title":"Phosphorylation-driven signaling regulation","description":"The top GO terms cluster around positive regulation of phosphorylation (tyrosine and serine/threonine), protein autophosphorylation, and regulation of GTPase activity, along with signaling responses (TGF-\u03b2, hypoxia). This points to a common theme: control of signaling pathways via phosphorylation and small GTPase regulation. Some terms (aging, ubiquitin-related ERAD) appear ancillary/noise, but the prevailing pattern supports a focus on kinase/phosphorylation-mediated signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":8},{"id":"GO:0007568","count":6},{"id":"GO:0071456","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0051028","count":5}]},{"hash":"824576327218155065","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":224,"triangles":1258,"max_degree":22,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001707","count":6},{"id":"GO:0070843","count":6},{"id":"GO:0097428","count":6},{"id":"GO:0031204","count":6},{"id":"GO:0071374","count":6}]},{"hash":"2243848607532585546","title":"Nuclear Import/Export and mRNA Transport","description":"This cluster is enriched for GO terms indicating movement of molecules into and out of the nucleus, including NLS-bearing protein import, ribosomal protein import into nucleus, mRNA export and general mRNA transport. While vesicle trafficking and GTPase regulation terms appear, the strongest signal is nuclear transport, so the name reflects that core function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0006406","count":4},{"id":"GO:0006610","count":3},{"id":"GO:0060188","count":3}]},{"hash":"591946042688277963","title":"Developmental Transcription Regulation & Chromatin Remodeling","description":"The cluster\u2019s top GO terms center on DNA-templated transcription, negative regulation of transcription by RNA polymerase II, and chromatin remodeling, all pointing to transcriptional control at the chromatin level. Additional developmental terms (endodermal fate, pancreas development, heart morphogenesis) suggest these proteins coordinate gene expression programs across multiple developmental lineages, rather than a single pathway. This combination supports a label focused on transcription regulation within developmental and epigenetic contexts.","confidence":"High","size":23,"edges":172,"triangles":667,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0000122","count":12},{"id":"GO:0043044","count":8},{"id":"GO:0045654","count":8},{"id":"GO:0060303","count":7}]},{"hash":"1192567719660028007","title":"Cell Cycle and Growth Signaling","description":"The cluster shows enrichment in mitotic cell cycle and cell proliferation terms, alongside GPCR-PLC signaling, protein homooligomerization, and ubiquitin-dependent proteolysis, suggesting a core theme of coordinating growth, division, and signaling with broader regulatory or stress-related contexts.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0007200","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0007584","count":3},{"id":"GO:0031146","count":3}]},{"hash":"2274309619509793612","title":"Central Carbon Metabolism and Amino Acid Biosynthesis","description":"Proteins here map strongly to core energy and building-block metabolism: glycolysis and the TCA cycle dominate, with several amino acid\u2013related paths (lysine, alanine, tyrosine, and kynurenine catabolism; lysine biosynthesis; heme biosynthesis) also present. This pattern points to a cluster of enzymes involved in energy production and amino acid turnover, with Notch signaling and cell wall organization likely representing secondary or broader annotations. ","confidence":"High","size":23,"edges":231,"triangles":1372,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006099","count":9},{"id":"GO:0019878","count":7},{"id":"GO:0006096","count":6},{"id":"GO:0033512","count":6},{"id":"GO:0042853","count":6}]},{"hash":"136685548402354446","title":"Methylation and Biosynthesis","description":"The top GO terms cluster around methylation and modification (RNA guanine-N7 methylation; tRNA wobble uridine modification; histone H4-R3 methylation; peptidyl-arginine hydroxylation) alongside biosynthetic processes (biotin, antibiotic, and vitamin E biosynthesis). This combination suggests a functional theme centered on chemical modification and small-molecule biosynthesis, with general cellular state terms like senescence and growth providing context but not defining the core function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009102","count":7},{"id":"GO:0017000","count":7},{"id":"GO:0090398","count":7},{"id":"GO:0036265","count":7},{"id":"GO:0002098","count":6}]},{"hash":"496237414643685245","title":"GPCR Signaling in Heart and Gut","description":"The top terms point to GPCR-mediated signaling, especially serotonin and dopamine receptor pathways that inhibit adenylate cyclase, along with ERK1/ERK2 cascade activation and protein phosphorylation. The presence of heart development and intestine smooth muscle contraction, plus hormone secretion, suggests a cohesive role in cardiovascular and gastrointestinal GPCR signaling and downstream responses. An outlier term (viral release) is unlikely to redefine the core theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":16},{"id":"GO:0002882","count":16},{"id":"GO:0033861","count":16},{"id":"GO:0007198","count":16},{"id":"GO:0070374","count":16}]},{"hash":"370993858486038411","title":"Unknown","description":"The top GO terms show a mix of innate immune and interferon-related processes (innate immune response, cellular response to type I interferon, dsRNA response) together with unrelated developmental terms (prostate gland development, male sex differentiation, steroid receptor assembly) and chlorophyll biosynthesis, and there are no edges connecting proteins. This suggests a heterogeneous set without a single cohesive function, so a precise label cannot be confidently assigned.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0050689","count":7},{"id":"GO:0008277","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0071357","count":7}]},{"hash":"2204280367486248936","title":"ER Stress and Inflammation Regulation","description":"The top GO terms center on endoplasmic reticulum stress pathways (ERAD with retrograde transport, unfolded protein response, ER overload, redox state) and also include regulation of key inflammatory mediators (IL-6, TNF) and nitric oxide signaling, indicating a cohesive theme of ER stress signaling linked to modulation of inflammatory responses.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030970","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0032715","count":1},{"id":"GO:0009749","count":1},{"id":"GO:0032720","count":1}]},{"hash":"1867086903246451579","title":"Transmembrane solute transport","description":"The GO terms cluster around transport across membranes for ions, organic cations/anions, and various sugars (xylose, arabinose, fructose), plus vesicle-related neurotransmitter loading. Stress-related terms (osmotic stress, glucose starvation) further point to transporter activity linked to nutrient uptake and homeostasis. Overall, a coherent theme is diverse transmembrane solute transport. ","confidence":"High","size":23,"edges":147,"triangles":381,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":22},{"id":"GO:0070715","count":22},{"id":"GO:0015707","count":22},{"id":"GO:0043252","count":22},{"id":"GO:0042149","count":22}]},{"hash":"1432238635268372589","title":"Unknown","description":"GO terms are spread across ubiquitination/deubiquitination, glycosylation (dolichol and GPI anchor), RNA export regulation, cell cycle control, circadian clock modification, and plant-specific processes like pollen tube guidance and chloroplast mRNA modification. There is no dominant function or pathway linking these proteins, and the network shows no interactions (Edges 0, Triangles 0). The diverse, seemingly unrelated functions make it hard to assign a concise, representative label beyond Unknown.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0006488","count":1},{"id":"GO:0010183","count":1},{"id":"GO:0006506","count":1},{"id":"GO:0046832","count":1}]},{"hash":"2155321108173069543","title":"Rho GTPase Signaling and Cardiovascular Regulation","description":"Reasoning: The terms cluster around positive regulation of GTPase activity and Rho/Rac signaling, along with heart development, vasoconstriction, GPCR internalization, and prostaglandin response, indicating a cohesive GTPase- and GPCR-mediated signaling theme affecting cardiovascular function (with some peripheral developmental signals).","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007289","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0035021","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1664443844169939632","title":"Neural development and synaptic signaling","description":"This cluster shows brain-related developmental terms (corpus callosum development, cerebellar granule cell differentiation, positive regulation of synapse assembly) and signaling components (intracellular signal transduction, receptor tyrosine kinase signaling) along with ubiquitination, suggesting a coordinated network governing neural differentiation and synapse formation. While there are a few broad developmental terms like nipple morphogenesis and lung connective tissue development, the neural development/synaptic signaling theme is most representative.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022038","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0060658","count":2},{"id":"GO:0016567","count":2}]},{"hash":"1829283416225868859","title":"Retina development and photoreception","description":"This cluster is best described by eye/retina biology, as the top GO terms include visual perception and retina vasculature development, pointing to retina development and photoreceptive functions. Additional terms on melanosome/lysosome trafficking and receptor internalization suggest cellular processes within retinal pigment cells and neurons. While some immune-related terms are present, the prominent retina-focused terms support a retina development and photoreception theme. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":2},{"id":"GO:0035646","count":1},{"id":"GO:0031623","count":1},{"id":"GO:0007166","count":1},{"id":"GO:0090528","count":1}]},{"hash":"1284631178919436095","title":"Immune Response and Development","description":"The top GO terms are dominated by immune-related processes (adaptive and innate immune responses, phagocytosis, NK T cell differentiation), indicating a core immune-function cluster. Additional terms point to developmental roles (bone and heart development) and related signaling, with some neuronal and myelin localization terms suggesting broader functionality. Taken together, the cluster seems centered on immune activity with overlapping developmental signaling, justifying the label.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0006909","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0044379","count":2}]},{"hash":"1137054614248577525","title":"Retroviral DNA integration and latency","description":"The top GO terms cluster around retroviral lifecycle processes: reverse transcription (RNA-templated DNA biosynthetic process), DNA integration, DNA recombination, and DNA replication, plus establishment of integrated proviral latency, viral entry into the host nucleus, and host cell entry. The inclusion of terms related to host apoptosis and RNA interference regulation further supports viral-host interaction and strategies to persist. Taken together, this set represents retroviral replication and proviral latency.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":18},{"id":"GO:0006310","count":18},{"id":"GO:0006278","count":18},{"id":"GO:0006260","count":18},{"id":"GO:0075713","count":18}]},{"hash":"978021797916528445","title":"Retroviral DNA integration and latency","description":"This cluster is dominated by GO terms related to viral integration, recombination, reverse transcription (RNA-templated DNA biosynthesis), DNA replication, and establishment of integrated proviral latency, all characteristic of retroviral lifecycles. Additional terms about viral entry into the host nucleus and host apoptotic activation reflect virus\u2013host interactions, while negative regulation of siRNA processing suggests viral counter-defense mechanisms. Together, they point to retroviral genome integration and latency as the core theme.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":22},{"id":"GO:0006310","count":22},{"id":"GO:0006278","count":22},{"id":"GO:0006260","count":22},{"id":"GO:0075713","count":22}]},{"hash":"1206565924062908071","title":"Viral DNA Integration and Proviral Latency","description":"This cluster centers on DNA-level genome rearrangement and integration (recombination, transposition, RNA-templated DNA synthesis, replication) and explicit proviral latency processes, plus host\u2013virus interaction steps (viral entry and entry into the host nucleus) and host RNAi countermeasures. Together these terms point to viruses/proviral elements integrating into host genomes and establishing latency, rather than general cellular DNA repair. Therefore a label reflecting viral DNA integration and proviral latency is most representative.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":7},{"id":"GO:0006313","count":4},{"id":"GO:0015074","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0006260","count":4}]},{"hash":"637880843749384346","title":"Retroviral DNA Integration and Proviral Latency","description":"This cluster centers on DNA-level steps of viral life cycles: DNA recombination, DNA integration, RNA-templated DNA biosynthetic processes, and DNA replication, plus establishment of integrated proviral latency. Supporting terms about viral entry into the host nucleus and symbiont-mediated effects on the host (including apoptosis and siRNA processing) suggest pronounced host\u2013virus interactions, particularly retroviral replication and proviral latency as the dominant theme.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":7},{"id":"GO:0015074","count":6},{"id":"GO:0006278","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0075713","count":6}]},{"hash":"2041949215232325646","title":"Developmental growth and cell cycle processes","description":"The top GO terms span development (forebrain and ventricular cardiac muscle development), core DNA processes (DNA-templated transcription, DNA replication), cell division and polarity, and basic intracellular trafficking, plus organelle inheritance. Because there are no edges or triangles, the proteins appear functionally diverse rather than part of a single cohesive pathway. This supports labeling as a broad mix of developmental and fundamental cellular processes rather than a highly specific function.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000001","count":4},{"id":"GO:0007118","count":4},{"id":"GO:0055015","count":4},{"id":"GO:0007605","count":4}]},{"hash":"1288272594984268246","title":"Developmental morphogenesis and organogenesis","description":"The top GO terms point to embryonic development, organ formation, and patterning (lung, limb, kidney, oviduct, dorsal identity) with associated cell proliferation and cytoskeletal localization, suggesting a cohesive developmental morphogenesis cluster.","confidence":"High","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":14},{"id":"GO:0007050","count":14},{"id":"GO:0072053","count":13},{"id":"GO:0072699","count":13},{"id":"GO:0061324","count":13}]},{"hash":"2277427066140585184","title":"Developmental Signaling Pathways","description":"This cluster\u2019s GO terms converge on signaling pathways (FGFR, insulin receptor, KIT) and developmental processes (bronchus morphogenesis, placenta development, orbitofrontal cortex development), suggesting proteins that participate in diverse signaling networks governing development and tissue growth. Some terms are more general cellular processes, but the core theme is developmental signaling. ","confidence":"Medium","size":22,"edges":223,"triangles":1391,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010696","count":22},{"id":"GO:0035607","count":22},{"id":"GO:0008286","count":22},{"id":"GO:0051436","count":22},{"id":"GO:0046827","count":22}]},{"hash":"1926254087473658750","title":"Heart and Brain Signaling and Excitability","description":"These proteins cluster around signaling and excitability across cardiac and neural contexts: heart development and contraction, neurotransmitter secretion, potassium channel organization, phototransduction, long-term memory, and calcium-dependent calcineurin-NFAT signaling, all tied to protein phosphorylation and ion-channel regulation. The pattern points to a shared module of heart-neural signaling and excitability rather than a single tissue-specific function.","confidence":"High","size":22,"edges":155,"triangles":646,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":20},{"id":"GO:0007205","count":20},{"id":"GO:0006468","count":19},{"id":"GO:0090151","count":19},{"id":"GO:0045163","count":19}]},{"hash":"568373456885228253","title":"Dendritic Spine Actin Remodeling","description":"This cluster is dominated by actin cytoskeleton\u2013related terms: actin filament polymerization, lamellipodium and ruffle assembly, and especially dendritic spine morphogenesis, indicating a module of actin dynamics driving spine formation and remodeling. While a couple of spliceosome-related GO terms appear, the strongest shared function centers on actin organization and spine development, suggesting a neuronal actin remodeling theme.","confidence":"High","size":22,"edges":227,"triangles":1466,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060997","count":4},{"id":"GO:0051016","count":4},{"id":"GO:1900029","count":4},{"id":"GO:0030032","count":4},{"id":"GO:0030036","count":4}]},{"hash":"173223922495316906","title":"Dendritic Spine Morphogenesis and Rac Signaling","description":"This cluster is dominated by terms tied to neuronal development and spine formation, including dendritic spine morphogenesis and development, hippocampus development, and Rac-mediated signal transduction. The presence of lamellipodium assembly and endosomal transport further supports actin-driven remodeling and vesicle trafficking essential for spine formation and synaptic maturation, making the spine morphogenesis with Rac signaling a coherent theme.","confidence":"High","size":22,"edges":105,"triangles":139,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0010796","count":4},{"id":"GO:0000186","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0097178","count":3},{"id":"GO:0045792","count":3}]},{"hash":"26201627144164158","title":"RNA Processing and Ubiquitin Signaling in Cell Cycle","description":"The top GO terms cluster around RNA metabolism (RNA export regulation, splicing, chloroplast mRNA modification) together with ubiquitin-related regulation (deubiquitination, K33-linked), and cell-cycle/apoptosis control, plus stress responses. This suggests a coherent module where post-transcriptional RNA processing and ubiquitin signaling intersect with cell-cycle regulation and environmental stress, though the mix also points to broader regulatory roles.","confidence":"Medium","size":22,"edges":22,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0046832","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0071947","count":2},{"id":"GO:0043066","count":2},{"id":"GO:0010378","count":2}]},{"hash":"188148102909627518","title":"Osteoblast differentiation via transcriptional regulation","description":"The cluster is best described by transcription-focused GO terms, notably osteoblast differentiation and DNA-templated transcription, with supporting signals of NF-kappaB regulation and ubiquitination control. While a few membrane transport terms appear, the strongest themes point to transcriptional regulation governing osteoblast lineage differentiation and related inflammatory signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001649","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0031397","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0044690","count":1}]},{"hash":"900195178600476521","title":"Developmental and Immune Signaling","description":"This cluster centers on signaling pathways that regulate development and immune responses: ROBO and Smoothened pathways, T cell receptor signaling, and ERK cascade regulation, with serine phosphorylation as a modulator. The presence of nervous system, heart, and kidney development terms, plus mast cell chemotaxis, suggests a broad developmental signaling theme that also engages immune cell signaling and cell fate decisions (including MOMP-related apoptosis).","confidence":"Medium","size":22,"edges":56,"triangles":11,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0035385","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0070374","count":5},{"id":"GO:0033138","count":5}]},{"hash":"1668257084446917586","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071711","count":3},{"id":"GO:0071039","count":2},{"id":"GO:0034476","count":2},{"id":"GO:0000973","count":2},{"id":"GO:0071035","count":2}]},{"hash":"370155135960602589","title":"Immune-endocrine signaling and cytokine regulation","description":"This cluster features GO terms tied to immune cytokine production and regulation (e.g., positive regulation of chemokine production, negative regulation of IL-12), vasopressin secretion, and signaling pathways such as Wnt, with additional hints from proteasome assembly and heat response indicating broader cellular regulation and stress handling. The mix suggests a theme around immune and endocrine signaling together with protein turnover, though not a single tight pathway. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044707","count":5},{"id":"GO:0090501","count":5},{"id":"GO:0046475","count":5},{"id":"GO:0070213","count":5},{"id":"GO:0030103","count":5}]},{"hash":"601531128246799384","title":"Bacterial lipid biosynthesis and envelope assembly","description":"The top GO terms cluster around lipid metabolism and cell envelope components: lipoteichoic acid biosynthesis, menaquinone biosynthesis, various fatty acid transport and metabolism processes, and fatty-acyl-CoA pathways, plus fatty acid biosynthesis and related metabolism. This suggests a cohesive theme of membrane lipid production and envelope assembly in bacteria (with a hint toward Gram-positive biology due to lipoteichoic acid). ","confidence":"High","size":22,"edges":174,"triangles":677,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0070395","count":8},{"id":"GO:0009234","count":8},{"id":"GO:0001579","count":7},{"id":"GO:0044539","count":7},{"id":"GO:0008206","count":7}]},{"hash":"308399949169349174","title":"Ubiquitin-Dependent Proteolysis in Development","description":"The Top Terms include strong signals for ubiquitin-proteasome\u2013mediated protein catabolism (SCF-dependent and ubiquitin-dependent), along with innate immune defense terms and several tissue development terms (kidney, brain, skeletal, lens). This suggests proteins tied to regulated proteolysis that also influence developmental and immune-related processes, justifying a label centered on proteostasis with developmental context.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0042787","count":5},{"id":"GO:0031146","count":5},{"id":"GO:0001822","count":4},{"id":"GO:0043552","count":4}]},{"hash":"525528883196754557","title":"Ribosome biogenesis and rRNA maturation","description":"The top GO terms are dominated by ribosome-related processes: ribosomal large subunit biogenesis and maturation of 5.8S and LSU rRNA, plus other RNA-processing activities like spliceosomal complex disassembly. While there are signals for DNA replication and transcription regulation, the strongest, most specific theme is assembly and maturation of ribosomes, justifying this label.","confidence":"High","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0019079","count":2},{"id":"GO:0042273","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0000463","count":2}]},{"hash":"1982671402875121123","title":"Post-transcriptional RNA processing and silencing","description":"This cluster concentrates on RNA-centric regulation: splicing and polyadenylation (spliceosome, subunit processome), mRNA stability under stress, and both regulatory ncRNA- and miRNA-mediated silencing. The presence of translation preinitiation complex formation and small-subunit processome assembly suggests links to translation initiation and ribosome biogenesis as part of coordinated RNA metabolism. Overall, the proteins appear to regulate gene expression at RNA-level from processing to decay and silencing.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":15},{"id":"GO:1901407","count":13},{"id":"GO:0045292","count":13},{"id":"GO:0006378","count":13},{"id":"GO:0048026","count":11}]},{"hash":"1340252186380026233","title":"Neurodevelopmental patterning and organogenesis","description":"Genes in this cluster are enriched for neural lineage specification (spinal cord motor neuron fate, GABAergic interneuron differentiation, subpallium fate, midbrain-hindbrain boundary morphogenesis, cerebral cortex differentiation) and also for development of other organs (pancreas, bronchiole, skeletal muscle). The common thread is RNA polymerase II\u2013driven transcriptional programs that guide cell fate decisions across tissues, with a strong emphasis on neural development. This suggests a cohesive theme of neurodevelopmental patterning alongside broader organogenesis.","confidence":"High","size":22,"edges":227,"triangles":1463,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0021530","count":8},{"id":"GO:0031018","count":8},{"id":"GO:0060163","count":8},{"id":"GO:0060435","count":8}]},{"hash":"715274404291758826","title":"RNA processing and translational regulation","description":"The top terms collectively describe mRNA maturation (splicing, spliceosome assembly, splice site recognition, poly(A) tail regulation, mRNA export) and translation control (preinitiation complex formation, reinitiation, IRES-driven initiation, and miRNA-mediated silencing), including stress-responsive mRNA stability.","confidence":"High","size":22,"edges":199,"triangles":1019,"max_degree":21,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":18},{"id":"GO:0001731","count":12},{"id":"GO:0002188","count":12},{"id":"GO:0035278","count":11},{"id":"GO:0060211","count":11}]},{"hash":"1056854590020520544","title":"Neuronal Signaling and Sensory Perception","description":"The top terms converge on neural signaling and sensory processes, including visual perception/learning, dopaminergic synaptic transmission, pain perception, cocaine-related behavioral responses, and ERK signaling. While there are additional terms related to cardiovascular and immune responses, the core theme appears to be neuronal communication and sensory processing, justifying a neuron-focused label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0001963","count":3},{"id":"GO:0010759","count":3},{"id":"GO:0007507","count":3}]},{"hash":"2294345146792467751","title":"Unknown","description":"Top terms are highly diverse, spanning lipid modification, detoxification, plant-specific catabolic processes (chlorophyll, cellulose, stilbene), epoxygenase P450 metabolism, antibiotic biosynthesis, and even brain development. There is no single coherent function or pathway that ties all these GO terms together in this cluster, so a specific label cannot be assigned.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002084","count":4},{"id":"GO:0098869","count":4},{"id":"GO:0015996","count":4},{"id":"GO:0030245","count":4},{"id":"GO:0007420","count":4}]},{"hash":"832769297074652962","title":"Steroid biosynthesis and reproductive development","description":"The terms cluster around biosynthesis of steroids/hormones (prostaglandin, testosterone, calcitriol, oxylipin, brassinosteroid) and reproductive tissue development (female gonad, uterus, maternal parturition). This suggests a coherent theme of steroid hormone production linked to female reproductive processes, though an outlier term (copper ion response) and a plant-specific term (brassinosteroid) introduce some noise. ","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":13},{"id":"GO:0060065","count":11},{"id":"GO:0001516","count":11},{"id":"GO:0036378","count":10},{"id":"GO:0031408","count":10}]},{"hash":"1615566957653951363","title":"Diverse metabolic catabolism and biosynthesis","description":"Most top GO terms point to catabolic and biosynthetic metabolism (lipid, diacylglycerol, formaldehyde, cellulose; biotin, antibiotic biosynthesis) plus detoxification, suggesting a cluster of enzymes involved in broad metabolic processing rather than a single pathway. The neuronal synaptic vesicle endocytosis term appears as an outlier or multifunctional annotation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:1900244","count":9},{"id":"GO:0016042","count":9},{"id":"GO:0030245","count":9},{"id":"GO:0098869","count":8},{"id":"GO:0002084","count":7}]},{"hash":"1942606664941572340","title":"Lipid Hormone Biosynthesis and Gonadal Development","description":"This cluster is dominated by GO terms for lipid-derived signaling and hormone biosynthesis (prostaglandins, oxylipins, brassinosteroids, calcitriol, testosterone) and reproductive development (female gonad development, maternal processes). While a few terms are more peripheral (copper response, hepatocyte differentiation), the overall theme points to lipid-based hormone production tied to gonadal development and reproduction.","confidence":"High","size":22,"edges":39,"triangles":10,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0008585","count":10},{"id":"GO:0001516","count":10},{"id":"GO:0036378","count":9},{"id":"GO:0031408","count":9},{"id":"GO:0061370","count":9}]},{"hash":"705118869286294444","title":"Collagen ECM formation in skin and cartilage","description":"The cluster is enriched for collagen biosynthesis and skin development, with links to cartilage/chondrocyte development and collagen-activated signaling, plus ECM-related cell adhesion. This points to a cohesive module focused on extracellular matrix assembly and collagen-driven processes in skin and cartilage tissues.","confidence":"High","size":22,"edges":63,"triangles":96,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:1903225","count":2},{"id":"GO:0003431","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0071230","count":2},{"id":"GO:0070994","count":2}]},{"hash":"1475518386812182885","title":"Thermal and sensory perception signaling","description":"The cluster is enriched for terms related to temperature response (diet-induced thermogenesis; cellular response to temperature stimulus) and sensory perception (pain; touch). Electrical signaling terms (membrane repolarization, membrane hyperpolarization) align with sensory neuron signaling. Although there are outliers (ossification, blood coagulation), the dominant theme centers on detecting and transducing thermal and mechanical stimuli, so this label aptly represents the cluster's shared function.","confidence":"Medium","size":22,"edges":5,"triangles":0,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":15},{"id":"GO:0071502","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0050976","count":9},{"id":"GO:0043931","count":9}]},{"hash":"1213300388505567999","title":"Dense core granule exocytosis regulation","description":"The cluster is enriched for terms tied to regulated secretion and vesicle fusion, notably positive regulation of dense core granule exocytosis, neurotransmitter secretion, and the acrosome reaction, pointing to a unifying role in secretory vesicle release across neuroendocrine and reproductive contexts; cytoskeletal regulation via Rho signaling further supports vesicle trafficking during exocytosis.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043314","count":2},{"id":"GO:1905433","count":2},{"id":"GO:0007269","count":2},{"id":"GO:2000238","count":2}]},{"hash":"381519641301991531","title":"Neural development and synapse organization","description":"This cluster centers on neural development and synaptic connectivity. The recurring GO terms include synapse assembly and organization, axonal fasciculation, and auditory receptor development, plus Hedgehog (Smoothened) signaling, which is developmental. Vocalization behavior also hints at neural circuits governing communication. A few outliers (like opsonization) are present, but the dominant pattern supports neural development and synapse formation.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000161","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0048671","count":2},{"id":"GO:1903028","count":2},{"id":"GO:0051965","count":2}]},{"hash":"1346262034908256447","title":"RNA processing and repair in cell death pathways","description":"The cluster centers on RNA maturation and modification (mRNA processing, tRNA wobble modification, regulation of translational initiation by tRNA modification) together with nucleic acid repair (RNA and DNA repair). It also includes connections to programmed cell death and mitochondrial membrane-permeability changes, suggesting a theme where RNA/nucleic acid maintenance intersects with cell death regulation. Confidence: High","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0035553","count":2},{"id":"GO:1990983","count":2},{"id":"GO:0012501","count":2},{"id":"GO:0042245","count":2}]},{"hash":"78733998071324251","title":"Germline RNA processing and P granule organization","description":"The cluster centers on nuclear RNA maturation and processing (rRNA maturation, mRNA processing, decapping, deadenylation, RNA destabilization) and includes germline-specific P granule organization, suggesting a cohesive theme of germline RNA metabolism and RNA-protein granule assembly.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000466","count":3},{"id":"GO:0000463","count":3},{"id":"GO:0071035","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0050779","count":2}]},{"hash":"251799553343788726","title":"Mitochondrial energy metabolism and signaling","description":"The top GO term is electron transport chain, indicating a core mitochondrial metabolic function, with accompanying terms that point to various signaling and phosphorylation pathways (Rho signaling, GPCR signaling, ERK cascade) and inflammatory regulation. This suggests a cluster centered on mitochondrial energy production with broader signaling and stress-response roles, justifying a combined metabolic-signaling label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":14},{"id":"GO:0035025","count":14},{"id":"GO:0045777","count":14},{"id":"GO:0010579","count":14},{"id":"GO:0019076","count":13}]},{"hash":"2292737112109910119","title":"RNA modification and DNA repair with apoptotic signaling","description":"The cluster is enriched for RNA processing and modification functions (mRNA processing, tRNA wobble uridine modification, regulation of translational initiation by tRNA modification, RNA repair, oxidative demethylation) along with DNA repair activities (DNA repair, DNA alkylation repair, oxidative DNA-related demethylation). There are also signals related to programmed cell death and mitochondrial permeability, suggesting a theme where RNA/nucleic acid maintenance and repair intersect with apoptosis/necrotic pathways. This justifies a label centered on RNA modification and DNA repair with apoptotic signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0035553","count":2},{"id":"GO:1990983","count":2},{"id":"GO:0012501","count":2},{"id":"GO:0042245","count":2}]},{"hash":"1496122595523175046","title":"Steroid and Fatty Acid Biosynthesis","description":"The cluster's GO terms are dominated by lipid metabolism and steroid biosynthesis: fatty acid elongation, very long-chain fatty acid biosynthesis, and lipid metabolic process, alongside steroid-related terms such as testosterone, progesterone, and brassinosteroid biosynthesis. While there are a few unrelated terms, the strongest shared function among many proteins appears to be involvement in lipid production and steroid biosynthesis.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030497","count":1},{"id":"GO:0010091","count":1},{"id":"GO:0019408","count":1},{"id":"GO:0061370","count":1},{"id":"GO:0042761","count":1}]},{"hash":"343097332460917844","title":"Neural differentiation via transcriptional regulation","description":"This cluster centers on transcriptional control (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) and neural development terms (hippocampus development, gliogenesis) with signals of cell-cycle exit (G1 to G0, negative regulation of G1/S). Together these suggest proteins that regulate gene expression to drive neural differentiation and brain development.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0070314","count":2},{"id":"GO:0014013","count":2}]},{"hash":"2004210284615005323","title":"Proviral integration and latency","description":"The GO terms cluster around retroviral-like processes: DNA integration, DNA recombination, RNA-templated DNA biosynthesis, and DNA replication, with an explicit term for proviral latency establishment and viral entry into the host nucleus. These together point to a proviral integration/latency lifecycle as the core function of this protein group, despite some host-symbiont interaction terms present. Confidence reflects a strong link to proviral genome integration and persistence.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0075713","count":4}]},{"hash":"770006016897237829","title":"Neuronal development and synapse formation","description":"The top GO terms cluster around neuronal differentiation (pyramidal neuron differentiation), axon guidance, and synapse assembly, with Rho-mediated signaling guiding cytoskeletal changes for neurite outgrowth and connectivity; endocytosis and adhesion terms support synapse formation, while nitric oxide biosynthesis and immune-related terms (complement activation, xenobiotic response) may reflect broader neural context rather than core neuronal development.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0048260","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0045429","count":2},{"id":"GO:0042493","count":2}]},{"hash":"893322769616020531","title":"Mitotic progression and APC-dependent proteolysis","description":"The top GO terms cluster around mitosis and proteolysis: mitotic cell cycle, anaphase-promoting complex-dependent catabolic process, and positive regulation of mitotic metaphase/anaphase transition, plus K11-linked ubiquitination, which ties to APC-mediated degradation crucial for mitotic progression. Some immune-related terms appear but are less representative of the dominant function. Therefore the label reflects the core role in cell-cycle regulation via ubiquitin-mediated proteolysis.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043278","count":4},{"id":"GO:0070979","count":4},{"id":"GO:2001162","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0051291","count":4}]},{"hash":"2187033184834503412","title":"Transcription Regulation and Cell Cycle","description":"The cluster is dominated by GO terms for DNA-templated transcription (and termination) and cell division, with negative regulation of transcription also present, pointing to a core theme of gene expression control during the cell cycle. While there are additional terms related to metabolism (glutamine and nucleotide salvage) and development (lymphocyte proliferation, dendrite morphogenesis, lactation), these likely reflect multifunctional proteins in the cluster; the strongest signal centers on transcriptional regulation and cell division.","confidence":"Medium","size":21,"edges":146,"triangles":504,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006541","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0045892","count":5},{"id":"GO:0046651","count":5}]},{"hash":"2022885349290742853","title":"RTK Signaling in Development","description":"The cluster is dominated by receptor tyrosine kinase signaling terms (FGFR signaling, KIT signaling, insulin receptor signaling) and organ- and tissue-development terms (orbitofrontal cortex development, placenta development, bronchus morphogenesis), suggesting a cohesive theme of growth-factor\u2013driven signaling guiding development. Some terms appear less directly connected (e.g., response to cocaine), but the core pattern points to RTK-mediated signaling in developmental contexts.","confidence":"Medium","size":21,"edges":161,"triangles":617,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010696","count":21},{"id":"GO:0035607","count":21},{"id":"GO:0008286","count":21},{"id":"GO:0051436","count":21},{"id":"GO:0046827","count":21}]},{"hash":"1982944300933427130","title":"Growth Factor Receptor Signaling in Development","description":"The top GO terms cluster around receptor tyrosine kinase signaling pathways (FGFR, insulin receptor, KIT) and developmental processes across tissues (orbitofrontal cortex development, placenta morphogenesis, bronchus morphogenesis). This points to a theme where growth factor signaling coordinates developmental morphogenesis, with supporting processes like calcium signaling and nuclear protein export. The cluster therefore likely represents a group of proteins involved in Growth Factor Receptor Signaling in Development.","confidence":"High","size":21,"edges":187,"triangles":946,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010696","count":21},{"id":"GO:0035607","count":21},{"id":"GO:0008286","count":21},{"id":"GO:0051436","count":21},{"id":"GO:0046827","count":21}]},{"hash":"1300271111621407373","title":"Skeletal muscle development and contraction","description":"The cluster is dominated by GO terms for muscle contraction, sarcomere organization, ossification, and multicellular development, indicating a cohesive theme of musculoskeletal development and muscle function. Additional terms such as ER stress response and transcription regulation appear as broader cellular processes but do not override the muscle/skeletal focus.","confidence":"High","size":21,"edges":16,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0006936","count":3},{"id":"GO:0035584","count":3},{"id":"GO:0045214","count":3},{"id":"GO:0007275","count":3}]},{"hash":"2247309434329973555","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":187,"triangles":951,"max_degree":20,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0000472","count":10},{"id":"GO:0034475","count":10},{"id":"GO:0006367","count":10},{"id":"GO:0000480","count":10},{"id":"GO:0000462","count":10}]},{"hash":"1443665984173831861","title":"Angiogenesis and vascular development","description":"The top GO terms cluster around blood vessel formation and cardiac/vascular development (pulmonary artery morphogenesis, endocardial cushion development, endothelial tip cell fate specification, blood vessel lumenization, sprouting angiogenesis regulation), suggesting a cohesive theme of angiogenesis and vascular differentiation. A few terms (gamma-delta T cell differentiation, muramyl dipeptide response, myoblast differentiation) may reflect broader developmental signaling or pleiotropy but do not override the vascular focus.","confidence":"High","size":21,"edges":112,"triangles":387,"max_degree":14,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0061156","count":9},{"id":"GO:0032495","count":9},{"id":"GO:0042492","count":9},{"id":"GO:0045662","count":9},{"id":"GO:0097102","count":9}]},{"hash":"439131109966088251","title":"Immune Response and Coagulation","description":"The cluster shows a strong representation of innate and adaptive immune processes (innate immune response, adaptive immune response, neutrophil clearance, T cell proliferation) coupled with hemostasis mechanisms (fibrinolysis, blood coagulation). These recurring themes suggest a functional link between immune signaling and coagulation pathways within the cluster, despite a few less-central terms (e.g., tRNA processing, ribosomal export) that are more housekeeping in nature.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0008033","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0097350","count":2},{"id":"GO:0002250","count":2}]},{"hash":"1576799463780773332","title":"Unknown","description":"The top GO terms span development (endodermal differentiation, metanephric kidney development, multicellular development), various metabolic processes (thyroid hormone metabolism, polysaccharide catabolism, bradykinin catabolic), and protein oligomerization, with no clear, single cohesive function linking them all. This makes a concise, specific label difficult; the cluster appears functionally heterogeneous rather than representing one well-defined pathway.","confidence":"","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0072205","count":2},{"id":"GO:0042994","count":2},{"id":"GO:0042403","count":2}]},{"hash":"1244604021441508768","title":"Ribosome Biogenesis and Translation","description":"The cluster centers on translation- and ribosome-related processes: cytoplasmic translation, ribosome biogenesis, and tRNA modification appear most prominently, with supporting signals from cell-cycle and cell-division terms that reflect the link between ribosome production and proliferation. A few terms touch antiviral responses (response to interferon-alpha, negative regulation of viral genome replication), but the dominant theme is the ribosome/protein-synthesis machinery.","confidence":"High","size":21,"edges":195,"triangles":1081,"max_degree":20,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0002181","count":9},{"id":"GO:0045071","count":9},{"id":"GO:0035455","count":9},{"id":"GO:0042254","count":7},{"id":"GO:0007049","count":7}]},{"hash":"1290827259784287514","title":"Neuronal junctions and endocytic trafficking","description":"The top terms cluster around specialized cell junctions (paranodal and smooth septate junctions), membrane trafficking events (endosome-to-lysosome transport and receptor internalization), and CNS/eye development (microglia development and retina vasculature development), pointing to a shared theme of neural membrane organization and endocytic trafficking during CNS/retinal development.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030913","count":6},{"id":"GO:0035646","count":5},{"id":"GO:0031623","count":5},{"id":"GO:0007166","count":5},{"id":"GO:0090528","count":5}]},{"hash":"1605330979757866391","title":"Amino acid and quinone metabolism in bacteria","description":"The cluster concentrates on amino acid turnover (serine, valine), pyruvate generation, fatty acid oxidation, and quinone biosynthesis (menaquinone and phylloquinone), plus related catabolic pathways and a cAMP response, pointing to a cohesive bacterial metabolic network linking amino acid metabolism with vitamin cofactor biosynthesis.","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006564","count":7},{"id":"GO:0042866","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0006565","count":5},{"id":"GO:0006574","count":5}]},{"hash":"814810462892685569","title":"Unknown","description":"The terms span developmental processes (heart, lung connective tissue, nipple morphogenesis, visual perception) and immune/inflammatory responses (xenobiotic and LPS response, viral release, chronic inflammatory regulation) with sparse connections and only a couple of edges, so there is no clear, cohesive functional theme linking the proteins. ","confidence":"","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0032496","count":6},{"id":"GO:0060427","count":5},{"id":"GO:0007601","count":5}]},{"hash":"785512030365117184","title":"Mitochondrial/Chloroplast Protein Import and Translation","description":"This cluster is dominated by terms for importing proteins into mitochondria and chloroplasts and for mitochondrial inner membrane insertion, along with translation and ribosome biogenesis, suggesting a common theme of organelle protein targeting and protein synthesis machinery. Some terms (endocytosis, immune cell homeostasis) are less tightly connected but may reflect broader cellular trafficking and metabolic context.","confidence":"Medium","size":21,"edges":9,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":3},{"id":"GO:0045039","count":3},{"id":"GO:0032094","count":3},{"id":"GO:0045037","count":3},{"id":"GO:0000002","count":3}]},{"hash":"1882389710799775985","title":"Neuronal adhesion and axon guidance","description":"This cluster centers on neuronal cell adhesion (homophilic/heterophilic), synapse assembly, neuron migration, and Robo signaling, with Rho-dependent cytoskeletal remodeling supporting axon guidance and connectivity. While there is a mention of skeletal development and sarcomere organization, the dominant theme ties to neural development and synaptic wiring.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":10},{"id":"GO:0051965","count":9},{"id":"GO:0035023","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0001764","count":8}]},{"hash":"1924765450650254266","title":"Unknown","description":"Top GO terms span immune differentiation, renal function, ubiquitin-mediated processes, phototropism, skeletal muscle development, and more, with no unifying theme or connected function among the proteins. The absence of edges and the dispersed terms suggest no coherent shared function for this cluster.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001200","count":3},{"id":"GO:0070294","count":2},{"id":"GO:1904431","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0045497","count":2}]},{"hash":"1647189004987750331","title":"Mitochondrial Electron Transport and Apoptotic Regulation","description":"The cluster\u2019s GO terms center on mitochondrial respiration and electron transport (complex IV assembly, proton transmembrane transport, cytochrome c to oxygen, ATP synthesis coupling) and on regulation of apoptotic signaling (cytochrome c release, negative regulation of extrinsic apoptotic signaling, mitochondrial depolarization). This suggests a coherent module where mitochondrial energy production intersects with apoptosis control.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":2},{"id":"GO:1902600","count":2},{"id":"GO:0043154","count":1},{"id":"GO:2001240","count":1},{"id":"GO:0001836","count":1}]},{"hash":"669115626303096434","title":"Neuronal Signaling and Synaptic Exocytosis","description":"The top GO terms cluster around phosphatidylinositol-mediated signaling, dendritic spine morphogenesis, neurotransmitter and dense core granule exocytosis, and related synaptic processes. While some terms touch on immune regulation or broad transport, the strongest, recurrent theme is neuronal communication through vesicle release and spine remodeling, suggesting proteins in this cluster participate in synaptic signaling and exocytosis.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048015","count":3},{"id":"GO:0060997","count":2},{"id":"GO:0043314","count":2},{"id":"GO:1905433","count":2},{"id":"GO:0007269","count":2}]},{"hash":"97559693862470796","title":"Unknown","description":"There are no top GO terms listed for this cluster, so there is no clear shared function to base a label on. With 21 proteins and modest connectivity (15 edges, 4 triangles, max degree 7), a cohesive, specific biological theme cannot be inferred from the provided data. Therefore the appropriate label is Unknown.","confidence":"","size":21,"edges":15,"triangles":4,"max_degree":7,"top_function":null,"top_go_terms":[]},{"hash":"177053964837047845","title":"Transcription and DNA Repair Regulators","description":"Dominant GO terms cluster around DNA-templated transcription, transcription regulation, histone modification, and nucleotide-excision repair, indicating a group involved in gene expression control and genome maintenance; a few outliers (TORC1 signaling, actin filament capping) are less connected but do not override the main theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0043966","count":2},{"id":"GO:1904263","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0070208","count":1}]},{"hash":"2183654485640724239","title":"Retroviral DNA Integration and Latency","description":"This cluster is driven by GO terms tied to retroviral replication steps: reverse transcription, DNA integration/recombination, DNA replication, and the establishment of proviral latency, plus host entry/penetration into the nucleus and counter-host defenses (siRNA regulation). These collectively indicate a retroviral life cycle and integration into the host genome.","confidence":"High","size":20,"edges":49,"triangles":26,"max_degree":11,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":19},{"id":"GO:0015074","count":17},{"id":"GO:0006278","count":17},{"id":"GO:0006260","count":17},{"id":"GO:0075713","count":17}]},{"hash":"468152481990613850","title":"Retroviral DNA Integration and Latency","description":"Based on the GO terms, the cluster centers on retroviral lifecycle processes: DNA integration, DNA recombination, RNA-templated DNA biosynthesis (reverse transcription), and DNA replication, which together point to proviral genome integration and replication. The presence of \u201cestablishment of integrated proviral latency,\u201d along with terms about viral entry into the host nucleus and symbiont entry, reinforces a theme of retroviral infection and latency. The negative regulation of siRNA processing hints at viral strategies to counter host RNA silencing. Overall, these terms strongly suggest a retroviral life cycle representation.","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":18},{"id":"GO:0006310","count":18},{"id":"GO:0006278","count":18},{"id":"GO:0006260","count":18},{"id":"GO:0075713","count":18}]},{"hash":"1125554503036937099","title":"Retroviral replication and proviral latency","description":"These proteins cluster around retroviral-like lifecycle processes: RNA-templated DNA biosynthesis, DNA recombination and replication, and DNA integration with establishment of integrated proviral latency, plus viral entry into the host nucleus. The combination strongly points to genome replication and proviral integration as the core theme, with some host antiviral interaction terms appearing as secondary facets.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":14},{"id":"GO:0006278","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0015074","count":9},{"id":"GO:0075713","count":9}]},{"hash":"1502825985904376505","title":"Unknown","description":"Top terms cover biosynthesis (antibiotic, cobalamin, biotin), lipid catabolism, mRNA stability regulation, and tRNA modification, with no single pathway unifying them. This heterogeneity suggests no cohesive function for the cluster.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0016049","count":6},{"id":"GO:0009236","count":6},{"id":"GO:0009102","count":5},{"id":"GO:0043488","count":4}]},{"hash":"1256862013161105294","title":"Genome maintenance and RNA processing","description":"Top GO terms indicate a core focus on nucleic acid metabolism and genome integrity, with frequent mentions of mRNA processing, RNA repair, RNA modification regulation, DNA repair, and telomere maintenance via telomerase. While a few terms relate to signaling or synaptic activity, the dominant signal is nucleic acid processing and genome maintenance, justifying the label. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0006281","count":4},{"id":"GO:0035249","count":3},{"id":"GO:0035556","count":3},{"id":"GO:0032212","count":3}]},{"hash":"992619146687925150","title":"Neuro-muscular-vascular development signaling","description":"Top GO terms indicate developmental signaling across nervous, muscular, and cardiovascular systems (axonogenesis, heart development, angiogenesis, myoblast fusion, synaptic plasticity, muscle activity response). This suggests a shared theme of developmental coordination among neural, muscle, and vascular tissues, with some cross-species annotation noise (abscisic acid pathway). The label captures the core, multi-tissue developmental signaling theme.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":13},{"id":"GO:0007507","count":12},{"id":"GO:0060291","count":12},{"id":"GO:0010800","count":12},{"id":"GO:0007520","count":12}]},{"hash":"1786863981261099186","title":"CNS Neuron Development and Synaptic Connectivity","description":"The top GO terms indicate central nervous system development features (corpus callosum development, axonogenesis, branching morphogenesis of a nerve) and synaptic function (dendritic spine morphogenesis, regulation of glutamatergic transmission, calcium import), together with signaling processes that guide neuronal maturation. This combination points to a cluster of proteins involved in CNS neuron development and establishment of synaptic connections.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":4},{"id":"GO:0060997","count":2},{"id":"GO:0051966","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0022038","count":2}]},{"hash":"386356899265135783","title":"RNA processing and ribosome biogenesis","description":"This cluster is dominated by terms related to RNA metabolism and processing (mRNA splicing and export, spliceosome regulation, and rRNA maturation) and ribosome assembly (mitochondrial large ribosomal subunit). There are also notes on transcription start site regulation and stress granule localization, which align with broader RNA processing and RNA-protein complexes behavior under stress. These combined signals point to a cohesive theme of RNA processing and ribosome biogenesis, with stress-granule association supporting a cellular RNA metabolism context.","confidence":"High","size":20,"edges":18,"triangles":3,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0016973","count":3},{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0000381","count":3}]},{"hash":"774985191347646541","title":"Nervous system signaling and sensory perception","description":"The top GO terms cluster around nervous system signaling and sensory processes: visual perception, dopaminergic synaptic transmission, sensory perception of pain, calcium ion release as a signaling event, and ERK signaling cascade modulation, with links to prostaglandin response. While there are some unrelated terms (insulin signaling, heart development) and no observed edges in the interaction graph, the majority of terms point to neuronal signaling and sensory processing as the core theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901407","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0070374","count":2}]},{"hash":"2059898906398912156","title":"Fatty acid oxidation and acetyl-CoA biosynthesis","description":"This cluster's top GO terms cluster around lipid and energy metabolism: fatty acid biosynthesis, regulation of beta-oxidation, acetyl-CoA biosynthesis, malonyl-CoA catabolic processes, and regulation of glucose metabolism. Together they define a lipid-energy metabolism theme centered on fatty acid oxidation and acetyl-CoA production, with ischemia response reflecting metabolic stress adaptation. Despite no observed network edges, the functional theme is coherent.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":3},{"id":"GO:0031998","count":3},{"id":"GO:0010906","count":3},{"id":"GO:0002931","count":3},{"id":"GO:0046321","count":3}]},{"hash":"2130640584612549192","title":"Unknown","description":"The top GO terms span diverse processes, including regulation of Rho/Ras signaling, B cell differentiation and BCR signaling, angiogenesis inhibition, and vesicle-related exocytosis (acrosome reaction and synaptic vesicle priming). This heterogeneity, plus zero edges or interactions among proteins, makes it unclear to identify a single cohesive function for the cluster. ","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":11},{"id":"GO:0046580","count":9},{"id":"GO:0043314","count":8},{"id":"GO:0038028","count":8},{"id":"GO:0007340","count":8}]},{"hash":"147389388327392358","title":"Proteostasis and Metabolic Regulation","description":"The cluster centers on protein homeostasis: regulation of proteolysis, protein oligomerization/tetramerization, and amyloid-beta metabolism, which all relate to maintaining the proteome. It also includes metabolic signaling and energy-related processes (insulin receptor signaling, insulin and bradykinin catabolic processes, aerobic respiration), suggesting coordination between protein turnover/assembly and cellular metabolism. Some terms (pheromone maturation, PQQ biosynthesis) appear less directly connected and may be peripheral, but the core terms point to a proteostasis-metabolism theme. ","confidence":"Medium","size":20,"edges":20,"triangles":14,"max_degree":7,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0010815","count":7},{"id":"GO:0032461","count":5},{"id":"GO:0050435","count":4},{"id":"GO:0009060","count":4},{"id":"GO:1901143","count":4}]},{"hash":"927530581685259216","title":"Synaptic vesicle exocytosis and ER-Golgi trafficking","description":"The top GO terms cluster around synaptic vesicle exocytosis and secretory pathway trafficking, including COPII-coated vesicle budding and Golgi-to-ER retrograde transport, with supporting links to cytoskeletal regulation (Rho signaling and filopodium assembly) that facilitate vesicle movement. Some development terms (substantia nigra, kidney) may reflect tissue expression rather than core function, but the prevailing theme is vesicle trafficking and synaptic exocytosis.","confidence":"High","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0090114","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0021762","count":2}]},{"hash":"2121545553819557327","title":"Cell Cycle and Division","description":"Dominant GO terms are cell division and cell cycle, suggesting the cluster centers on cell cycle control and division. Supporting terms touch on broader gene regulation and translation initiation, while a few unrelated terms may reflect incidental associations in the data.","confidence":"Medium","size":20,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0007049","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0070208","count":1},{"id":"GO:1905705","count":1}]},{"hash":"2045005170080453139","title":"Transmembrane Transporters","description":"The proteins are enriched for membrane transport activities, including chloride and potassium ion transport, sugar and xenobiotic transmembrane transport, and vesicle-related transport (neurotransmitter loading into synaptic vesicles), suggesting a cluster of transporter/vesicle-associated proteins.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":2},{"id":"GO:0033326","count":2},{"id":"GO:1900754","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0006855","count":2}]},{"hash":"487736576089787156","title":"Redox Homeostasis and Neuronal Maturation","description":"The top GO terms show a strong emphasis on redox processes and cellular redox homeostasis, suggesting a core role in balancing cellular oxidation states. There are also signals of neuronal development, such as neuron maturation, plus related signaling and metabolic processes (cAMP response, guanine metabolism, selenium response). Collectively, these terms point to a theme where redox regulation intersects with neuronal maturation and related metabolic signaling, despite some older or obsolete terms. This supports a cohesive label around redox balance influencing neural development.","confidence":"Medium","size":20,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":14},{"id":"GO:0045454","count":12},{"id":"GO:0016575","count":11},{"id":"GO:0008283","count":10},{"id":"GO:0010269","count":10}]},{"hash":"1610031295551020305","title":"Transcription and mitotic cell cycle regulation","description":"The cluster is dominated by GO terms linking transcriptional regulation (DNA-templated transcription, positive regulation of transcription by transcription factor localization) with mitotic processes (cell division, mitotic cell cycle) and translation initiation, suggesting a cohesive role in coordinating gene expression with cell-cycle progression. Some sensory or stress-related terms appear, but the core signal remains transcriptional control in the context of mitosis. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0007584","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0070208","count":3}]},{"hash":"550285315606503082","title":"Ubiquitin-Proteasome System and circadian-stress links","description":"The top GO terms point to ubiquitin-dependent protein catabolic processes and polyubiquitination, including SCF-dependent proteasomal degradation, indicating a core cluster around ubiquitin-mediated protein turnover. Additional terms link this turnover to circadian rhythm regulation and cellular responses to heavy metals and oxidative stress, suggesting these proteins integrate protein degradation with circadian and stress-response pathways.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0000209","count":9},{"id":"GO:0042752","count":8},{"id":"GO:0031146","count":7},{"id":"GO:0071276","count":7}]},{"hash":"1299793325550987519","title":"Steroid and lipid biosynthesis","description":"The most represented GO terms are biosynthetic processes of lipids and lipid-derived molecules\u2014testosterone biosynthesis, sphingolipid and mycolic acid biosynthesis, retinol and phylloquinone metabolism, plus melanin biosynthesis. This suggests a functional module centered on lipid- and pigment-related biosynthesis, with regulatory/response terms appearing as secondary signals.","confidence":"High","size":20,"edges":172,"triangles":862,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":20},{"id":"GO:0061370","count":19},{"id":"GO:0042438","count":19},{"id":"GO:0042572","count":19},{"id":"GO:0006355","count":19}]},{"hash":"1773739880429348857","title":"Nucleic acid repair and RNA processing","description":"Based on the top GO terms, the cluster centers on nucleic acid maintenance: DNA repair (including DNA alkylation repair and general DNA repair), RNA-related processes (RNA repair, mRNA processing, tRNA wobble uridine modification). A pair of terms also point to programmed cell death and mitochondrial membrane permeability, suggesting a stress-response connection. The dominant theme is nucleic acid repair/processing with a component of cell-death regulation, justifying the label.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0006307","count":2},{"id":"GO:0035552","count":2},{"id":"GO:0002098","count":2}]},{"hash":"1741065779745623562","title":"Gi-coupled GPCR signaling in heart and gut","description":"The dominant GO terms point to Gi-coupled GPCR signaling that inhibits adenylate cyclase (serotonin and dopamine receptors) and downstream ERK and phosphorylation events, with tissue-associated roles in heart development and intestinal smooth muscle contraction and hormone secretion. The viral release term appears as noise relative to the core GPCR signaling theme. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":19},{"id":"GO:0002882","count":19},{"id":"GO:0033861","count":19},{"id":"GO:0007198","count":19},{"id":"GO:0070374","count":19}]},{"hash":"689076304575747080","title":"Membrane Transporters for Sugars, Ions, Xenobiotics","description":"Most GO terms cluster around transmembrane transport of diverse substrates (arabinose, galactose, fucose, sialic acid, 4-hydroxyphenylacetate, nitrate assimilation, xenobiotics, potassium ions) and vesicular loading of neurotransmitters, indicating a coherent set of membrane transporter proteins with varied substrates.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0015751","count":3}]},{"hash":"1292269468804671224","title":"Cardiac and Smooth Muscle GPCR Signaling","description":"This cluster centers on GPCR-mediated signaling pathways (serotonin and dopamine receptor signaling) that regulate cyclic AMP, ERK signaling, protein phosphorylation, and hormone secretion, with contexts in heart development and smooth muscle contraction. While a couple of terms (viral release/inflammatory response) appear as outliers, the dominant theme links GPCR signaling to cardiac and smooth muscle regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":15},{"id":"GO:0002882","count":15},{"id":"GO:0033861","count":15},{"id":"GO:0007198","count":15},{"id":"GO:0070374","count":15}]},{"hash":"1986335337888773198","title":"Unknown","description":"Top GO terms span innate immune response and inflammation, neuron-related development (dendritic spine morphogenesis, corpus callosum and somite development), angiogenesis, Hedgehog pathway regulation, lipoprotein transport, and protein deamination. This wide spread suggests no single cohesive biological function or pathway ties the proteins together. There is no evident dominant theme or highly connected mechanism, and the lack of edges supports this, so Unknown with no confidence is the most appropriate label.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:0018277","count":2},{"id":"GO:0002438","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0048671","count":2}]},{"hash":"835116087127315326","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms describing tagging of proteins with ubiquitin and subsequent proteasomal breakdown (ubiquitin-dependent catabolic processes, SCF-dependent proteasomal degradation, polyubiquitination, K48-linked ubiquitination, and autoubiquitination). This points to a core role in the ubiquitin\u2013proteasome system. Some related terms (peroxisome import, antiviral defense) may reflect regulatory connections to ubiquitination, but the central theme is proteolysis via ubiquitin tagging.","confidence":"High","size":20,"edges":2,"triangles":0,"max_degree":2,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0031146","count":8},{"id":"GO:0030433","count":7},{"id":"GO:0000209","count":7},{"id":"GO:0021678","count":7}]},{"hash":"617687609267439608","title":"Unknown","description":"The proteins have an extremely diverse set of GO terms (podosome and synapse assembly, RNA processing and nuclear export, alternative splicing, circadian clock and chloroplast mRNA modification, and deubiquitination-related processes) with no clear shared function or pathway, and there are no edges or interactions connecting them in this cluster. This lack of a cohesive theme makes it inappropriate to assign a specific, representative label.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071803","count":2},{"id":"GO:0060386","count":2},{"id":"GO:0046832","count":1},{"id":"GO:0071157","count":1},{"id":"GO:0071947","count":1}]},{"hash":"1249126078433450138","title":"Neural development and synaptic plasticity","description":"The top GO terms cluster around neural development, dendritic spine morphogenesis, glutamatergic synaptic transmission, memory, retinoic acid responsiveness, and nerve branching, indicating proteins involved in shaping neural circuits and synaptic function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071300","count":2},{"id":"GO:0007614","count":2},{"id":"GO:0060997","count":1},{"id":"GO:0051966","count":1},{"id":"GO:0048671","count":1}]},{"hash":"26825921874845783","title":"Negative regulation of insulin signaling and glucose transport","description":"This cluster\u2019s top GO terms cluster around downregulation of insulin signaling (insulin receptor signaling, PI3K/AKT pathway) and reduced glucose import, including insulin receptor internalization. Other terms appear incidental (e.g., DNA replication/digit morphogenesis) and do not coherently define the core function. Therefore, the label focuses on insulin signaling suppression and glucose transport control.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051898","count":1},{"id":"GO:0046627","count":1},{"id":"GO:0042733","count":1},{"id":"GO:0038016","count":1},{"id":"GO:0046325","count":1}]},{"hash":"1106327388786215330","title":"Actin-Driven Cell Migration and Vesicle Transport","description":"The terms show actin cytoskeleton remodeling driving cell migration and adhesion, with vesicle transport along actin filaments and mitotic actin structures; pigment granule transport and centrosome maintenance further support cytoskeletal transport roles. Thus the cluster likely represents actin-dependent motility and intracellular trafficking.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006930","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0000001","count":1},{"id":"GO:0030050","count":1},{"id":"GO:1903477","count":1}]},{"hash":"2101949309226931886","title":"Developmental differentiation: muscle, brain, reproduction","description":"This cluster\u2019s top GO terms cluster around developmental processes in distinct tissues: sarcomere organization (muscle), brain development, and spermatogenesis. Additional terms point to regulatory signaling and immune modulation that may reflect developmental regulation rather than a single cohesive activity. Overall, a theme of tissue-specific development fits best, though the set is heterogeneous.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007283","count":3},{"id":"GO:0046580","count":2},{"id":"GO:0046007","count":2}]},{"hash":"464468759897724463","title":"Cardiac inflammatory signaling and ERK activation","description":"This cluster centers on inflammation-related processes (inflammatory response, chronic inflammatory regulation) and kinase-driven signaling (ERK cascade, protein phosphorylation), with a notable link to heart development and GPCR-mediated hormone signaling. The convergence of inflammatory responses and ERK/cAMP-related signaling in a cardiac context suggests a cohesive module of inflammatory signaling that influences heart-related pathways, justifying the label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":14},{"id":"GO:0019076","count":13},{"id":"GO:0002882","count":13},{"id":"GO:0033861","count":13},{"id":"GO:0007198","count":13}]},{"hash":"264989448547083653","title":"Retroviral DNA integration and proviral latency","description":"This cluster centers on reverse transcription and integration steps (RNA-templated DNA biosynthesis, DNA integration) and on latency establishment (establishment of integrated proviral latency), supported by related terms like DNA recombination and DNA replication. Additional terms reference viral entry into the host nucleus and host\u2013pathogen interactions (symbiont entry, activation of host apoptosis) as well as suppression of RNA silencing, all pointing to a retroviral-like life cycle and host manipulation.","confidence":"High","size":19,"edges":94,"triangles":154,"max_degree":15,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":13},{"id":"GO:0006260","count":12},{"id":"GO:0015074","count":11},{"id":"GO:0006278","count":11},{"id":"GO:0075713","count":11}]},{"hash":"1761836788455851236","title":"Viral DNA integration and host interaction","description":"This cluster's top GO terms cluster around DNA integration, recombination, replication, and proviral latency, with related entries for viral entry into the host nucleus and symbiont entry into host cells, and even host RNA interference modulation. Together these terms point to genome-level DNA manipulation during viral/symbiont infection and proviral latency, making \"Viral DNA integration and host interaction\" an informative label.","confidence":"High","size":19,"edges":146,"triangles":606,"max_degree":18,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":16},{"id":"GO:0006278","count":16},{"id":"GO:0006310","count":16},{"id":"GO:0006260","count":16},{"id":"GO:0075713","count":16}]},{"hash":"2178299781301380397","title":"Viral DNA integration and proviral latency","description":"Top GO terms point to viral entry, genome integration, RNA-templated DNA synthesis, and establishment of integrated proviral latency, with references to viral penetration into the host nucleus and DNA replication. While some terms also touch on host-symbiont interactions, the strongest recurring theme is viral genome integration and maintenance as provirus, including nuclear entry and replication steps. This makes the label Viral DNA integration and proviral latency an appropriate, specific descriptor for the cluster.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":15},{"id":"GO:0015074","count":12},{"id":"GO:0006278","count":12},{"id":"GO:0075713","count":12},{"id":"GO:0039651","count":12}]},{"hash":"1949692527435449044","title":"Retroviral DNA Integration and Proviral Latency","description":"The top GO terms point to core retroviral biology and DNA rearrangement: DNA recombination, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), and DNA replication, along with the explicit establishment of integrated proviral latency and viral entry into the host nucleus. This combination strongly suggests proteins involved in retroviral genome integration and provirus maintenance/ latency, with some transposon-like DNA rearrangement activity as related mechanics. Confidence: High","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":14},{"id":"GO:0015074","count":13},{"id":"GO:0006278","count":13},{"id":"GO:0006260","count":13},{"id":"GO:0075713","count":13}]},{"hash":"719271459598464575","title":"Plant cell wall modification and plasmodesmata organization","description":"This cluster is dominated by GO terms tied to plant-type cell wall processes, including cell wall modification, cellulose biosynthesis regulation, and plasmodesmata organization, indicating a focus on plant cell wall biology and intercellular connectivity. While a few terms relate to general development (e.g., segmentation, polarity), the strongest signals are plant cell wall related, supporting the label.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009831","count":2},{"id":"GO:0009663","count":2},{"id":"GO:2001009","count":2},{"id":"GO:0016267","count":1},{"id":"GO:0036011","count":1}]},{"hash":"375437131121616818","title":"Opioid- and Dopaminergic Pain Signaling","description":"The dominance of GO terms for response to morphine, dopaminergic synaptic transmission, and pain perception, supported by signaling processes like ERK cascade and protein phosphorylation, points to a module involved in opioid-regulated dopamine signaling and pain processing. Some terms (e.g., heart development, cadmium response) seem peripheral but do not override the core theme. ","confidence":"Medium","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0090503","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0071276","count":3}]},{"hash":"1945385257529095899","title":"Signaling and Developmental Pathways","description":"The top GO terms cluster around signaling pathways (integrin-mediated signaling, TGF-beta response, insulin receptor signaling) and developmental processes (embryonic cranial skeleton morphogenesis), with additional diverse processes including neural plasticity, immune regulation, and core cellular machinery (ribosome biogenesis, DNA replication, splicing). This suggests a broad theme centered on signaling and development, rather than a single, cohesive function, hence the chosen label.","confidence":"Medium","size":19,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0042254","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0048701","count":2}]},{"hash":"2057963237903267350","title":"Thermal and cardiac electrophysiology signaling","description":"The cluster shows strong representation of temperature-related responses (diet-induced thermogenesis, cellular response to temperature stimulus) alongside neural sensory processes (pain perception, startle response, cerebellum maturation) and clear cardiac electrophysiology terms (AV node and bundle of His action potentials, Purkinje signaling, membrane potential changes). This suggests a shared theme of temperature/nerve signaling intersecting with cardiac electrical activity, justifying a combined label focused on thermal and cardiac electrophysiology signaling.","confidence":"Medium","size":19,"edges":74,"triangles":34,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":17},{"id":"GO:0071502","count":17},{"id":"GO:0019233","count":17},{"id":"GO:0021590","count":9},{"id":"GO:0060081","count":9}]},{"hash":"1846588648305428632","title":"Unknown","description":"The Top Terms show a highly diverse mix of processes from different realms (transmembrane transport, various developmental contexts, Golgi vesicle budding, necroptosis) plus plant-specific functions, with no clear, shared biological theme or consistent organism context. There are no edges or coherent interactions tying these terms together, so no single representative function stands out for this cluster.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055085","count":2},{"id":"GO:0021678","count":2},{"id":"GO:0009903","count":1},{"id":"GO:0034609","count":1},{"id":"GO:0048194","count":1}]},{"hash":"1984887098084960224","title":"ESCRT-driven MVB Sorting and Degradation","description":"The strongest signals are ESCRT-mediated processes: viral budding via host ESCRT, multivesicular body assembly and sorting, and ubiquitin-dependent transport to the vacuole via the MVB pathway, pointing to ESCRT/MVB vesicle trafficking as the core function. Apoptosis and cell cycle terms may reflect broader cellular regulation, but the cohesive theme remains endosomal sorting and degradation. ","confidence":"High","size":19,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0039702","count":2},{"id":"GO:1902188","count":2},{"id":"GO:0036258","count":2},{"id":"GO:1901673","count":2}]},{"hash":"1650426681470529492","title":"Ribosome biogenesis and RNA silencing machinery","description":"The cluster is dominated by terms tied to protein synthesis and RNA processing, notably translation and ribosome biogenesis, along with RISC complex assembly and regulation of post-transcriptional gene silencing, indicating involvement in RNAi and ribosomal functions. A few development-related terms appear but are less central to the core theme, suggesting the primary function is RNA processing/translation machinery rather than broad developmental roles.","confidence":"Medium","size":19,"edges":78,"triangles":148,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0046677","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0048899","count":2}]},{"hash":"1352783940312302881","title":"Neuronal development and synaptic plasticity","description":"The terms cluster around CNS neuron formation and connectivity, including dendritic spine morphogenesis, axonogenesis, nerve branching, and synapse assembly/plasticity, with regulation of Wnt signaling. A few immune-related terms appear but the dominant pattern points to neuronal development and synaptic maturation. ","confidence":"Medium","size":19,"edges":26,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0016575","count":2},{"id":"GO:0060997","count":2},{"id":"GO:0048755","count":2},{"id":"GO:0001806","count":2},{"id":"GO:0050798","count":2}]},{"hash":"2161391450655239787","title":"RNA processing and DNA repair","description":"Dominant GO terms show RNA metabolism (mRNA processing, tRNA wobble modification, translation regulation by tRNA modification) and nucleic acid repair (RNA/DNA repair, DNA alkylation repair), with a secondary hint of mitochondrial involvement in programmed necrosis. The cluster lacks network edges, but the functions cohere around nucleic acid maintenance and modification.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"programmed cell death","top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0035553","count":3},{"id":"GO:1990983","count":3},{"id":"GO:0012501","count":3},{"id":"GO:0042245","count":3}]},{"hash":"384233847322490043","title":"ECM Remodeling and Integrin Signaling","description":"The cluster shows enrichment for extracellular matrix and adhesion-related processes: positive regulation of metallopeptidase activity, hyaluronan metabolic process, and integrin-mediated signaling, which together point to ECM remodeling and cell-matrix communication. Developmental terms like neural tube closure and sepal formation further support a role for ECM dynamics in morphogenesis. While DNA-templated transcription and defense/immune terms appear, the cohesive theme centers on ECM remodeling and integrin signaling guiding cell adhesion and signaling in development and defense contexts.","confidence":"Medium","size":19,"edges":86,"triangles":197,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:1905050","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0030212","count":4},{"id":"GO:0019076","count":4}]},{"hash":"656368021701884414","title":"Cardiac and skeletal muscle signaling and development","description":"This cluster centers on heart development, regulation of cardiac muscle contraction, and skeletal muscle fiber development, along with calcium and cAMP signaling (calcium ion release regulation, adenylate cyclase activation) and protein phosphorylation. These together point to muscle development and the signaling pathways governing muscle contraction, with a few outliers likely due to annotation noise (e.g., xenobiotic response, visual perception). Overall, the name reflects the dominant muscle-focused theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043950","count":2},{"id":"GO:0055117","count":2},{"id":"GO:0048741","count":2}]},{"hash":"1961749103309190581","title":"Cell Signaling Regulators","description":"This cluster prominently features GO terms tied to regulation of signaling (Rho signaling, insulin receptor signaling, peptidyl-threonine phosphorylation), suggesting a core theme of modulating pathways. Other terms indicate developmental or metabolic contexts, implying the proteins may have diverse roles beyond a single pathway. Given the lack of connectivity (no edges), labeling as Cell Signaling Regulators captures the shared regulatory function without overcommitting to a single process. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0061000","count":2},{"id":"GO:2001172","count":2},{"id":"GO:0090180","count":2}]},{"hash":"152086032251269474","title":"GPCR signaling in heart and gut","description":"This cluster's top GO terms converge on GPCR-mediated signaling cascades, especially adenylate cyclase-inhibiting serotonin and dopamine receptor pathways, ERK1/2 activation, and protein phosphorylation, with downstream effects on hormone secretion, heart development, and intestinal smooth muscle contraction. Although one term about viral release appears, the dominant pattern is GPCR-driven signaling governing cardiovascular and gastrointestinal function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":14},{"id":"GO:0002882","count":14},{"id":"GO:0033861","count":14},{"id":"GO:0007198","count":14},{"id":"GO:0070374","count":14}]},{"hash":"989677520148117760","title":"Membrane Transport and Complement Activation","description":"The cluster includes several membrane transport terms (phosphate ion transport, manganese ion transport, sodium-dependent organic cation transport, neurotransmitter loading into synaptic vesicle) alongside immune-related terms for complement activation (classical and alternative pathways, and MAC activation). While there are also developmental and cell-matrix adhesion terms, the strongest recurring themes are transport across membranes and activation of the complement system, making this a concise and representative label.","confidence":"Medium","size":19,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0034392","count":2},{"id":"GO:0001970","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0006957","count":2}]},{"hash":"170308858375525596","title":"Retroviral life cycle and host response","description":"The top GO terms cluster around retroviral processes: DNA integration, establishment of proviral latency, and viral release, complemented by host defense pathways such as protein ubiquitination and Toll-like receptor signaling. While a few terms touch on neuronal development, the dominant theme is viral infection and the corresponding host response, suggesting these proteins participate in the retroviral life cycle and innate immunity.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0019076","count":2}]},{"hash":"1977856548072952039","title":"Endocytosis and cell migration","description":"Based on the prevalent GO terms, the cluster centers on membrane trafficking and cytoskeletal-driven movement, including endocytosis, endosome-to-lysosome transport, phagocytic engulfment, and assembly of structures like lamellipodia and podosomes, along with hemocyte migration. While a few terms (spermatid development, nervous system development, mitotic cell cycle) are more general or incidental, the strongest common theme is endocytic trafficking coupled to cell motility.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":3},{"id":"GO:0006998","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0008333","count":2}]},{"hash":"814188489813143728","title":"Steroid and lipid biosynthesis","description":"This cluster is enriched for GO terms tied to lipid- and steroid-derived biosynthesis and metabolism, including calcitriol, testosterone, brassinosteroids, and oxylipins, as well as lipid hydroxylation and homeostasis. While some terms touch on development or reproduction, the dominant signal is lipid- and steroid-based biosynthetic processes, justifying a label centered on steroid and lipid metabolism.","confidence":"High","size":19,"edges":35,"triangles":18,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0036378","count":14},{"id":"GO:0031408","count":14},{"id":"GO:0061370","count":14},{"id":"GO:0070365","count":14},{"id":"GO:0016132","count":14}]},{"hash":"1978235370737037596","title":"Transmembrane Transporters","description":"The GO terms are centered on transport across membranes for diverse substrates\u2014ions, sugars, vitamins, nitrite/nitrate, xenobiotics, and even neurotransmitter loading into vesicles\u2014indicating a cluster of membrane transporter proteins with broad substrate specificity rather than a single substrate-specific function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":5},{"id":"GO:0015707","count":5},{"id":"GO:0035725","count":5},{"id":"GO:0015751","count":5},{"id":"GO:0015757","count":5}]},{"hash":"1111050089273744914","title":"Bacterial membrane transport and secretion","description":"The top GO terms show multiple transmembrane transport activities across substrates like xenobiotics, vitamins, cobalt, and heme, plus bacteriocin transport/immunity and a Type I secretion system component. This points to a cohesive theme of membrane transport and secretion in bacteria. An outlier term (nucleotide-excision repair) is present but does not alter the primary transport/secretory signal, so the name reflects the dominant function.","confidence":"High","size":19,"edges":27,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":12},{"id":"GO:0035461","count":11},{"id":"GO:0042891","count":10},{"id":"GO:0015886","count":7},{"id":"GO:0030153","count":7}]},{"hash":"2083518268015229552","title":"LPS-TLR-Mediated Inflammation","description":"This cluster centers on innate immune activation via lipopolysaccharide signaling and MyD88-dependent Toll-like receptor pathways, with inflammatory responses and cytokine production driving leukocyte recruitment. While a few terms (e.g., unrelated developmental processes) appear, the dominant signals point to an LPS-triggered inflammatory immune response.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031663","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0002755","count":2},{"id":"GO:0006954","count":2},{"id":"GO:0050900","count":1}]},{"hash":"986082460528545840","title":"Cardiac GPCR-Calcium Signaling and Vasoconstriction","description":"The top GO terms emphasize GPCR signaling, calcium release into the cytosol, prostaglandin-response, heart development, and vasoconstriction, suggesting a cohesive module around GPCR-driven calcium signaling that regulates cardiac and vascular function. Some terms such as inflammatory responses and cell migration appear ancillary or broader, but do not override the central cardiovascular signaling theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051209","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0045907","count":4},{"id":"GO:0002031","count":4},{"id":"GO:0071380","count":4}]},{"hash":"1588244425309479807","title":"Cardiovascular GPCR Signaling and Apoptosis","description":"Because the most represented GO terms center on heart development, regulation of vasoconstriction, prostaglandin-induced signaling, and GPCR internalization, the cluster appears to reflect cardiovascular GPCR signaling, including prostaglandin responsiveness and smooth muscle regulation, with concurrent activation of mitochondrial apoptotic pathways (intrinsic pathway and cytochrome c release). The combination of vascular and apoptotic terms supports a coherent theme in cardiac signaling and cell fate regulation.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0045907","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0007202","count":2}]},{"hash":"786266294172765313","title":"Embryonic development and morphogenesis","description":"All top GO terms center on developmental processes during embryogenesis, including placenta-related differentiation, EMT in heart formation, cartilage and digit morphogenesis, neural crest migration, and left-right patterning. This clustering points to a theme of embryonic tissue morphogenesis and lineage specification; the single DNA repair term appears as an outlier. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0003323","count":2}]},{"hash":"1705510312002338045","title":"GTPase signaling and actin dynamics regulation","description":"The top terms point to regulation of GTPase activity and Arp2/3-mediated actin nucleation, highlighting cytoskeletal remodeling linked to signaling. Additional terms reflect kinase signaling (peptidyl-tyrosine phosphorylation and autophosphorylation) and gene expression control (DNA-templated transcription, mRNA transport), with some terms likely remnants of noise (obsolete aging, pigmentation). Overall, the cluster seems to reflect broader signaling and transcriptional regulation intertwined with cytoskeletal dynamics rather than a single, narrow function.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":9},{"id":"GO:0007568","count":8},{"id":"GO:0050731","count":6},{"id":"GO:2000601","count":6},{"id":"GO:0071456","count":6}]},{"hash":"384911236774617191","title":"Unknown","description":"The GO terms span neural processes (dendritic spine morphogenesis, vocalization behavior), immune signaling (platelet activation, membrane attack complex activation, T cell homeostasis, myeloid apoptosis), adhesion, and metabolism, with no single cohesive function evident to tie all terms together.","confidence":"","size":18,"edges":28,"triangles":12,"max_degree":16,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0071625","count":10},{"id":"GO:0060997","count":7},{"id":"GO:0034392","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0051006","count":6}]},{"hash":"1883487920929561640","title":"Protein quality control and stress response","description":"Top terms indicate emphasis on stress granule disassembly, aggresome assembly, and nonfunctional rRNA decay, all linked to protein quality control under cellular stress. While other processes like ER-to-Golgi transport, peroxisomal import, and microtubule dynamics appear, the strongest shared theme is handling misfolded proteins and stress-associated structures.","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035617","count":7},{"id":"GO:0070389","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0006888","count":6},{"id":"GO:0030420","count":6}]},{"hash":"1274569442114353384","title":"Nuclear RNA Processing and Genome Integrity Regulators","description":"The dominant GO terms point to nuclear RNA processing (mRNA splicing via spliceosome; regulation of endoribonuclease activity) with additional links to nucleolar localization, centrosome regulation, and DNA damage response, including p53-mediated signaling and meiotic division. This suggests a cohesive function layer where RNA processing and nuclear regulatory controls intersect with genome maintenance and cell cycle events.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":2},{"id":"GO:0032515","count":2},{"id":"GO:0060699","count":2},{"id":"GO:0006407","count":2},{"id":"GO:1904751","count":2}]},{"hash":"2176757481346316188","title":"Telomere maintenance and mitotic regulation","description":"The dominant GO terms cluster around telomere maintenance via telomerase, telomere capping, and regulation of telomeric DNA binding, as well as mitotic processes like spindle assembly and sister chromatid cohesion. The presence of ADP-ribosylation terms (PARP-related) hints at DNA damage signaling or chromatin regulation that can intersect telomere biology. Some terms (mRNA processing, Wnt signaling) are less central, but the telomere/mitosis theme is most representative for this cluster.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0070213","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0070212","count":3},{"id":"GO:0051225","count":3}]},{"hash":"1734394742048767652","title":"GPCR Signaling and Phototransduction","description":"The set heavily features GPCR-coupled pathways: adenylyl cyclase activation via adrenergic and dopamine receptors, cAMP signaling, PLC activation, PI biosynthesis, and phototransduction; heart development relates to GPCR roles in cardiac signaling. These shared functions support a label focused on GPCR signaling and phototransduction.","confidence":"High","size":18,"edges":19,"triangles":7,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":18},{"id":"GO:0007603","count":18},{"id":"GO:0071880","count":18},{"id":"GO:0043950","count":18},{"id":"GO:0060158","count":18}]},{"hash":"1467150582020281572","title":"RNA processing and repair linked to programmed cell death","description":"The cluster is enriched for mRNA processing, tRNA modification, RNA and DNA repair, and includes terms related to programmed cell death and mitochondrial membrane permeability, suggesting a function in RNA metabolism and genome maintenance that connects to cell death pathways.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"programmed cell death","top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0035553","count":4},{"id":"GO:1990983","count":4},{"id":"GO:0012501","count":4},{"id":"GO:0042245","count":4}]},{"hash":"2147008713083809843","title":"Brain and Retinal Development with RA Signaling","description":"Top GO terms emphasize brain and retina development and retinoic acid response, indicating a developmental program in the nervous system and eye, with embryogenesis and regulatory processes accompanying them. Overall, the cluster appears to reflect neuroretinal development influenced by retinoic acid.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0043547","count":3}]},{"hash":"909434162793724380","title":"Protein and polyamine acetylation","description":"The top terms are dominated by acetylation-related processes (peptidyl-lysine, N-terminal acetylation, spermidine acetylation) and related metabolism (N-acetylglucosamine, putrescine turnover), suggesting a coherent focus on acetylation pathways; a few terms like angiogenesis or leaf formation appear peripheral noise. ","confidence":"Medium","size":18,"edges":10,"triangles":1,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0018003","count":8},{"id":"GO:0001525","count":7},{"id":"GO:0060358","count":6},{"id":"GO:0032918","count":6},{"id":"GO:0030187","count":6}]},{"hash":"1780904291314492587","title":"Steroid and lipid biosynthesis","description":"This cluster is characterized by GO terms for biosynthetic and metabolic pathways across lipids, steroids, and pigments\u2014testosterone biosynthesis, retinol and sphingolipid biosynthesis, melanin synthesis, mycolic acid biosynthesis, etc.\u2014indicating a common theme of lipid/steroid and pigment production. Some terms like regulation of transcription or drug response appear less central.","confidence":"Medium","size":18,"edges":39,"triangles":27,"max_degree":11,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":14},{"id":"GO:0061370","count":13},{"id":"GO:0042438","count":13},{"id":"GO:0042572","count":13},{"id":"GO:0006355","count":13}]},{"hash":"885011302544693363","title":"Innate Antiviral Defense","description":"Enriched for innate immune response and defense against virus, with regulatory links to TNF signaling and ubiquitination, suggesting proteins involved in antiviral innate immunity and immune signaling; some terms reflect regulatory or context-specific roles, but the central theme is antiviral defense.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":3},{"id":"GO:1901253","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0051607","count":2}]},{"hash":"1894080308141345026","title":"Translation initiation and mRNA processing","description":"The top GO terms cluster around forming the translation preinitiation complex, translation reinitiation, regulation of translational initiation, and several mRNA processing/splicing processes, suggesting a cohesive role in post-transcriptional gene expression control (especially under stress). The name captures the core shared functions of translation initiation and mRNA processing in this group.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0006378","count":7},{"id":"GO:0071456","count":6},{"id":"GO:0051301","count":6}]},{"hash":"2090942426626122230","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":18,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0001707","count":2},{"id":"GO:0070843","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0071374","count":2}]},{"hash":"542809785521647344","title":"Unknown","description":"The top GO terms span animal reproductive development (prostate gland development, male sex differentiation, steroid hormone receptor complex assembly) as well as plant-specific processes (cytokinin signaling, photosynthesis) and general metabolism (regulation of gluconeogenesis). The terms come from very different biological contexts, and there\u2019s no single coherent pathway or function tying them together, especially with several obsolete terms and no interactions observed. Hence there isn\u2019t a clear label beyond Unknown, with no confidence in a representative function.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0030850","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0006463","count":5},{"id":"GO:0046661","count":5},{"id":"GO:1903646","count":4}]},{"hash":"1453817779958786790","title":"Cartilage formation and intramembranous ossification","description":"This cluster is driven by GO terms for cartilage condensation, intramembranous ossification, and growth plate chondrocyte development, with collagen remodeling through catabolic processes, pointing to skeletal development and bone formation. Some terms like complement activation or skin development are present but are secondary to the cartilage/bone-focused signals.","confidence":"High","size":18,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":3},{"id":"GO:0001957","count":3},{"id":"GO:0030574","count":3},{"id":"GO:0006958","count":3},{"id":"GO:1903225","count":2}]},{"hash":"2288143158101381680","title":"Unknown","description":"Unknown","confidence":"","size":18,"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:0071035","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0071039","count":1}]},{"hash":"1677216089797790066","title":"Angiogenesis and Immune Development","description":"These proteins appear linked to vascular development and immune signaling. The terms emphasize angiogenesis and differentiation/development, with adjunct inflammatory mediators (angiotensin maturation, leukotriene biosynthesis) and adaptive immunity (MHC I antigen presentation, adaptive immune response). This suggests a theme of angiogenesis intertwined with immune differentiation and remodeling.","confidence":"High","size":18,"edges":14,"triangles":1,"max_degree":13,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0030154","count":6},{"id":"GO:0002005","count":6},{"id":"GO:0019370","count":6},{"id":"GO:0002003","count":6},{"id":"GO:0001525","count":6}]},{"hash":"1360026396880694936","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by ribosome biogenesis, maturation of SSU-rRNA, and translation-related processes, including formation of the translation preinitiation complex and large subunit export. This clearly points to a functional group focused on assembling and utilizing ribosomes for protein synthesis, with some peripheral terms that are less central to this core function. ","confidence":"High","size":18,"edges":98,"triangles":277,"max_degree":17,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042273","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0046677","count":3}]},{"hash":"1863380370534049963","title":"Immune activation and chemokine production","description":"The top GO terms point to enhanced chemokine production (including MCP-1), positive regulation of T cell proliferation, immunoglobulin production, and Fc-gamma receptor\u2013mediated phagocytosis, indicating a core theme of immune activation and signaling. A few neuronal development terms appear but at low frequencies and do not define the cluster. Thus the label captures the primary functional axis of the group.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071639","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0042102","count":2},{"id":"GO:0002377","count":1},{"id":"GO:0038096","count":1}]},{"hash":"2245594664582440642","title":"Cardiovascular and Visual GPCR Signaling","description":"The dominant terms cluster around GPCR-related signaling and downstream calcium/GTPase processes that influence cardiovascular functions (blood coagulation, heart development, vasoconstriction) and eye physiology (photoreceptor maintenance, visual perception, prostaglandin response). The combination suggests a shared theme of GPCR-mediated signaling in heart/vasculature and retina, with calcium mobilization and cell adhesion contributing to the pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0045907","count":3},{"id":"GO:0002031","count":3},{"id":"GO:0045494","count":3}]},{"hash":"308501632284731496","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":29,"triangles":11,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0070086","count":3},{"id":"GO:0035278","count":2}]},{"hash":"2103026501200213858","title":"Collagen biosynthesis and connective tissue development","description":"The terms cluster around collagen biosynthetic process, collagen-activated signaling, cartilage chondrocyte development, skin development, and cell adhesion molecule production, all pointing to extracellular matrix formation and connective tissue development; a few differentiation terms seem ancillary. ","confidence":"Medium","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903225","count":1},{"id":"GO:0003431","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0070994","count":1}]},{"hash":"1190338673500995409","title":"Immune-vascular signaling and cell adhesion","description":"The top GO terms point to RTK and integrin signaling (Kit, sevenless, integrin-mediated), adherens junction organization, endothelial cell migration, mast cell proliferation, and cytokine production, suggesting a cohesive theme of immune activation linked to vascular remodeling and cell\u2013cell adhesion rather than a metabolic process.","confidence":"High","size":18,"edges":35,"triangles":15,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":17},{"id":"GO:0045500","count":14},{"id":"GO:0034332","count":14},{"id":"GO:0038109","count":14},{"id":"GO:0006470","count":14}]},{"hash":"992596962967736055","title":"Inflammation and Cardiac Signaling","description":"The terms point to inflammatory responses and various signaling pathways (ERK cascade, protein phosphorylation, receptor-mediated cAMP signaling) with a clear hint of heart-related development (heart development, extracellular matrix signaling). While a few terms touch on viral processes and oxidase regulation, the dominant theme is inflammation intertwined with cardiovascular signaling and development, suggesting a cluster centered on inflammatory signaling in a cardiac context.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":2},{"id":"GO:0019076","count":1},{"id":"GO:0035426","count":1},{"id":"GO:0002882","count":1},{"id":"GO:0033861","count":1}]},{"hash":"608577302466205729","title":"RNA processing and DNA repair linked to cell death","description":"The cluster shows frequent GO terms for mRNA processing, tRNA modification, RNA repair, DNA repair, and programmed cell death including mitochondrial membrane permeability changes, suggesting a coherent theme of nucleic acid maintenance with links to cell death signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0035553","count":2},{"id":"GO:1990983","count":2},{"id":"GO:0012501","count":2},{"id":"GO:0042245","count":2}]},{"hash":"1962244525984065126","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001675","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0070493","count":2}]},{"hash":"1580131124696611742","title":"Unknown","description":"These 18 proteins show top GO terms across transcription regulation, sporulation, GTPase activity regulation, immune cell chemotaxis, cell wall and peptidoglycan catabolism, blood coagulation, and cell cycle control\u2014with no single cohesive process tying them together. The diversity suggests no unified function for the cluster. ","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0030435","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0002407","count":2}]},{"hash":"183595461724306492","title":"Neuronal signaling and cardiac development","description":"The terms cluster around neural processes (PNS myelination, neurotransmitter secretion, phototransduction, long-term memory, calcium-NFAT signaling) with some cardiac-related terms (heart development, regulation of heart contraction). This suggests a group of proteins involved in signaling in excitable tissues, spanning nervous system and heart contexts, rather than a single pathway. Confidence is moderate due to the mixed themes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":2},{"id":"GO:0006468","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0090151","count":1},{"id":"GO:0045163","count":1}]},{"hash":"963988387326016978","title":"GPCR Signaling in Heart and Intestine","description":"This cluster\u2019s top GO terms converge on GPCR-mediated signaling that inhibits adenylate cyclase (serotonin, dopamine receptors), promotes ERK1/2 signaling, and involves protein phosphorylation, with additional emphasis on hormone secretion and tissue-specific roles in heart development and intestinal smooth muscle contraction. While one term mentions viral release, the core theme is coordinated GPCR-driven signal transduction affecting cardiac and smooth muscle function. ","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":8},{"id":"GO:0002882","count":8},{"id":"GO:0033861","count":8},{"id":"GO:0007198","count":8},{"id":"GO:0070374","count":8}]},{"hash":"577244474359380674","title":"Unknown","description":"GO terms span collagen biosynthesis, calcium-related processes, glycerol metabolism, vacuole fusion regulation, mitotic M phase, tyrosine dephosphorylation, molybdopterin cofactor biosynthesis, tRNA seleno-modification, and viral-host interactions. The set shows diverse, largely unrelated functions without a common biological theme or dominant pathway, so there is no coherent label other than Unknown.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032964","count":2},{"id":"GO:0005513","count":2},{"id":"GO:0006071","count":1},{"id":"GO:0032889","count":1},{"id":"GO:0000087","count":1}]},{"hash":"1178700905155319939","title":"Rho-Mediated Cytoskeletal Remodeling","description":"Top terms indicate reliance on Rho GTPase signaling and actin dynamics (lamellipodium assembly) driving cell morphogenesis, with links to heart development and angiogenesis, suggesting a cohesive theme of cytoskeletal remodeling guiding morphogenesis and organ formation, while neural development terms reflect broader developmental roles.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0030032","count":3},{"id":"GO:0000902","count":3}]},{"hash":"1713925477777669946","title":"Actin cytoskeleton remodeling and Rho signaling","description":"The terms strongly cluster around actin filament dynamics (network formation, uncapping, microvillus length) and Rho GTPase signaling, with links to exocytosis and cytoskeletal-driven processes in muscle and neuronal contexts. This suggests a coherent theme of actin-driven remodeling and membrane trafficking regulated by Rho/GTPase signaling across muscle and neural cell types.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":4},{"id":"GO:0035023","count":3},{"id":"GO:0006887","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0071670","count":2}]},{"hash":"664325062543868076","title":"Cardiac development and DNA damage response","description":"This cluster combines GO terms tied to heart/muscle development and protection of cardiac cells (e.g., regulation of apoptosis in cardiac muscle, negative regulation of cardiac muscle cell apoptosis, ductus arteriosus closure) with DNA damage repair and checkpoint regulation (e.g., double-strand break repair via NHEJ, DNA damage checkpoint), suggesting a theme around cardiac development coupled with genome maintenance mechanisms. While some terms (like circadian rhythm regulation) are broader, the dominant signal points to cardiac development aligned with DNA damage response pathways. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":1},{"id":"GO:2001015","count":1},{"id":"GO:0097070","count":1},{"id":"GO:0010667","count":1},{"id":"GO:0006355","count":1}]},{"hash":"1478134609403539099","title":"Translation initiation and ER-Golgi trafficking","description":"These proteins show enrichment for ribosome biogenesis, formation of translation preinitiation complex, and ER-to-Golgi vesicle transport, suggesting a core theme around protein synthesis and processing through the secretory pathway. Additional terms touch on actin cytoskeleton interactions and transcription factor localization, which may reflect general cellular organization supporting these processes. The lens fiber differentiation term is less central to a cohesive core function, so the primary signal points to translation/trafficking machinery. Confidence: Medium","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0055114","count":2}]},{"hash":"261912171718833178","title":"Glucocorticoid Signaling in Development","description":"The top GO terms point to nuclear receptor-mediated glucocorticoid signaling and transcriptional regulation, with additional signals for lung and auditory development, ribosome biogenesis, and protein turnover. This suggests a theme where glucocorticoid-driven transcriptional programs influence developmental processes across tissues, while also encompassing general stress and immune responses (hydrogen peroxide, dsRNA) and protein homeostasis. Overall, a coherent cluster around steroid signaling guiding development and gene expression.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042921","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0008209","count":2},{"id":"GO:0030324","count":2}]},{"hash":"415332304759576067","title":"Neural development and axon guidance","description":"The proteins are enriched for neural development and connectivity processes, including CNS development, synapse organization, and a strong signal for axon guidance via semaphorin-plexin pathways. Additional terms point to sensory neuron lineages (auditory receptor cell development, olfactory placode morphogenesis) and cytoskeletal signaling (Rho signaling, MAPK-related autophosphorylation) that drive neurite outgrowth and synapse formation; ubiquitination may regulate these signaling events. Overall, the cluster cohesively centers on neural development and axon guidance.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0046777","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0001525","count":2},{"id":"GO:0007417","count":2}]},{"hash":"721594882409747589","title":"Endothelial signaling and vascular development","description":"This cluster shows multiple GO terms tied to endothelial cell behavior and blood vessel formation, including endothelial cell-cell adhesion, chemotaxis, and regulation of endothelial migration, as well as cues for vascular morphogenesis in the heart (apoptotic process in heart morphogenesis, TGF-beta signaling). ERK/MAPK pathway activation is represented by positive regulation of ERK1/ERK2 cascade, linking signaling to endothelial responses. Together, these terms point to a cohesive theme of endothelial cell signaling driving vascular development and heart-associated morphogenesis.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0070208","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0046676","count":2},{"id":"GO:0003278","count":2}]},{"hash":"302974892080464044","title":"Unknown","description":"The GO terms span DNA processing (integration, recombination, replication, RNA-templated biosynthesis) and neural development (lens morphogenesis, axonal fasciculation, sympathetic nervous system development) plus intracellular transport and spindle assembly. The mixture of unrelated processes and lack of network connections provides no clear, cohesive function for the cluster, so a single descriptive label cannot be reliably assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0070309","count":2},{"id":"GO:0048485","count":2},{"id":"GO:0007413","count":2}]},{"hash":"1255321044607900673","title":"GPCR-mediated signaling in heart and muscle","description":"The top GO terms point to GPCR signaling (adenylate cyclase-inhibiting serotonin and dopamine pathways), with downstream effects on ERK/MAPK cascade and protein phosphorylation. The presence of heart development and smooth muscle contraction terms suggests a tissue-specific signaling theme affecting cardiac and muscular physiology. Some terms (like viral release and inflammatory response) may reflect broader regulatory contexts or annotation noise, but the core pattern supports GPCR-driven signal transduction in muscle/heart function.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":10},{"id":"GO:0002882","count":10},{"id":"GO:0033861","count":10},{"id":"GO:0007198","count":10},{"id":"GO:0070374","count":10}]},{"hash":"1529709311334680422","title":"Actin-Dependent Organelle Transport and Cytokinesis","description":"Top GO terms cluster around actin-driven transport of vesicles and organelles (mitochondrion inheritance, pigment granule transport) and assembly/organization of the mitotic contractile machinery (contractile ring actin filament bundle, centrosome positioning). This points to a cohesive theme of actin-based intracellular transport tied to cell division and organelle partitioning, with a few unrelated terms present but not dominant. Confidence in this label is Medium.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0030050","count":1},{"id":"GO:1903477","count":1},{"id":"GO:0051904","count":1},{"id":"GO:1900748","count":1}]},{"hash":"1872287114964410142","title":"Viral integration and replication","description":"The top GO terms cluster around retroviral and proviral processes: DNA integration, recombination, RNA-templated DNA biosynthesis, and DNA replication, plus establishment of integrated proviral latency and viral entry into the host nucleus. Additional terms about symbiont entry and host apoptosis, and modulation of RNAi, reflect virus\u2013host interactions during infection. Together they point to a cohesive theme of viral life cycle and proviral latency.","confidence":"High","size":17,"edges":127,"triangles":558,"max_degree":16,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":14},{"id":"GO:0006310","count":14},{"id":"GO:0006278","count":14},{"id":"GO:0006260","count":14},{"id":"GO:0075713","count":14}]},{"hash":"548823507922854443","title":"Retroviral integration and latency","description":"This cluster centers on viral DNA integration, reverse transcription, and proviral latency, with related terms for viral entry into the host nucleus and host RNA interference suppression, plus DNA replication/recombination signals. The combination points to a cohesive retroviral life cycle and host-pathogen interaction theme, rather than unrelated DNA processes.","confidence":"High","size":17,"edges":94,"triangles":228,"max_degree":14,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":14},{"id":"GO:0006310","count":14},{"id":"GO:0075713","count":14},{"id":"GO:0006278","count":13},{"id":"GO:0006260","count":13}]},{"hash":"815121298385919034","title":"Mitotic spindle assembly and cytokinesis","description":"The cluster is dominated by terms tied to mitosis and microtubule dynamics (cell cycle, spindle assembly, cytokinesis, microtubule organization/nucleation), indicating a cohesive mitotic function; a few outliers (neuron migration, IL-4 response) are less central.","confidence":"High","size":17,"edges":113,"triangles":466,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":16},{"id":"GO:0007049","count":15},{"id":"GO:0071353","count":15},{"id":"GO:0001764","count":14},{"id":"GO:0051256","count":14}]},{"hash":"1325698056744206999","title":"Muscle fiber and cytoskeletal assembly","description":"This cluster features strong signals for skeletal muscle fiber development and sarcomere organization, plus terminal web assembly, pointing to cytoskeletal construction in muscle and epithelial contexts. Signaling terms (phosphatidylinositol-mediated signaling and calcium-modulating Wnt pathway) suggest regulatory pathways coordinating cytoskeletal dynamics and contractile function, supporting a muscle/cytoskeletal theme despite some noise from memory or skin terms.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048741","count":4},{"id":"GO:1902896","count":4},{"id":"GO:0051260","count":3},{"id":"GO:0045214","count":3},{"id":"GO:0048015","count":3}]},{"hash":"1767172634156166678","title":"Developmental signaling and pain sensing","description":"This cluster shows an emphasis on broad developmental processes (multicellular organism development, heart development, ossification/bone maturation) alongside sensory and signaling activities (pain detection, neurotransmitter secretion, protein phosphorylation). The mix suggests proteins involved in developmental regulation and downstream signaling related to sensory/neurotransmitter pathways, with some stress responses (hypoxia) and apoptosis regulation as supporting themes. The lack of interactions among members further supports a broad, multi-function grouping rather than a single cohesive pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043065","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0050968","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0050966","count":2}]},{"hash":"644329483025848669","title":"Unknown","description":"The GO terms show a highly disparate mix (muscle development, synaptic vesicle endocytosis, renal sodium absorption, plant flower development, swimming, circadian regulation, tRNA modification, ubiquitin-dependent proteolysis, etc.), with no clear shared function or theme to tie all 17 proteins together. Therefore no cohesive label is apparent.","confidence":"","size":17,"edges":15,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":8},{"id":"GO:1900242","count":8},{"id":"GO:0070294","count":6},{"id":"GO:0009911","count":6},{"id":"GO:0036268","count":6}]},{"hash":"1165648221875442646","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0000467","count":2},{"id":"GO:0008033","count":2}]},{"hash":"1999942652166984046","title":"Actin Cytoskeleton Remodeling in Development and Neurons","description":"This cluster is enriched for actin-related processes: actin nucleation, positive regulation of actin filament bundle assembly, and dendritic spine morphogenesis, along with ruffle assembly and dorsal closure, all of which point to dynamic remodeling of the actin cytoskeleton in development and neuronal morphogenesis. While a few immune-related terms are present, the dominant signals describe cytoskeletal changes that shape cells and synapses.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045656","count":2},{"id":"GO:0048148","count":1},{"id":"GO:0045010","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0032233","count":1}]},{"hash":"1664703193567186411","title":"RNA processing and ribosome biogenesis","description":"The top GO terms cluster around mRNA splicing and multiple steps of ribosome biogenesis, including translation initiation and rRNA maturation, indicating a cohesive theme of RNA processing together with ribosome assembly and protein synthesis machinery (with some cell-division terms likely reflecting broader proliferative gene-expression programs).","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0006351","count":2}]},{"hash":"264974445067426781","title":"Actin Cytoskeleton Remodeling and Adhesion","description":"This cluster centers on actin dynamics and adhesion. Top terms cluster around actin cytoskeleton organization, actin filament polymerization, lamellipodium and spine morphogenesis, and small GTPase\u2013mediated signaling, pointing to coordinated actin remodeling driving cell migration and shape changes, with cell adhesion reinforcing the motif. A few less central terms (pericentric heterochromatin formation and regulation of insulin receptor signaling) appear but do not override the core actin-focused theme.","confidence":"High","size":17,"edges":128,"triangles":571,"max_degree":16,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030036","count":7},{"id":"GO:0007264","count":6},{"id":"GO:0060997","count":6},{"id":"GO:0051016","count":6},{"id":"GO:1900029","count":6}]},{"hash":"552109360293016361","title":"Developmental morphogenesis and tissue remodeling","description":"The cluster is dominated by GO terms tied to tissue shaping and remodeling across organs: lung branching morphogenesis and epithelial tube branching, basement membrane disassembly, bone resorption, decidualization, and associated signaling like Wnt and thyroid hormone responses, plus effects on neural precursor proliferation. These converge on a common theme of developmental morphogenesis and extracellular matrix remodeling, with additional immune and neuropeptide processing activities that modulate the remodeling environment. ","confidence":"High","size":17,"edges":72,"triangles":106,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0046697","count":14},{"id":"GO:0010813","count":14},{"id":"GO:0035593","count":14},{"id":"GO:0060448","count":14},{"id":"GO:0001913","count":14}]},{"hash":"882181835400323307","title":"Unknown","description":"The GO terms span multiple unrelated processes (heart and hippocampal development, forebrain differentiation, dopamine signaling, cell cycle, glucose response, bone resorption, and even yeast growth regulation), with no clear single biological theme tying the proteins together. A cohesive, specific label is not supported by the top terms.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060347","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0045453","count":3},{"id":"GO:0000186","count":3}]},{"hash":"1384660984708402796","title":"Cartilage growth and collagen biosynthesis","description":"These proteins are enriched for collagen biosynthetic processes, cartilage/chondrocyte development (growth plate), skin development, and collagen signaling, pointing to a connective tissue/ECM formation and remodeling theme. Additional terms like cell adhesion molecule production support tissue organization; a few ancillary terms (amino acid response, oxidative stress) do not override the primary connective tissue signal. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903225","count":5},{"id":"GO:0003431","count":5},{"id":"GO:0070208","count":5},{"id":"GO:0071230","count":5},{"id":"GO:0070994","count":5}]},{"hash":"1705536711357539259","title":"Unknown","description":"The terms span DNA transposition, RNA processing, various metabolic and lipid processes, and even a plant-development term, with no single coherent biological function tying all members together, so the cluster appears to be functionally diverse rather than a dedicated module.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006313","count":4},{"id":"GO:0046835","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0010223","count":3},{"id":"GO:0046839","count":3}]},{"hash":"1088890638491993861","title":"GPCR-Mediated Neurotransmitter Signaling and Cardiac Regulation","description":"The cluster\u2019s top GO terms point to GPCR signaling driven by dopamine and serotonin receptors, including adenylate cyclase inhibition, ERK pathway activation, and protein phosphorylation, with downstream effects on hormone secretion, heart development, and intestinal smooth muscle contraction. Although one term relates to viral release (likely noise), the dominant pattern is GPCR-mediated signaling influencing cardiac and endocrine/muscular processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":11},{"id":"GO:0002882","count":11},{"id":"GO:0033861","count":11},{"id":"GO:0007198","count":11},{"id":"GO:0070374","count":11}]},{"hash":"1131395984047993770","title":"Embryonic Neurodevelopment and Organogenesis","description":"The top GO terms cluster around developmental processes across the nervous system (cerebellar signaling, hypothalamus differentiation, basal brain regions) and other organs (heart, kidneys, olfactory placode), as well as behavior. This pattern suggests proteins involved in early embryo development and organ formation rather than a single pathway.","confidence":"Medium","size":17,"edges":31,"triangles":14,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0002087","count":12},{"id":"GO:0072075","count":11},{"id":"GO:0021759","count":11},{"id":"GO:0007275","count":11},{"id":"GO:0021937","count":10}]},{"hash":"1770810159056589444","title":"Proteoglycan and Glycosaminoglycan Biosynthesis","description":"This cluster is dominated by GO terms for biosynthesis and metabolism of proteoglycans and glycosaminoglycans (heparan sulfate, dermatan sulfate, chondroitin sulfate), with related polysaccharide localization suggesting extracellular matrix roles. Although a few terms are marked obsolete, they point to the same core function of assembling proteoglycans. The label directly captures the prevalent theme across the top terms.","confidence":"High","size":17,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0033037","count":3},{"id":"GO:0015015","count":3},{"id":"GO:0030208","count":3},{"id":"GO:0050655","count":3},{"id":"GO:0030202","count":3}]},{"hash":"1479712469374806937","title":"Cell growth, polarity, and organelle dynamics","description":"The top GO terms point to mechanisms of cell growth and morphology (septation signaling, budding growth, polarity maintenance) together with organelle-related processes (Golgi ribbon formation, mitochondrial events) and metabolism. This suggests a broad theme around coordinating cell growth and shape with organelle organization, rather than a single, narrow function. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031031","count":1},{"id":"GO:0000920","count":1},{"id":"GO:2000100","count":1},{"id":"GO:0007118","count":1},{"id":"GO:0042327","count":1}]},{"hash":"1399298584551815637","title":"Neural morphogenesis and axon guidance","description":"The top GO terms collectively point to neural development and wiring, including optic nerve morphogenesis, corpus callosum development, CNS projection neuron axonogenesis, and axon guidance, alongside dendritic spine morphogenesis and general nerve branching. The presence of a few outliers (e.g., immune-related term and Shh pathway regulation) does not override the central neural morphogenesis theme.","confidence":"High","size":17,"edges":7,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0048671","count":1},{"id":"GO:0022038","count":1},{"id":"GO:0045880","count":1}]},{"hash":"36921192246286153","title":"Cardiac Electrophysiology and Contraction Regulation","description":"Most top terms center on heart muscle function and electrical activity: regulation of SA node and atrial cell action potentials, regulation of cardiac muscle contraction, calcium ion release, and myofibril assembly. There are also regulatory signaling and gene expression terms (NF-kappaB signaling, gene expression). This suggests a cluster of proteins involved in cardiac electrophysiology and contraction, with accompanying regulatory signaling. Despite some obsolete terms, the core theme is heart muscle regulation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006919","count":2},{"id":"GO:0097274","count":2},{"id":"GO:0010881","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0043123","count":2}]},{"hash":"419428966285190902","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":21,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0051259","count":2},{"id":"GO:0018996","count":2},{"id":"GO:0000387","count":1}]},{"hash":"624176231933963415","title":"Drosophila neural and germline development","description":"These terms point to developmental regulation in Drosophila, spanning neural differentiation and maturation (regulation of neuron maturation, synaptic assembly at neuromuscular junction, branching morphogenesis of a nerve) as well as germline/oocyte processes (oskar mRNA localization and translation, female meiotic nuclear division, stem cell population maintenance). The presence of an unrelated immune signaling term (TLR1 pathway) is likely annotation noise and does not negate the overarching developmental theme. Overall, the cluster reflects diverse developmental programs rather than a single cohesive pathway, with a neural/germline emphasis.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006457","count":2},{"id":"GO:0007319","count":1},{"id":"GO:0019827","count":1},{"id":"GO:0007143","count":1},{"id":"GO:0008582","count":1}]},{"hash":"502020368630760973","title":"Neural transcription regulators with redox roles","description":"The top GO terms point to transcriptional regulation (negative regulation of transcription by RNA Pol II) and brain development, with associated DNA-binding regulation, suggesting neural gene regulatory activity. In addition, redox-related terms (deglyutathionylation, redox homeostasis, oxidant detoxification) imply redox-modulated control of transcriptional or nuclear processes. A nuclear export regulation term further supports a theme of nuclear transcriptional regulation in neural contexts, possibly modulated by redox state.","confidence":"Medium","size":17,"edges":14,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0018401","count":1},{"id":"GO:0080058","count":1},{"id":"GO:0045454","count":1}]},{"hash":"1266882858410009720","title":"GTPase-regulated cell migration and cytoskeleton remodeling","description":"This cluster\u2019s terms point to actin dynamics and motility driven by small GTPases (Rac), including podosome assembly, cell migration, membrane remodeling, and polarity establishment. The strongest signal is Rac/GTPase\u2013mediated cytoskeleton remodeling facilitating movement, with supporting links to podosomes and epithelial polarity; acrosome assembly appears as a less central note. ","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016477","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0031666","count":3},{"id":"GO:0071803","count":2},{"id":"GO:0061000","count":2}]},{"hash":"1097718211223008516","title":"Viral Translation Control and Host Gene Expression","description":"The top terms cluster around viral mechanisms that hijack host translation and gene expression, including IRES-dependent translation initiation, translation termination-reinitiation, viral mRNA export, and regulation of translational initiation, as well as host gene expression suppression by symbionts. This points to a cohesive theme of viral/host translational control and manipulation of host expression, with a few terms (DNA replication, SREBP signaling) contributing broader cellular context.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1904668","count":1},{"id":"GO:0046784","count":1},{"id":"GO:0001731","count":1}]},{"hash":"1622081845935253154","title":"Neuronal GPCR signaling and sensory perception","description":"This cluster is defined by neuronal GPCR signaling terms (GO:0038042; GO:0007196) and multiple sensory modalities (vision, taste, umami, pain), along with receptor clustering and links to synaptic plasticity and CNS development, suggesting a cohesive role in neural signaling and sensory processing.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007417","count":3},{"id":"GO:0030818","count":3},{"id":"GO:0001661","count":3},{"id":"GO:0007196","count":3},{"id":"GO:0050908","count":3}]},{"hash":"1948563312069869599","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000467","count":3},{"id":"GO:0071035","count":3},{"id":"GO:0070478","count":3},{"id":"GO:0071032","count":3},{"id":"GO:0071039","count":3}]},{"hash":"1323880206903025060","title":"Proviral Integration and Latency","description":"The cluster centers on processes like DNA recombination, DNA integration, and RNA-templated DNA biosynthesis, with terms specifically describing establishment of integrated proviral latency and viral entry into the host nucleus. Together these suggest a cohesive function in viral genome integration and maintenance of proviral latency, including interactions with host pathways such as RNA-directed silencing. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":16},{"id":"GO:0015074","count":14},{"id":"GO:0006278","count":14},{"id":"GO:0075713","count":14},{"id":"GO:0039651","count":14}]},{"hash":"1293626412345733041","title":"Retroviral Integration and Proviral Latency","description":"The top GO terms point to the retroviral life cycle: reverse transcription (RNA-templated DNA biosynthesis), DNA recombination and integration, DNA replication, and establishment of integrated proviral latency, along with viral entry into the host nucleus. Additional terms about host-symbiont interactions and regulation of RNAi processing support a broader viral-host interaction theme, including latency and genome integration. Confidence: High","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":8},{"id":"GO:0015074","count":6},{"id":"GO:0006278","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0075713","count":6}]},{"hash":"1680982922005777289","title":"Retroviral DNA integration and latency","description":"The top GO terms center on retroviral processes: RNA-templated DNA biosynthesis, DNA recombination and replication, integration of DNA into the host genome, and establishment of integrated proviral latency, plus viral penetration into the host nucleus. Some terms also reference symbiont entry and host apoptosis manipulation, which fit the broader theme of pathogen\u2013host interaction. Taken together, these indicate a cluster tied to retroviral replication and latency mechanisms.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":10},{"id":"GO:0015074","count":9},{"id":"GO:0039651","count":9},{"id":"GO:1903704","count":9},{"id":"GO:0075713","count":9}]},{"hash":"90015833772756174","title":"Vitamin A and Steroid Metabolism","description":"The top GO terms indicate metabolic activity tied to vitamins (retinol/retinal) and steroid hormone biosynthesis (testosterone), alongside carbohydrate metabolism (fructose, glucuronate). This suggests a cohesive theme of vitamin and steroid metabolism, with supporting roles for oxidative stress response and signaling processes.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0042572","count":9},{"id":"GO:0046370","count":8},{"id":"GO:0042574","count":7},{"id":"GO:0003016","count":7},{"id":"GO:0070301","count":6}]},{"hash":"612482268658097673","title":"Embryonic Development and Gene Expression Regulation","description":"This cluster centers on transcriptional control and post-transcriptional mRNA processes (transcription, mRNA decay, localization) with developmental terms like proepicardium development and chorio-allantoic fusion, suggesting a cohesive theme of gene expression regulation during development.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003342","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0097403","count":1},{"id":"GO:0031086","count":1}]},{"hash":"1601191375927699172","title":"Neuronal RNA processing and synaptic regulation","description":"The cluster centers on RNA processing and gene regulation relevant to neurons (spliceosome-mediated splicing, mRNA stability, ncRNA-mediated silencing) with additional signals of synaptic function (regulation of vesicle exocytosis, postsynaptic potentials) and brain development, suggesting a theme of neuronal gene expression control linked to synaptic activity. Some terms like mitotic cell cycle are less brain-specific, but overall the data point to neuronal regulation of gene expression and synaptic signaling.","confidence":"Medium","size":16,"edges":79,"triangles":178,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0090394","count":8},{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0010738","count":7},{"id":"GO:0000056","count":7}]},{"hash":"665935509737234500","title":"CNS axon guidance and synapse formation","description":"This cluster is enriched for terms tied to central nervous system connectivity: dendritic spine morphogenesis, regulation of glutamatergic synaptic transmission, CNS axonogenesis and retina/ganglion cell axon guidance, and corpus callosum development, as well as nerve branching and calcium signaling. These together suggest a coherent role in neuronal development and the establishment of synaptic connections in the CNS.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":2},{"id":"GO:0051966","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0022038","count":2},{"id":"GO:0030818","count":2}]},{"hash":"1535961654954221386","title":"Translation Machinery and Ribosome Biogenesis","description":"The cluster is dominated by GO terms tied to all stages of protein synthesis (translation, initiation, termination, cytoplasmic translation) and ribosome biogenesis, with additional regulation of translation (positive regulation of elongation) and mRNA turnover linked to translation (deadeylation-dependent decay). The presence of an antibiotic response term aligns with translation-targeting antibiotics. Together these terms suggest a cohesive group of proteins involved in the translation apparatus and ribosome assembly, plus mechanisms controlling mRNA stability that influence translation efficiency.","confidence":"High","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":12},{"id":"GO:0042254","count":5},{"id":"GO:0046677","count":5},{"id":"GO:0006415","count":4},{"id":"GO:0006413","count":4}]},{"hash":"1780087172540264832","title":"Carnitine Transport and Metabolism","description":"The strongest shared function among the terms is carnitine handling\u2014metabolism and transmembrane transport\u2014supported by GO:0009437 and related transport terms; other terms appear peripheral or context-dependent, so the label centers on carnitine transport/metabolism.","confidence":"Medium","size":16,"edges":42,"triangles":44,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0009437","count":2},{"id":"GO:1900751","count":2},{"id":"GO:1902270","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0071318","count":2}]},{"hash":"772151159555596203","title":"Protein Ubiquitination and Proteasome Regulation","description":"This cluster centers on post-translational modification and protein turnover, with strong signals from protein ubiquitination (GO:0016567) and proteasome regulatory particle assembly (GO:0070682). Additional related terms like auto-ADP-ribosylation point to broader protein modification processes, while other terms such as vasopressin secretion or heat response appear less cohesive with the core proteostasis theme. Overall, the dominant pattern fits ubiquitination and proteasome-mediated regulation of proteins.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0044707","count":4},{"id":"GO:0045736","count":4},{"id":"GO:0090501","count":4},{"id":"GO:0046475","count":4}]},{"hash":"1828278865066916288","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are strongly centered on ubiquitination and proteolysis (ubiquitin-dependent protein catabolic process and K33-linked ubiquitination), suggesting a core function in ubiquitin-mediated degradation. Other terms in the list seem noisy or less coherent with this theme, but the ubiquitin-related terms provide the main unifying signal for this cluster.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0070294","count":5},{"id":"GO:0036268","count":5},{"id":"GO:1904431","count":5},{"id":"GO:0045497","count":5}]},{"hash":"1267469163376884950","title":"Regulated Neuronal Signaling and Differentiation","description":"This cluster centers on regulatory signaling activities (PI3K and GTPase regulation, adrenergic GPCR signaling) and neuronal development processes (neuron differentiation, synapse maturation), with supporting cytoskeletal remodeling (microspike assembly, cell spreading). Together these terms point to proteins that modulate signaling pathways to control neuronal differentiation and synaptic maturation, with some overlap into broader GPCR signaling contexts; hence a label focusing on neuronal signaling and differentiation is appropriate.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0043547","count":2},{"id":"GO:2000297","count":2},{"id":"GO:1900169","count":2}]},{"hash":"1124508925483766340","title":"Unknown","description":"The GO terms cover diverse processes (ER-Golgi trafficking, organ development and differentiation, transcription/translation regulation, mitosis-related functions, and drug response), with no single dominant theme to unify the cluster.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006888","count":5},{"id":"GO:0060487","count":5},{"id":"GO:0005979","count":4},{"id":"GO:0030847","count":4},{"id":"GO:0036496","count":4}]},{"hash":"2091411542797764221","title":"Developmental differentiation and morphogenesis","description":"The GO terms center on tissue development and morphogenesis across organs (skin appendages like keratinocytes, hair follicles, sebaceous glands; urinary bladder; cerebellar granule cells; post-anal tail morphogenesis; cloacal septation), with some terms touching on cell proliferation and senescence; together they suggest a broad theme of developmental differentiation guiding organ formation rather than a single, shared pathway.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030216","count":2},{"id":"GO:0060197","count":2},{"id":"GO:0031069","count":2},{"id":"GO:0002053","count":2},{"id":"GO:0036342","count":2}]},{"hash":"436660337236487063","title":"Thermal stress and inflammatory signaling","description":"The top GO terms point to heat-related responses (thermogenesis, cellular response to temperature) and inflammatory processes (inflammatory response, calcium signaling, GPCR pathways), all connected to energy metabolism (electron transport chain). This suggests a module coordinating metabolic and signaling responses to heat stress and inflammation, with calcium flux and Rho/GPCR signaling as key mediators. Viral release and blood pressure regulation are less central but can be linked to stress and systemic signaling contexts. ","confidence":"Medium","size":16,"edges":9,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":8},{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0035025","count":8}]},{"hash":"1515413978896880626","title":"Signal transduction and vesicle trafficking","description":"This cluster centers on intracellular signaling and membrane trafficking, with GO terms for ubiquitination and ADP-ribosylation (protein modification), transduction signaling, Golgi-to-plasma membrane transport, and vasopressin secretion, plus lipid catabolism that relates to membrane dynamics. Together these suggest a module coordinating signaling, protein modification, and secretion through vesicle trafficking in a multicellular context. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0006893","count":1},{"id":"GO:0045893","count":1},{"id":"GO:0044707","count":1}]},{"hash":"1954364793664391847","title":"ER\u2013Golgi Trafficking and Protein Sorting","description":"The top GO terms cluster around the secretory pathway: ER to Golgi vesicle transport, COPI-coated vesicle budding, Golgi ribbon formation, regulation of protein exit from the ER, and ER lumen protein retention. Together these indicate proteins involved in ER\u2013Golgi trafficking and cargo sorting. Some terms (e.g., mitochondrial complex IV assembly, developmental processes) may be peripheral or context-specific, but the dominant signal is ER\u2013Golgi transport and sorting.","confidence":"Medium","size":16,"edges":20,"triangles":2,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":3},{"id":"GO:0006888","count":1},{"id":"GO:0035964","count":1},{"id":"GO:0090161","count":1},{"id":"GO:0001893","count":1}]},{"hash":"638399173233838826","title":"Chromatin Remodeling and RNA Processing Regulation","description":"This cluster groups proteins involved in nuclear gene expression control: chromatin remodeling and nucleosome disassembly, regulation of DNA damage response via p53, spliceosome-mediated alternative splicing, translation preinitiation complex formation, mRNA export, and regulation of translational initiation and cell cycle. The GO terms collectively point to a cohesive nuclear program coordinating transcription, RNA processing, and translation, with an incidental note for pituitary development. Therefore, the label reflects the central theme of chromatin and RNA processing regulation.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043044","count":2},{"id":"GO:0043518","count":2},{"id":"GO:0006337","count":2},{"id":"GO:0000380","count":2},{"id":"GO:0021983","count":2}]},{"hash":"2297299015926719494","title":"Keratinocyte morphogenesis and wound healing","description":"Primarily linked to skin/epithelial development and cell movement, as indicated by keratinocyte development, epithelial morphogenesis, wound healing, and cytoskeleton/filopodia regulation; immune signaling and dopamine response appear as less central noise. ","confidence":"Medium","size":16,"edges":4,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0003334","count":4},{"id":"GO:0031532","count":4},{"id":"GO:0003382","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0044319","count":4}]},{"hash":"1605888637310552415","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":1},{"id":"GO:1990966","count":1},{"id":"GO:0009611","count":1},{"id":"GO:0046444","count":1},{"id":"GO:0019350","count":1}]},{"hash":"1161476485842592493","title":"RNA processing and RNA interference machinery","description":"The cluster is dominated by GO terms for RNA processing (mRNA, tRNA, rRNA) and RNA interference pathways (siRNA processing, RISC complex assembly, regulation of post-transcriptional gene silencing by regulatory ncRNA), suggesting proteins involved in RNA maturation and RNAi. A few terms about nerve morphogenesis and hematopoietic stem cell proliferation appear less connected, likely due to multifunctionality or annotation noise, but the core theme is RNA processing and RNAi machinery.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:1902033","count":2},{"id":"GO:0050689","count":2},{"id":"GO:1900369","count":2},{"id":"GO:0008033","count":2}]},{"hash":"433160976168542537","title":"Retroviral Integration and Latency","description":"GO terms point to retroviral genome processing: DNA integration, RNA-templated DNA biosynthetic process, DNA replication, and DNA recombination, along with establishment of integrated proviral latency and viral entry into the host nucleus. These collectively reflect the retroviral life cycle and proviral latency, with additional terms referencing host-symbiont interactions that align with viral infection processes. This combination supports labeling the cluster as Retroviral Integration and Latency.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0075713","count":4}]},{"hash":"485849357979339020","title":"GPCR Signaling and Cardiac Muscle Regulation","description":"The proteins appear enriched for GPCR-mediated signaling, including serotonin- and dopamine-receptor pathways that inhibit adenylyl cyclase, coupled with downstream ERK signaling and protein phosphorylation. The set also touches on hormone secretion and functional processes in heart development and intestinal smooth muscle contraction, pointing to a theme of GPCR-driven signaling affecting cardiac and smooth muscle function. An outlier term about viral release is likely incidental noise rather than indicative of the core function.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":4},{"id":"GO:0002882","count":4},{"id":"GO:0033861","count":4},{"id":"GO:0007198","count":4},{"id":"GO:0070374","count":4}]},{"hash":"1776901546638891629","title":"Unknown","description":"The highlighted GO terms are broad and scattered across behavioral, enzymatic, immune, and adhesion functions, with no single unifying theme. There are no edges or triangles to connect the proteins into a shared pathway, making a cohesive biological label unreliable. Given the lack of a common function and connectivity, I cannot assign a specific functional name.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071625","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0034392","count":1},{"id":"GO:0007157","count":1},{"id":"GO:0051006","count":1}]},{"hash":"510523382578765353","title":"Retroviral integration and latency","description":"The cluster is dominated by GO terms tied to retroviral activity: DNA integration, RNA-templated DNA biosynthesis (reverse transcription), DNA replication, and establishment of integrated proviral latency, along with viral entry into the host nucleus and host cell entry. This combination points to stages of the viral life cycle that include infection, reverse transcription, genome integration, and latent provirus maintenance, with additional signals of host RNAi pathway interaction. Thus the theme best fits proviral integration and latency in a viral context.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":12},{"id":"GO:0039651","count":12},{"id":"GO:0075713","count":12},{"id":"GO:0006310","count":12},{"id":"GO:0006278","count":12}]},{"hash":"641299701984426062","title":"Retroviral DNA integration and proviral latency","description":"The top GO terms point strongly to steps in the retroviral life cycle: DNA integration, reverse transcription (RNA-templated DNA biosynthesis), DNA replication and recombination, and establishment of integrated proviral latency, along with viral entry/penetration into the host nucleus. A hint of host RNAi suppression also fits viral strategies. Together these indicate a retroviral genome integration and latency theme.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":15},{"id":"GO:0039651","count":15},{"id":"GO:1903704","count":15},{"id":"GO:0075713","count":15},{"id":"GO:0006310","count":15}]},{"hash":"1299649442017314761","title":"Retroviral integration and proviral latency","description":"This cluster centers on retroviral-like processes: DNA recombination, DNA integration, RNA-templated DNA synthesis, and proviral latency establishment, with terms about viral entry into host nucleus and host cell invasion; other terms point to virus-host interactions and RNA interference regulation, all pointing to a viral replication/latency theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":13},{"id":"GO:0015074","count":10},{"id":"GO:0006278","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0075713","count":10}]},{"hash":"1407537907004139497","title":"Zinc Transport and Homeostasis","description":"The cluster centers on zinc handling, with multiple GO terms for zinc ion import across the plasma membrane, intracellular zinc ion homeostasis, detoxification, and responses to zinc ion starvation, plus related zinc transport processes. A peripheral ER-Golgi vesicle transport term is present but does not outweigh the zinc-centered theme, suggesting these proteins function together to regulate zinc levels. ","confidence":"High","size":15,"edges":41,"triangles":48,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0006831","count":2},{"id":"GO:0010312","count":2},{"id":"GO:0044749","count":2},{"id":"GO:0070574","count":2}]},{"hash":"2067596214327573773","title":"GPCR-Linked cGMP/cAMP Signaling","description":"The cluster centers on GPCR signaling and second-messenger pathways, with GO terms for adenosine receptor signaling, adenylate cyclase activation, receptor guanylyl cyclase signaling, and cGMP biosynthesis, plus related sensory cues (blue light, hypoxia) feeding into these pathways. This points to a cohesive GPCR-driven signaling module.","confidence":"High","size":15,"edges":25,"triangles":6,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006182","count":6},{"id":"GO:0035556","count":6},{"id":"GO:0070483","count":6},{"id":"GO:0006355","count":6},{"id":"GO:1904322","count":6}]},{"hash":"104786672424796762","title":"Kinase signaling and phosphorylation regulation","description":"The dominant terms center on phosphorylation and kinase activity (autophosphorylation, serine/threonine kinase activity, protein phosphorylation, GTPase regulation), i.e., kinase-driven signal transduction. Supporting terms relate to cell cycle, proliferation, hypoxia response, and heart development, which broadly fit kinase-regulated signaling in growth and differentiation.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031954","count":13},{"id":"GO:0071456","count":12},{"id":"GO:0008284","count":12},{"id":"GO:0051028","count":12},{"id":"GO:0000278","count":12}]},{"hash":"558197609503368967","title":"Chromosome Segregation and Spindle Organization","description":"The terms point to chromosome-related processes: sister chromatid biorientation, centromeric cohesion, spindle orientation checkpoint signaling, and localization to chromosomes, plus septin ring organization relevant to cytokinesis. Together they suggest a cluster focused on chromosome segregation and spindle dynamics during cell division.","confidence":"Medium","size":15,"edges":22,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031134","count":2},{"id":"GO:0030433","count":2},{"id":"GO:1903863","count":1},{"id":"GO:0031107","count":1},{"id":"GO:0032186","count":1}]},{"hash":"1267687715385651437","title":"Neural development and synaptic vesicle regulation","description":"The cluster centers on nervous system development and synaptic function, with several terms pointing to brain development, nervous system development, and regulation of synaptic vesicle exocytosis. The presence of ROBO signaling (axon guidance) and ERK cascade regulation supports a theme of neuronal development and synaptic signaling. A couple of non-neural terms appear, but the dominant signal describes neural connectivity and synaptic transmission.","confidence":"High","size":15,"edges":84,"triangles":232,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000300","count":5},{"id":"GO:0010796","count":5},{"id":"GO:0031384","count":5},{"id":"GO:0043552","count":5},{"id":"GO:0070374","count":5}]},{"hash":"870321673068395996","title":"RNA processing and translation initiation regulation","description":"Proteins in this cluster are linked to RNA maturation, splicing, export, and mRNA turnover (splice site recognition, small-subunit processome assembly, mRNA export, and poly(A) tail regulation) as well as to translation initiation (preinitiation complex formation and IRES-dependent translation). The presence of stress-related mRNA stability regulation and miRNA-mediated translational silencing indicates coordinated control of gene expression at both RNA processing and translational levels.","confidence":"High","size":15,"edges":104,"triangles":442,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007343","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0035278","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0001731","count":2}]},{"hash":"640567166695211051","title":"Unknown","description":"The top GO terms include inflammatory response, RNA processing and modification, biosynthesis, and cellular stress/senescence, which do not point to a single coherent function for the cluster. As a result, a specific, representative label cannot be assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070555","count":3},{"id":"GO:1901052","count":3},{"id":"GO:0006364","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0002098","count":3}]},{"hash":"872494833843522706","title":"Kidney development and immune signaling","description":"The GO terms show kidney morphogenesis (metanephric tubule and mesonephric duct development) together with immune and inflammatory processes (phagocytosis, leukocyte adhesion/rolling, Fc-gamma receptor signaling, platelet activation, arachidonate secretion) and a fungal-origin response, suggesting proteins involved in kidney development that also participate in immune signaling. ","confidence":"Medium","size":15,"edges":12,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071226","count":8},{"id":"GO:0072287","count":6},{"id":"GO:0060355","count":6},{"id":"GO:0072237","count":6},{"id":"GO:0010572","count":6}]},{"hash":"733418477440188156","title":"Neural development and synaptic signaling","description":"This cluster is best characterized by terms tied to nervous system development and synaptic function, including cochlea morphogenesis, chemical synaptic transmission, receptor clustering, long-term synaptic depression, and social behavior. These terms collectively point to neural development and neuronal communication as a core theme. The presence of innate immune response and regulation of interleukin-6 production suggests some pleiotropy or context-dependent roles, but the dominant signal still centers on neural/sensory development and synaptic signaling.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030335","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0032715","count":2},{"id":"GO:0030011","count":2},{"id":"GO:0060707","count":2}]},{"hash":"766138125120557226","title":"Actin remodeling and membrane tubulation","description":"The top terms cluster around actin cytoskeleton dynamics (actin patch assembly, actin crosslink formation), endocytosis regulation, and membrane remodeling (plasma membrane tubulation, lipid tube assembly), with Rho/GTPase signaling and phosphorylation regulation supporting these processes, indicating a cohesive actin-driven membrane remodeling theme rather than a tissue-specific function.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000147","count":4},{"id":"GO:0007507","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0051764","count":3}]},{"hash":"2273153209089745914","title":"Integrin signaling and anoikis resistance","description":"Based on the prominent GO terms, the cluster centers around adhesion and integrin-driven signaling (receptor clustering, substrate adhesion-dependent spreading) and downstream survival pathways (ERK cascade, negative regulation of extrinsic apoptotic signaling, anoikis resistance). While there are outliers like DNA replication and symbiont entry, the cohesive theme is adhesion-mediated signaling promoting cell survival. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0046718","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0034501","count":2},{"id":"GO:0007229","count":2},{"id":"GO:2000811","count":2}]},{"hash":"2253536057203149569","title":"Ubiquitin-Dependent Protein Degradation & Cell Cycle","description":"The cluster centers on ubiquitin-related processes (ubiquitin-dependent protein catabolic process, K63-linked ubiquitination, regulation of deubiquitination) and mitotic cell cycle events (cell division, mitotic cell cycle), pointing to a core role in protein turnover coupled to cell-cycle regulation. There are also signals for nuclear receptor signaling (androgen receptor pathway, glucocorticoid signaling), suggesting some involvement in hormone receptor pathways, but the ubiquitin/cell-cycle theme appears strongest. Confidence: Medium","confidence":"","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":2},{"id":"GO:0010796","count":2},{"id":"GO:0030521","count":2},{"id":"GO:0031384","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1200017861726151839","title":"tRNA Modification and Translation Initiation Regulation","description":"The cluster centers on tRNA wobble uridine modification and the regulation of translational initiation by tRNA modification, with supporting RNA processing and repair terms, plus links to stress-related cell death pathways, suggesting a cohesive role in RNA modification affecting translation and cellular stress responses.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006397","count":2},{"id":"GO:0035553","count":2},{"id":"GO:1990983","count":2},{"id":"GO:0012501","count":2}]},{"hash":"1069337650249160446","title":"Developmental transcriptional regulation and proteolysis","description":"This cluster shows enrichment for DNA-templated transcription and its regulation, plus ubiquitin-dependent proteolysis and developmental processes, suggesting a regulatory module that coordinates gene expression with protein turnover during development. The presence of cAMP response and CDK regulation terms hints at integrated signaling and cell-cycle control within this regulatory network.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0071320","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0006351","count":2}]},{"hash":"172320826757543966","title":"Unknown","description":"The top GO terms span heat response, Wnt signaling, endocytosis regulation, inflammatory control, actin filament assembly, xenobiotic response, glucocorticoid signaling, locomotion, and sporulation. The functions are too diverse to define a single cohesive theme, so a precise label isn\u2019t justifiable.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0016055","count":3},{"id":"GO:0048549","count":3},{"id":"GO:0050728","count":3},{"id":"GO:0051017","count":3}]},{"hash":"1984788658568556378","title":"Ribosome biogenesis and translation initiation","description":"Dominant GO terms include ribosome biogenesis, formation of translation preinitiation complex, and RNA guanine-N7-methylation, suggesting a core theme around assembly of ribosomal/translation machinery and mRNA processing. Additional terms touch on protein complex assembly, mRNA export under heat stress, and hypoxia signaling, which are consistent with cellular stress affecting gene expression, but the strongest signal is ribosome assembly and initiation of translation.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":6,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0036265","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0070208","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0061586","count":3}]},{"hash":"804141553151961041","title":"Neurodevelopment and endosomal trafficking","description":"The enrichment centers on neural development signals (ephrin signaling, neuroblast division, ventricle development) and neuronal communication with trafficking functions (Golgi localization, endosome transport, clathrin-mediated endocytosis, GABA secretion), with one outlier term for blood coagulation. This supports a label around brain development and vesicle trafficking.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:1901187","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0014051","count":2},{"id":"GO:2000643","count":2}]},{"hash":"1691981271554546888","title":"Potassium transport and membrane potential regulation","description":"The cluster is dominated by potassium ion transport and membrane potential terms (transport, resting potential regulation, stabilization, and repolarization), indicating a core role in ionic homeostasis and neuronal excitability. Sensory terms for touch, pain, and temperature likely reflect downstream signaling dependent on membrane potential dynamics, supporting a unified theme around potassium-channel\u2013mediated membrane regulation.","confidence":"High","size":15,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0050976","count":12},{"id":"GO:0060075","count":12},{"id":"GO:0071805","count":12},{"id":"GO:0098914","count":12},{"id":"GO:0030322","count":12}]},{"hash":"2203164372336163655","title":"RNA Modification Enzymes","description":"This cluster is dominated by RNA nucleotide modification processes: rRNA guanine-N7 methylation, tRNA methylation, tRNA thio-modification, and cytidine-to-uridine editing, which collectively point to RNA modification enzymes as the core function. A few other biosynthetic terms (thiamine-related) are present but seem peripheral to the primary theme. Confidence: High","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043950","count":2},{"id":"GO:0050774","count":2},{"id":"GO:0070476","count":1},{"id":"GO:0016554","count":1},{"id":"GO:0009228","count":1}]},{"hash":"704723092966053512","title":"Innate Immune Response and Inflammation","description":"The top GO terms are dominated by innate immunity and inflammatory processes (complement activation, innate immune response, acute inflammatory response), suggesting this cluster centers on immune activation. While some terms touch on other cellular processes (endocytosis, transport, development), the strongest signals relate to immune defense and inflammation, warranting a label focused on those themes.","confidence":"Medium","size":15,"edges":8,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0045087","count":3},{"id":"GO:0018277","count":2},{"id":"GO:0002438","count":2},{"id":"GO:0006883","count":2}]},{"hash":"2203388879208523031","title":"Ribosome Biogenesis and Cytoplasmic Translation","description":"These proteins are strongly linked by ribosome-related processes: cytoplasmic translation (GO:0002181), ribosome biogenesis (GO:0042254), and export of the large ribosomal subunit from the nucleus (GO:0000055). While there are also cell cycle/division terms, the dominant theme is assembly and function of the protein synthesis machinery, with some peripheral links to metabolic and stress-response pathways. Confidence: High","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0019432","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0000055","count":2}]},{"hash":"873938544553113510","title":"Embryonic organ morphogenesis and neural development","description":"These terms point to embryonic development, organ morphogenesis, and neural patterning (e.g., heart development, forebrain patterning, hypothalamus differentiation, cerebellar signaling, nerve morphogenesis). The cluster thus seems to group proteins involved in multisystem morphogenesis rather than a single pathway.","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021937","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0060929","count":15},{"id":"GO:0021979","count":15},{"id":"GO:0030910","count":15}]},{"hash":"248677631098284250","title":"Unknown","description":"The GO terms span temperature response, pain perception, calcium signaling, electron transport, and diverse development and signaling processes, suggesting a broad, non-cohesive set rather than a single clear function.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002024","count":3},{"id":"GO:0071502","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0022900","count":3}]},{"hash":"1575777362591913792","title":"Proviral integration and latency","description":"The top GO terms cluster around retroviral processes: DNA recombination, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), and DNA replication, plus establishment of integrated proviral latency. Additional terms describe viral entry into the host nucleus and host-cell entry, along with suppression of host RNA silencing. Together, they point to proteins involved in the retroviral lifecycle and virus-host interactions, especially genome integration, replication, and latency.","confidence":"High","size":14,"edges":72,"triangles":184,"max_degree":13,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":12},{"id":"GO:0015074","count":10},{"id":"GO:0006278","count":10},{"id":"GO:0006260","count":10},{"id":"GO:0075713","count":10}]},{"hash":"1080171002323582136","title":"DNA Replication, Repair, and Recombination","description":"The cluster is dominated by GO terms related to genome maintenance: DNA replication, DNA repair, and DNA recombination, including double-strand break repair in meiotic recombination and telomere maintenance via recombination. These converge on a cohesive theme of maintaining genome integrity through recombination and repair processes. A couple of terms about protein homooligomerization and ER-to-Golgi trafficking are present but appear less central to the core function; the overall signal still points to genome maintenance via replication and recombination.","confidence":"Medium","size":14,"edges":19,"triangles":8,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051260","count":6},{"id":"GO:0006260","count":6},{"id":"GO:0006281","count":4},{"id":"GO:1990918","count":4},{"id":"GO:0006888","count":4}]},{"hash":"826450085110546743","title":"Unknown","description":"The top GO terms cover a wide range of functions\u2014from GTPase activity regulation and heterotrimerization to translation initiation, transcription regulation, actin filament capping, and various stress/immune responses. This lack of a single cohesive biological theme, plus only a single edge connecting the proteins, suggests there isn\u2019t a shared function that would support a more specific label. ","confidence":"","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0070208","count":5},{"id":"GO:1905705","count":5},{"id":"GO:0001731","count":5},{"id":"GO:0061586","count":5}]},{"hash":"2013648873210822955","title":"Skeletal muscle signaling and regeneration","description":"This cluster is anchored by terms related to intracellular signal transduction and, notably, skeletal muscle tissue regeneration, with supporting signals from ephrin receptor signaling and GPCR-related pathways. The presence of terms like regulation of telomere maintenance and negative regulation of kinase activity suggests a broader regulatory signaling theme, but the explicit skeletal muscle regeneration term provides a cohesive muscle-repair/formation context for the cluster. Some generic or outlier terms (e.g., spindle assembly) don\u2019t contradict this core theme but are less specific to muscle biology, resulting in a moderately confident, muscle-signaling-focused label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":3},{"id":"GO:0035508","count":2},{"id":"GO:0051225","count":2},{"id":"GO:0044707","count":2},{"id":"GO:0032212","count":2}]},{"hash":"359963287094269405","title":"Nucleic acid repair and tRNA modification","description":"This cluster is dominated by GO terms for DNA/RNA repair (DNA alkylation repair, RNA repair, DNA repair) and tRNA wobble uridine modification, along with mRNA processing and translation regulation linked to tRNA modification. Together these terms point to a shared role in maintaining nucleic acid integrity and coordinating RNA modification with protein synthesis, despite some stress-related death terms present. High","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042245","count":3},{"id":"GO:0006307","count":2},{"id":"GO:0035552","count":2},{"id":"GO:0002098","count":2},{"id":"GO:1902445","count":2}]},{"hash":"153430986091638756","title":"Golgi-ER Vesicle Transport and Golgi Organization","description":"This cluster is characterized by GO terms describing retrograde vesicle transport from Golgi to ER and ER-to-Golgi transport, Golgi organization, and regulation of vesicle exocytosis, all pointing to vesicle trafficking and Golgi dynamics. The presence of small GTPase\u2013mediated signaling reinforces a trafficking/regulatory role. Although other terms like brain development and mitochondrial fission appear, the dominant shared function across proteins is intracellular transport through the Golgi network and vesicle trafficking processes.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0051489","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0031384","count":2}]},{"hash":"2028784979472414038","title":"Immune Activation and Inflammatory Signaling","description":"Interpretation: Among the Top Terms, several clearly point to immune signaling and inflammatory responses: cellular response to lipopolysaccharide, positive regulation of type II interferon production, and T cell receptor signaling pathway, as well as regulation of vascular permeability\u2014key aspects of inflammation. Other terms (cellular response to xenobiotic stimulus, response to alkaline pH, cGMP catabolic process) suggest broader stress and signaling roles but do not override the immune-related themes. Taken together, the proteins in this cluster appear to be involved in activating and modulating immune and inflammatory pathways, with some metabolic/stress response associations.","confidence":"Medium","size":14,"edges":9,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":4},{"id":"GO:0000103","count":3},{"id":"GO:0010446","count":3},{"id":"GO:0046069","count":3},{"id":"GO:0032729","count":3}]},{"hash":"1611504997058863803","title":"Unknown","description":"The GO terms in this cluster cover a broad and inconsistent mix: nervous system development and various junction assembly terms alongside transcription regulation, protein autophosphorylation, and several photosynthesis-related biosynthetic processes. There is no clear, cohesive biological theme linking these terms, so a specific, representative label cannot be assigned. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090528","count":2},{"id":"GO:0030913","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0046777","count":2},{"id":"GO:0007399","count":2}]},{"hash":"1871167450395131828","title":"Embryonic organ morphogenesis","description":"Top GO terms are dominated by morphogenesis of hair follicles, metanephric kidney structures, and cartilage, suggesting a shared role in embryonic organ development. A few immune-related terms appear but do not outweigh the developmental signal. This cluster most likely represents organogenesis processes across tissues rather than a single pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031069","count":3},{"id":"GO:0060355","count":3},{"id":"GO:0072237","count":3},{"id":"GO:0001502","count":3},{"id":"GO:2000502","count":3}]},{"hash":"2261468908163369228","title":"Vesicle trafficking and exocytosis","description":"The top GO terms cluster around transport along the secretory pathway (ER to Golgi, endosome-to-endosome and endosome-to-Golgi), plasma membrane localization, and regulation of exocytosis and calcium-dependent secretion, indicating a cohesive set of proteins involved in intracellular vesicle trafficking and membrane fusion/exocytosis. Some terms reference organism- or context-specific processes (sporulation, brain development) but they still reflect vesicle trafficking roles in different systems.","confidence":"High","size":14,"edges":17,"triangles":7,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":10},{"id":"GO:0045022","count":10},{"id":"GO:0034498","count":10},{"id":"GO:1903078","count":10},{"id":"GO:0032258","count":10}]},{"hash":"2227954187514352319","title":"Collagen ECM Remodeling and Angiogenesis Regulation","description":"This cluster shows strong signals for collagen fibril organization and biosynthesis, plus integrin-mediated signaling and regulation of endothelial tube morphogenesis and angiogenesis, pointing to extracellular matrix remodeling as a central theme with vascular development. Some terms related to immunity or synapse assembly are present but secondary to the ECM/angiogenesis-focused terms.","confidence":"Medium","size":14,"edges":13,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0016525","count":3},{"id":"GO:1901509","count":2},{"id":"GO:0018996","count":2}]},{"hash":"229793323437798959","title":"Steroid, pigment, and lipid biosynthesis with drug response","description":"The top GO terms point to diverse biosynthetic and metabolic processes, including testosterone (steroids), melanin (pigment), retinol and phylloquinone (vitamins), mycolic acid and sphinganine (lipids), plus several drug-response and transcription regulation terms. There isn\u2019t a single unified pathway, but a coherent theme around small-molecule biosynthesis and related metabolic processes with some drug-response involvement.","confidence":"Medium","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0061370","count":3},{"id":"GO:0042438","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0006355","count":3}]},{"hash":"2133531834556190062","title":"Post-transcriptional RNA processing and translation control","description":"The top GO terms cluster around splicing regulation, polyadenylation, spliceosome/small-subunit processome components, mRNA export, and translation initiation (including IRES-dependent initiation) as well as stress-related mRNA stability, indicating a cohesive theme of RNA maturation and control of translation after transcription.","confidence":"High","size":14,"edges":17,"triangles":2,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":4},{"id":"GO:0006378","count":4},{"id":"GO:0035278","count":3},{"id":"GO:0060211","count":3},{"id":"GO:0001731","count":3}]},{"hash":"27134678652374313","title":"DNA repair and genome maintenance","description":"The cluster is dominated by GO terms for DNA recombination, DNA transposition, and base-excision repair, suggesting a core role in genome maintenance and DNA damage repair. Extra terms reflect stress responses (oxidative, xenobiotic) and apoptosis, which commonly accompany DNA damage responses, supporting a cohesive theme despite a few less related terms like corneocyte development and hormone signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":8},{"id":"GO:0006313","count":7},{"id":"GO:0006284","count":6},{"id":"GO:0070301","count":5},{"id":"GO:0003335","count":5}]},{"hash":"836666984329254957","title":"Broad-Spectrum Membrane Transporters","description":"The set is dominated by diverse transmembrane transport GO terms, covering vitamins, xenobiotics, ions (Na+, K+), organic cations/anions, and neurotransmitter loading, indicating a group of broad-spectrum transport proteins rather than a single substrate-specific carrier.","confidence":"High","size":14,"edges":13,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":14},{"id":"GO:0006855","count":14},{"id":"GO:0071805","count":14},{"id":"GO:0042908","count":14},{"id":"GO:0098700","count":11}]},{"hash":"395208387693751130","title":"ECM remodeling and morphogenesis","description":"These proteins co-occur with terms focused on tissue remodeling and organ morphogenesis, especially basement membrane disassembly, epithelial tube branching in lung development, bone resorption, and decidualization, all tied to extracellular matrix remodeling. Peripheral terms like neuropeptide catabolism, thyroid hormone response, and T cell cytotoxicity do not override the central remodeling signal. Overall, the cluster seems best described by extracellular matrix remodeling during development and tissue morphogenesis.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001913","count":13},{"id":"GO:2000179","count":13},{"id":"GO:0050790","count":13},{"id":"GO:0060441","count":13},{"id":"GO:0046697","count":13}]},{"hash":"1188748849391310671","title":"Amino acid and cofactor biosynthesis","description":"The top GO terms cluster around biosynthetic and catabolic processes for amino acids (tyrosine, alanine, kynurenine-related) and cofactors (heme, biotin), indicating a metabolic module focused on amino acid and cofactor production. A couple of terms like Notch signaling and fruit ripening appear as outliers, but the dominant theme is metabolic biosynthesis rather than signaling or development. ","confidence":"Medium","size":14,"edges":13,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0097053","count":2},{"id":"GO:0006571","count":2},{"id":"GO:0006783","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0009835","count":2}]},{"hash":"1986594367257642548","title":"NAD/Nicotinate Metabolism","description":"The top GO terms show a clear emphasis on NAD-related pathways, with nicotinate nucleotide salvage and nicotinamide metabolic process, suggesting a core NAD metabolism theme for this cluster. Other terms indicate broader metabolic activities (amino acid biosynthesis, catabolic processes, nitrogen utilization) and a few outliers related to cell state (aging, differentiation). Taken together, the cluster is best described as centered on NAD/Nicotinate metabolism with auxiliary metabolic functions.","confidence":"Medium","size":14,"edges":85,"triangles":297,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0019358","count":4},{"id":"GO:0000162","count":3},{"id":"GO:0006769","count":2},{"id":"GO:0006602","count":2},{"id":"GO:1904524","count":2}]},{"hash":"2176035572151743039","title":"Plant Transcription and Amino Acid Biosynthesis","description":"The set centers on transcription-related GO terms (DNA-templated transcription; negative regulation of transcription by RNA polymerase II) and several amino acid/cofactor biosynthesis processes (tyrosine, alanine, biotin, heme), with the plant-specific fruit ripening term and ER-stress response providing context for plant development or stress. This suggests a cohesive theme of transcriptional regulation intertwined with metabolic biosynthesis in plants, justifying the label.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0034976","count":2},{"id":"GO:0097053","count":2},{"id":"GO:0006571","count":2}]},{"hash":"1242329191094381729","title":"Mitochondrial regulation in cardiac and neural signaling","description":"The top GO terms cluster around mitochondrial membrane permeability and potential regulation, pointing to mitochondrial function, while accompanying terms involve heart development/contraction, neurotransmitter secretion, potassium channel clustering, and phototransduction\u2014collectively reflecting mitochondrial influence on excitability and signaling in cardiac and neural contexts. This cohesive theme justifies a label focusing on mitochondria-linked regulation in excitable tissues.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035794","count":2},{"id":"GO:0010917","count":2},{"id":"GO:0010940","count":2},{"id":"GO:0006468","count":1},{"id":"GO:0007507","count":1}]},{"hash":"1259888032328916136","title":"Gi-coupled GPCR signaling in heart and smooth muscle","description":"Top terms center on serotonin/dopamine receptor signaling that inhibits adenylyl cyclase, ERK1/2 activation, and protein phosphorylation, with links to heart development and intestinal smooth muscle contraction. Despite one term relating to viral release and another to inflammatory regulation, the prevailing functional theme is GPCR-mediated signaling affecting cardiac and smooth muscle physiology, justifying the label.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":14},{"id":"GO:0002882","count":14},{"id":"GO:0033861","count":14},{"id":"GO:0007198","count":14},{"id":"GO:0070374","count":14}]},{"hash":"1420787467705978515","title":"Vesicle trafficking and exocytosis","description":"The terms converge on vesicle trafficking, membrane fusion and secretory processes (exocyst localization, SNARE regulation, rhabdomere membrane biogenesis, peptide hormone secretion, exocytosis), with supporting roles for actin patches and microautophagy in vesicle turnover and lipid-related membrane remodeling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016237","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0000147","count":2},{"id":"GO:0006887","count":1},{"id":"GO:0030072","count":1}]},{"hash":"1751986309774769123","title":"Ribosome biogenesis and translation regulation","description":"The cluster's GO terms center on rRNA maturation and processing (5.8S rRNA), RNA guanine-N7 methylation, and formation of translation preinitiation complexes and reinitiation, which together indicate ribosome assembly and control of protein synthesis. Secondary terms involve cell division/proliferation, aligning with the link between ribosome production and growth, but the core theme remains ribosome biogenesis and translation regulation.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0051013","count":2}]},{"hash":"2121133486053872549","title":"Sugar Transport and Osmotic Stress Response","description":"This cluster is dominated by GO terms for transport of sugars and related solutes (fructose, glucose, trehalose, xylose, lactose-related processes) and ions, with a concurrent signal for osmotic stress and glucose starvation response, suggesting a function in nutrient uptake and osmotic regulation.","confidence":"High","size":14,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070715","count":13},{"id":"GO:0043252","count":13},{"id":"GO:0042149","count":13},{"id":"GO:0015753","count":13},{"id":"GO:0006970","count":13}]},{"hash":"2188132020089061155","title":"Immune Signaling and Biotic Response","description":"Several top GO terms point to adaptive immune processes and responses to pathogens or symbionts, including T cell receptor V(D)J recombination, response to interferon-alpha/beta, and response to biotic stimulus, with host-mediated suppression of symbiont invasion as a related function. The presence of a few non-immune terms (bone morphogenesis/mineralization, glucose transport in response to insulin, neuromuscular/posture, synaptic vesicle clustering) likely reflects pleiotropic roles of involved proteins or indirect annotations. Overall, the strongest common theme is immune signaling and host response to biotic stimuli.","confidence":"Medium","size":14,"edges":39,"triangles":26,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0033153","count":2},{"id":"GO:0030282","count":1},{"id":"GO:0097091","count":1},{"id":"GO:0046597","count":1},{"id":"GO:0050884","count":1}]},{"hash":"284659724460292003","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":19,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006620","count":2},{"id":"GO:0051083","count":2}]},{"hash":"897386852329447209","title":"Neural and cardiac development and signaling","description":"Terms point to neural development (cerebellum maturation, neural crest Wnt differentiation) and cardiac conduction/morphogenesis (AV node, Purkinje and bundle of His signaling, left ventricular morphogenesis) along with electrophysiology (membrane hyperpolarization/depolarization). This suggests a shared theme of development and signaling in neural and cardiac tissues, with some broader neuromuscular context reflected by behavior-related terms.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":14},{"id":"GO:0021590","count":14},{"id":"GO:0060081","count":14},{"id":"GO:0044335","count":14},{"id":"GO:0086016","count":14}]},{"hash":"1967721602076035685","title":"DNA replication and mitotic regulation","description":"The top GO terms emphasize DNA replication initiation and regulation and mitotic processes (spindle separation, mitotic cell cycle regulation), suggesting a core theme of cell cycle control. While endosome transport and signaling terms appear, they seem secondary to the replication/mitosis cluster. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:2000641","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0006260","count":5},{"id":"GO:0006006","count":5},{"id":"GO:0032298","count":5}]},{"hash":"840735225928833587","title":"Developmental signaling and morphogenesis","description":"The top GO terms cluster around developmental processes and signaling pathways, including face morphogenesis, heart development, sevenless signaling, FGFR and insulin receptor signaling, and brain development contexts, suggesting proteins that participate in developmental signaling and tissue morphogenesis rather than a single specific pathway.","confidence":"Medium","size":14,"edges":12,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060325","count":3},{"id":"GO:0045736","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0010696","count":1},{"id":"GO:0045500","count":1}]},{"hash":"243106960358916559","title":"Endosome trafficking and receptor recycling","description":"Dominant terms highlight endosome size regulation and receptor recycling, suggesting a vesicle trafficking and membrane receptor turnover theme, reinforced by a glutamatergic synaptic transmission term. The remaining terms appear as outliers, but the trafficking-related concepts provide a coherent, if broad, functional focus for the cluster.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051036","count":1},{"id":"GO:0060316","count":1},{"id":"GO:0034968","count":1},{"id":"GO:0001881","count":1},{"id":"GO:0006355","count":1}]},{"hash":"2188965832495326367","title":"Calcium-Driven Immune Signaling and Chemotaxis","description":"The cluster centers on calcium signaling (calcium ion transport and related membrane lipid remodeling) and immune cell movement, with multiple GO terms for dendritic and monocyte chemotaxis and purinergic signaling. Additional vascular context (endothelial apoptosis, coagulation) and membrane dynamics (bleb assembly) support a broader immune-endothelial signaling theme, though iodide transport is less tightly linked. Overall, a cohesive theme around calcium-mediated immune signaling and chemotaxis is most representative.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":3},{"id":"GO:0061591","count":2},{"id":"GO:0002407","count":2},{"id":"GO:0035590","count":2},{"id":"GO:2000353","count":2}]},{"hash":"356842348289824224","title":"Nutrient and Ion Transmembrane Transporters","description":"The top GO terms are dominated by various transmembrane transport activities for small molecules and ions (myo-inositol, pantothenate, sodium ions, glucose, biotin, nitrate, oligopeptides), indicating the proteins function primarily as transporters or associated components across membranes. A couple of terms such as auxin-activated signaling and acetylcholine biosynthesis are peripheral and may reflect broader metabolic or signaling context, but the central theme is membrane transport. The absence of edges does not conflict with this functional grouping; the term patterns are strongly transport-centric.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015798","count":1},{"id":"GO:0015887","count":1},{"id":"GO:0071436","count":1},{"id":"GO:0008292","count":1},{"id":"GO:1904659","count":1}]},{"hash":"112542053401943507","title":"Leukotriene-Driven Inflammation","description":"GO terms point to leukotriene biosynthesis and inflammatory responses (acute and chronic), indicating a cluster focused on production of inflammatory lipid mediators and the ensuing inflammation. Additional terms such as protein homotrimerization and detoxification reflect general enzymatic regulation and stress responses that accompany inflammatory processes, while a couple of outlier terms may be less informative. Overall, the core theme appears to be inflammation linked to leukotriene synthesis.","confidence":"Medium","size":14,"edges":12,"triangles":1,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0019370","count":1},{"id":"GO:0014070","count":1},{"id":"GO:0002526","count":1},{"id":"GO:0070207","count":1},{"id":"GO:0002544","count":1}]},{"hash":"1668949074663692149","title":"Golgi glycosylation and nucleotide-sugar transport in plants","description":"The cluster is dominated by GO terms for transport of sugar nucleotides into the Golgi lumen (GDP-fucose, UDP-glucose, phosphoenolpyruvate) and for Golgi-based glycosylation processes (N-glycan fucosylation, O-linked fucosylation). This points to a cohesive theme of Golgi glycosylation machinery and nucleotide-sugar transport in plants, with a couple of development terms (root hair and lateral root) that are consistent with plant biology but secondary to the main function. Confidence: High","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015713","count":1},{"id":"GO:0015786","count":1},{"id":"GO:0035436","count":1},{"id":"GO:0036071","count":1},{"id":"GO:0036085","count":1}]},{"hash":"2257690297014836706","title":"Cardiac actin cytoskeleton and adhesion signaling","description":"This cluster is dominated by GO terms for actin cytoskeleton organization, sarcomere organization, heart development, and regulation of GTPases (Rho signaling), plus cell adhesion and related pathways, all pointing to cytoskeletal remodeling and adhesion processes in cardiac muscle. The IL-2 and thrombin receptor terms appear ancillary, but the core theme is Rho-actin\u2013driven cardiac structural dynamics.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0007155","count":5},{"id":"GO:1900042","count":4},{"id":"GO:0045214","count":4},{"id":"GO:0007507","count":4}]},{"hash":"475788745275943923","title":"Glutamatergic Synaptic Signaling and Spine Morphogenesis","description":"The dominant GO terms point to neuronal communication, with two entries for neurotransmitter secretion and glutamatergic synaptic transmission, plus dendritic spine morphogenesis, suggesting a cohesive theme of glutamatergic synapse function and spine development. The presence of unrelated terms (DNA repair, RNA processing, ER stress regulation) likely reflects background cellular roles rather than core cluster function, so the label captures the main signal but with some noise.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007269","count":2},{"id":"GO:0035249","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0090502","count":1},{"id":"GO:0000379","count":1}]},{"hash":"1099138258136017546","title":"Secretory Granule Exocytosis Regulation","description":"This cluster is dominated by GO terms for exocytosis and secretion: neurotransmitter secretion, dense core granule exocytosis, acrosome reaction, and degranulation regulation. These terms point to a shared role in regulated release of granule contents across neurons, immune cells, and sperm, indicating a theme of secretory/exocytic control. A few terms are broader or peripheral (e.g., tRNA export, salt response), but the central pattern supports secretory regulation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":2},{"id":"GO:1905433","count":2},{"id":"GO:0007269","count":2},{"id":"GO:2000238","count":2},{"id":"GO:0038028","count":2}]},{"hash":"1226113787137768026","title":"Complement Activation and Immune Signaling","description":"This cluster is dominated by terms related to the complement system (classical and alternative pathway activation, and positive regulation of MAC activation) and immune-related functions (mast cell immunity, integrin signaling), pointing to a core theme of immune activation and cell signaling. Developmental and morphogenesis terms (in utero embryonic development, regulation of endothelial tube morphogenesis) suggest remodeling contexts where immune signaling intersects with vascular or tissue development. While some terms (molting/cuticle) are less directly linked to vertebrate immunity, the prevalent pattern centers on complement-mediated and immune signaling pathways, giving a cohesive, specific label.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001970","count":9},{"id":"GO:0001701","count":9},{"id":"GO:0051918","count":9},{"id":"GO:0006957","count":9},{"id":"GO:0006958","count":9}]},{"hash":"1658802056773275411","title":"Mitotic and Meiotic Cell Cycle","description":"The terms show strong enrichment for mitosis (mitotic cell cycle, cell division) and meiosis (male meiotic nuclear division, anaphase-promoting complex\u2013dependent catabolic process), suggesting the cluster comprises proteins involved in chromosome segregation and cell-cycle progression. A few RNA splicing and differentiation terms appear, but they seem secondary to the central theme of cell division.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001403","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0007140","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0070306","count":2}]},{"hash":"715516412103017858","title":"Retroviral DNA Integration and Latency","description":"The dominant signals are retroviral-like processes: integration of DNA into host, recombination, reverse transcription (RNA-templated DNA biosynthesis), and establishment of integrated proviral latency, with some entries referencing viral entry into the host nucleus and symbiont-host interactions\u2014overall pointing to a retrovirus/proviral lifecycle.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4}]},{"hash":"2256917955909938714","title":"Retroviral integration and latency","description":"The cluster is dominated by GO terms related to DNA integration, proviral latency, reverse transcription, and viral entry into host cells and nucleus, which collectively describe the retroviral life cycle. Additional terms on DNA replication and RNA-templated DNA biosynthesis support genome replication and integration, reinforcing a viral replication/latency theme.","confidence":"High","size":13,"edges":75,"triangles":254,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":11},{"id":"GO:0039651","count":11},{"id":"GO:1903704","count":11},{"id":"GO:0075713","count":11},{"id":"GO:0006310","count":11}]},{"hash":"1952671412688991959","title":"Lipid Metabolism in Liver and Adipose","description":"The top GO terms cluster around lipid processing (fatty acid beta-oxidation, ketone body catabolism), cholesterol and lipid transport, and development of liver and adipose tissue, with a note on peroxisome-associated lipid handling, indicating a cohesive lipid metabolism program in liver/adipose contexts.","confidence":"High","size":13,"edges":56,"triangles":120,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":5},{"id":"GO:1901373","count":4},{"id":"GO:0014070","count":4},{"id":"GO:0010111","count":4},{"id":"GO:0006550","count":4}]},{"hash":"532685522743283269","title":"Developmental Signaling in Muscle, Heart, and Retina","description":"This cluster is driven by terms related to tissue development across muscle (skeletal muscle fiber development) and heart, plus retina layer formation, complemented by signaling activities (protein phosphorylation and regulation of protein kinase activity) and neuronal vesicle endocytosis regulation. The combination suggests proteins engaged in developmental signaling across multiple tissues (muscle, cardiovascular, retina) rather than a single pathway, hence a multisystem developmental signaling theme.","confidence":"Medium","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":6},{"id":"GO:1900242","count":5},{"id":"GO:0010842","count":5},{"id":"GO:0006469","count":4},{"id":"GO:0048741","count":4}]},{"hash":"2038446196890166977","title":"Translation and tRNA charging machinery","description":"The cluster is dominated by GO terms related to translation, tRNA aminoacylation (including mitochondrial alanyl-tRNA), and regulation of translational fidelity, suggesting a cohesive set of proteins involved in protein synthesis and tRNA charging. Some DNA-related terms appear but are likely incidental; overall the theme centers on translation and tRNA modification. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":1},{"id":"GO:0017196","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0090305","count":1},{"id":"GO:0006435","count":1}]},{"hash":"579536945756870945","title":"Mitotic Actin Dynamics and Cell Adhesion","description":"The top GO terms point to actin cytoskeleton remodeling and contractile ring assembly during mitosis, alongside epithelial cell\u2013cell adhesion and polarity establishment. This suggests a cohesive theme where cytoskeletal remodeling is coordinated with adhesion and polarity processes in dividing cells and tissue organization, with a few outliers related to immune and neuronal development. Overall, the label reflects the core functional grouping of actin-driven division and cell\u2013cell interactions.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043552","count":4},{"id":"GO:0090307","count":3},{"id":"GO:0050853","count":3},{"id":"GO:1903475","count":3},{"id":"GO:0031532","count":3}]},{"hash":"681761894024936170","title":"Dopaminergic Visual Processing and Cocaine Response","description":"Enriched for vision-related processes (visual perception, visual learning) and dopaminergic synaptic transmission, plus cocaine-related behavioral response, suggesting a neuronal cluster tied to visual processing and reward signaling. Some terms (heart development, macrophage chemotaxis) seem less related and may reflect multifunctional proteins or annotation spillover, but the core theme is brain function.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007601","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0001963","count":3},{"id":"GO:0010759","count":3},{"id":"GO:0007507","count":3}]},{"hash":"331292903211155852","title":"Sensory signaling and membrane potential regulation","description":"The cluster centers on sensory perception (pain and mechanical touch) and core excitability features (resting membrane potential, potassium transport, membrane stabilization, and repolarization), pointing to proteins involved in neuronal/mechano-sensory signaling and ionic regulation. Some terms about transcription exist but the dominant theme links membrane potential control with sensory signaling.","confidence":"Medium","size":13,"edges":29,"triangles":16,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0050976","count":7},{"id":"GO:0060075","count":7},{"id":"GO:0071805","count":7}]},{"hash":"673220778908915881","title":"Neural development and calcium signaling","description":"This cluster is dominated by terms related to brain development (notably substantia nigra development), neuronal signaling through calcium channels, and regulation of neuronal apoptosis, with supporting signals from oxidative stress and metabolic pathways (e.g., pentose-phosphate shunt). These collectively point to a neural development/neuronal signaling theme, centered on calcium-mediated processes.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":2},{"id":"GO:0032516","count":2},{"id":"GO:0014070","count":1},{"id":"GO:0019262","count":1},{"id":"GO:1904879","count":1}]},{"hash":"1933708696215505083","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":26,"triangles":32,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:1903608","count":9},{"id":"GO:0071031","count":9},{"id":"GO:0000398","count":9}]},{"hash":"2172989227298296466","title":"Oxidative Stress Response and Redox Detoxification","description":"This cluster shows strong representation of oxidative stress and redox-related GO terms (cellular response to oxidative stress, cellular oxidant detoxification, deglutathionylation, oxidation-reduction processes), suggesting proteins involved in maintaining redox balance. While other terms like platelet aggregation, methylamine metabolism, and nucleotide biosynthesis appear, they do not define the core theme. The dominant pattern points to redox regulation and detoxification as the cluster\u2019s shared function. ","confidence":"High","size":13,"edges":70,"triangles":210,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0070527","count":4},{"id":"GO:0030416","count":4},{"id":"GO:2000651","count":4},{"id":"GO:0003147","count":4}]},{"hash":"968825251129181630","title":"Transmembrane amino acid and small molecule transport","description":"This cluster is dominated by GO terms for transporting small molecules and amino acids across membranes (e.g., methionine, leucine, GABA, ammonium, carnitine, polyamines, ions), suggesting a cohesive theme of membrane transport. The Wnt signaling and autoubiquitination terms are outliers and do not define the group\u2019s core function. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":1},{"id":"GO:0051865","count":1},{"id":"GO:0044690","count":1},{"id":"GO:0015812","count":1},{"id":"GO:0006884","count":1}]},{"hash":"323830262928060406","title":"Unknown","description":"The top GO terms span neural/mechanosensory signaling, ion transport and cardiac repolarization, embryonic development, and immune complement activation with no clear single theme uniting the cluster, so a single representative label isn\u2019t justifiable.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010754","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0050976","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0098914","count":3}]},{"hash":"1627156216921954573","title":"Neuroendocrine Pain and Inflammatory Stress Signaling","description":"The terms cluster around sensory/pain responses (heat, cold, mechanical stimulus, pain perception), neuroendocrine activity (vasopressin secretion), and inflammatory signaling (CXCL1, MIP-1 alpha), with supporting redox homeostasis. This points to a coordinated neuroendocrine-immune stress response rather than a single linear pathway, justifying the label as a cohesive stress/pain signaling module.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0030103","count":2},{"id":"GO:2000340","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0098703","count":2}]},{"hash":"1091814531390382064","title":"Triglyceride catabolism and lipid remodeling","description":"This cluster centers on triglyceride mobilization, catabolic steps, and remodeling of lipid species (phosphatidylethanolamine and phosphatidylcholine catabolism), with a note of regulatory control over related enzymes. This cohesive lipid metabolism theme supports a label of triglyceride catabolism and lipid remodeling.","confidence":"High","size":13,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006642","count":2},{"id":"GO:0019433","count":2},{"id":"GO:0036153","count":2},{"id":"GO:0046338","count":2},{"id":"GO:0010898","count":2}]},{"hash":"1875262079771841735","title":"Neural Development and Synaptic Signaling","description":"The top GO terms cluster around neural development and neuronal communication: neuron maturation, branching morphogenesis, tangential migration, and regulation of dopamine receptor signaling and excitatory postsynaptic potential, with actin cytoskeleton remodeling implicated by actin filament severing. While there are additional terms related to immune signaling and metal ion responses, the dominant theme ties to neural development and synaptic function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034130","count":2},{"id":"GO:0014041","count":2},{"id":"GO:2000172","count":2},{"id":"GO:0060161","count":2},{"id":"GO:1903125","count":2}]},{"hash":"631970504737395822","title":"GPCR-ERK signaling in heart and smooth muscle","description":"The dominant GO terms point to GPCR signaling (adenylate cyclase\u2013inhibiting serotonin and dopamine receptor pathways), ERK1/2 cascade activation, and protein phosphorylation, combined with heart development and intestinal smooth muscle contraction, suggesting a cluster of proteins involved in GPCR-ERK signaling that regulates cardiovascular and smooth muscle function and hormone secretion. Some terms like viral release and inflammatory regulation may reflect annotation noise rather than a core theme.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":3},{"id":"GO:0002882","count":3},{"id":"GO:0033861","count":3},{"id":"GO:0007198","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1587700366547917234","title":"Unknown","description":"There are no shared GO terms or interactions among the 13 proteins (Edges 0, Triangles 0, Max Degree 0), and no top terms to tie the proteins together. With no apparent functional theme and only non-informative ReCIPE additions, a specific cluster function cannot be inferred.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1537706261684924697","title":"RNA metabolism and translation control","description":"Based on the GO terms, this cluster centers on RNA processing, splicing, translation initiation/reinitiation, miRNA-mediated translational silencing, and regulation of mRNA stability, with a note of small-subunit ribosome biogenesis. Together these suggest proteins functioning in RNA metabolism and control of translation, including stress-related regulation rather than a single enzymatic pathway.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0006351","count":2}]},{"hash":"160447542556604622","title":"Transmembrane Transporters","description":"The top GO terms are dominated by transmembrane transport activities for small molecules (myo-inositol, pantothenate, glucose, biotin) and ionic transport, plus related neurotransmitter processes (acetylcholine biosynthesis, dopamine signaling). This suggests the proteins are primarily involved in moving substances across membranes and associated signaling chemistry, rather than a single, specific pathway. Therefore, the label Transmembrane Transporters fits best.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015798","count":1},{"id":"GO:0015887","count":1},{"id":"GO:0071436","count":1},{"id":"GO:0008292","count":1},{"id":"GO:1904659","count":1}]},{"hash":"492511792238268833","title":"Embryonic and Tissue Morphogenesis","description":"The terms cluster around morphogenesis across multiple tissues (bone, heart, blood vessels) and developmental patterning (axis specification, mesoderm fate), indicating a broad theme of developmental morphogenesis rather than a single pathway.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0007352","count":2},{"id":"GO:0072133","count":1},{"id":"GO:0033137","count":1},{"id":"GO:0016335","count":1}]},{"hash":"193128384230146577","title":"Osteoclast differentiation and bone resorption","description":"Multiple GO terms cluster around osteoclast biology: osteoclast differentiation, fusion, multinuclear osteoclast formation, and positive regulation of bone resorption, with TNF-related signaling; while there are some hematopoietic progenitor-related terms, the dominant theme is osteoclastogenesis and bone resorption.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006919","count":1},{"id":"GO:1901532","count":1},{"id":"GO:1902035","count":1},{"id":"GO:0035042","count":1},{"id":"GO:0072675","count":1}]},{"hash":"2175955740369830832","title":"Developmental Regulation and Cell Cycle Control","description":"The top GO terms point to developmental processes across multiple tissues (heart, hippocampus, myotube, placenta morphogenesis) along with control of cell cycle transitions (G1 to G0, G1/S), suggesting a cluster of proteins involved in coordinating development with cell cycle regulation, possibly with epigenetic regulation as hinted by histone methylation terms. Even though there are no edges, the shared themes align around tissue development and cell cycle control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0070314","count":1},{"id":"GO:0014013","count":1},{"id":"GO:0034772","count":1},{"id":"GO:0021766","count":1}]},{"hash":"2103554236366258083","title":"Neuronal Calcium-Calcineurin-NFAT Signaling","description":"GO terms cluster around calcium detection, calcineurin-NFAT signaling, and excitatory postsynaptic potential, pointing to calcium-dependent signaling in neurons with NFAT-mediated transcription. Additional terms (response to xenobiotic/toxic stimuli and hormone stimulus) fit broader signaling contexts that converge on calcium/nuclear signaling, though the core theme remains calcium-dependent neuronal signaling.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":4},{"id":"GO:0031284","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0071375","count":3}]},{"hash":"1476803354394494411","title":"Immune and neural signaling cluster","description":"The GO terms point to immune functions (phagolysosome assembly; neutrophil degranulation regulation; T cell receptor recombination) and neuronal signaling (neurotransmitter secretion; retrograde signaling via neuropeptides), with accompanying signaling and metabolic processes (protein phosphorylation; insulin signaling pathway; glycogen regulation; cellular respiration). The combination suggests a broad signaling toolkit across immune and nervous systems rather than a single cohesive pathway, so the label reflects a multi-system signaling cluster.","confidence":"Low","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038028","count":3},{"id":"GO:0001845","count":3},{"id":"GO:0045945","count":3},{"id":"GO:0005979","count":2},{"id":"GO:0006468","count":2}]},{"hash":"2273605723433075632","title":"K11-ubiquitin\u2013driven mitotic regulation","description":"The dominant GO terms are K11-linked ubiquitination and cell division, especially the metaphase/anaphase transition, indicating a core role in ubiquitin-dependent control of mitosis. Other terms (hydrogen peroxide response, snoRNP assembly, plant-specific chlorophyll regulation) appear peripheral or less coherent with the main theme, so the clearest shared function is ubiquitin-mediated regulation of the mitotic cell cycle.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0070979","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0007091","count":5},{"id":"GO:1902325","count":4},{"id":"GO:0070301","count":4}]},{"hash":"877909516602817072","title":"GPCR signaling and chemokine secretion","description":"These proteins appear linked to signaling and secretion processes: GPCR-related signaling (albeit an obsolete GO term), vasopressin secretion, and positive regulation of chemokine production point to a shared role in hormone/immune signaling. Some terms like heat response and lipid catabolism are broader stress/metabolic connections that can accompany signaling cascades, but the core theme is signaling and secretion. Confidence: Medium","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":3},{"id":"GO:0010745","count":3},{"id":"GO:0044707","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0090501","count":2}]},{"hash":"821365494740868953","title":"Bacterial carbohydrate catabolism and quorum sensing","description":"This cluster is enriched for multiple carbohydrate catabolic processes (gluconate, rhamnose, fucose, glycerol) and quorum sensing, with supporting signals from menaquinone biosynthesis and xenobiotic response terms, suggesting a bacterial metabolism and communication module that also responds to xenobiotics.","confidence":"High","size":12,"edges":11,"triangles":0,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0035690","count":3},{"id":"GO:0042220","count":3},{"id":"GO:0019521","count":2}]},{"hash":"245633219796484690","title":"Microtubule Dynamics and Transport","description":"This cluster is dominated by GO terms describing plus-end microtubule activities (depoymerization, sliding, and directed transport), spindle midzone assembly, and vesicle trafficking along microtubules, pointing to microtubule-based organization and movement as the core function. Some terms reference cerebellar layer structure, which likely reflects tissue-specific roles that still rely on microtubule machinery, while a few terms (e.g., chloroplast movement) may be non-specific or cross-annotated. Overall, microtubule dynamics and transport best unify the group.","confidence":"High","size":12,"edges":52,"triangles":117,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":12},{"id":"GO:0072092","count":12},{"id":"GO:0032487","count":12},{"id":"GO:0070462","count":12},{"id":"GO:0072383","count":12}]},{"hash":"1552396574981193991","title":"Cardiovascular development and angiogenesis","description":"The cluster is dominated by GO terms tied to heart development and blood vessel formation, including negative regulation of VEGF signaling and explicit angiogenesis, suggesting a core theme of cardiovascular development. Additional terms like platelet degranulation, myoblast fusion, and microtubule-related processes point to supporting cytoskeletal dynamics and muscle lineage aspects that accompany vascular and cardiac morphogenesis. Overall, the core function appears to be cardiovascular development and vascular remodeling. ","confidence":"High","size":12,"edges":9,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030948","count":5},{"id":"GO:0007507","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0010800","count":4},{"id":"GO:0002576","count":4}]},{"hash":"308847872016738587","title":"Vesicle trafficking and cell adhesion regulation","description":"Most terms cluster around membrane trafficking and cell\u2013cell adhesion: COPII-coated vesicle budding, endosomal vesicle fusion, and regulation of the secretory pathway, plus adherens junction organization. Additional terms point to related signaling roles (dopamine receptor signaling, CAMKK-AMPK) and development cues (radial glial differentiation), which can reflect downstream effects of trafficking and junction dynamics. Overall, the proteins likely participate in membrane trafficking with regulatory signaling at junctions.","confidence":"Medium","size":12,"edges":33,"triangles":35,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000222","count":12},{"id":"GO:0021861","count":12},{"id":"GO:0060161","count":12},{"id":"GO:1902766","count":12},{"id":"GO:1903435","count":12}]},{"hash":"570039673808208466","title":"Unknown","description":"The top GO terms cover lipopolysaccharide biosynthesis, calcium and metal ion transport, phospholipid dephosphorylation, serine biosynthesis, and various catabolic/epoxygenase pathways, pointing to a broad mix of membrane-associated transport and metabolic activities rather than a single cohesive function. There is no dominant shared process tying these terms together, so a specific, high-level label is not supported. ","confidence":"","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009103","count":5},{"id":"GO:0006874","count":4},{"id":"GO:0006825","count":4},{"id":"GO:0097755","count":4},{"id":"GO:0019373","count":4}]},{"hash":"1838515937540460614","title":"Neural and cardiac signaling proteins","description":"This cluster combines neural signaling activities (neurotransmitter secretion, voltage-gated potassium channel clustering, phototransduction, long-term memory) with heart-related processes (heart development, regulation of heart contraction) and signaling modulation (protein phosphorylation, NFAT pathway), suggesting a group of proteins involved in neural communication and cardiac function.","confidence":"Medium","size":12,"edges":24,"triangles":13,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006468","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0090151","count":8},{"id":"GO:0045163","count":8},{"id":"GO:0007269","count":8}]},{"hash":"285878757517217686","title":"RNA processing and ribosome biogenesis in stress granules","description":"The GO terms cluster around RNA maturation (splicing, ncRNA silencing, rRNA processing) and ribosome assembly (including mitochondrial large subunit), along with cytoplasmic stress granule localization and protein targeting. This points to a shared theme of RNA processing and ribosome biogenesis, with components associating with stress-related granules, hence the named cluster.","confidence":"Medium","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:1901407","count":6},{"id":"GO:0000464","count":6},{"id":"GO:1903608","count":5}]},{"hash":"1828838240340582160","title":"Mitochondrial Transport and Permeability","description":"The terms show a strong focus on transport across mitochondrial and related membranes (ADP, phosphate, citrate, thiosulfate, deoxynucleotides, glycine, heme), plus regulation of mitochondrial membrane permeability and apoptotic mitochondrial changes. This suggests a cohesive cluster of mitochondrial solute transport and membrane-permeability functions, with some links to mitochondrial-centered apoptosis signaling.","confidence":"High","size":12,"edges":9,"triangles":1,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008637","count":5},{"id":"GO:0015709","count":4},{"id":"GO:0015866","count":4},{"id":"GO:0046902","count":4},{"id":"GO:0035435","count":4}]},{"hash":"2104946459132855799","title":"Neural development and mitotic cell cycle regulation","description":"The top GO terms merge brain development with mitotic processes (spindle assembly, cell cycle) and growth, with a notable neuron-specific function in regulation of synaptic vesicle exocytosis and vesicle trafficking (COPII budding). This suggests a cluster of proteins involved in neural development that also participate in cell division and intracellular trafficking, reflecting coordinated growth and synaptic maturation. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0090307","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":5},{"id":"GO:2000300","count":5}]},{"hash":"462305673551772186","title":"Actin Cytoskeleton Dynamics","description":"The top GO terms cluster around actin filament formation and nucleation (Arp2/3 complex\u2013mediated nucleation, cortical patch assembly, filament polymerization), which points to actin cytoskeleton remodeling as the core shared function. Other terms touch on apoptosis and some unrelated processes, suggesting some noise or secondary roles, but the strongest signal is actin dynamics. Therefore, the label reflects the central theme, with moderate confidence due to the mixed signals.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043164","count":1},{"id":"GO:0034314","count":1},{"id":"GO:0000147","count":1},{"id":"GO:0030041","count":1},{"id":"GO:0030097","count":1}]},{"hash":"157877318148586342","title":"Neural development signaling and cytoskeletal regulation","description":"This cluster centers on neural development cues, including Purkinje cell signaling and axonogenesis, and on signaling pathways such as calcineurin-NFAT and non-canonical NF-kappaB. It also includes actin cytoskeleton regulation and related processes like platelet aggregation, with a few metabolic biosynthesis terms that may reflect shared housekeeping roles. Overall, the dominant theme is neuronal development and its signaling/cytoskeletal regulation.","confidence":"Medium","size":12,"edges":9,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006782","count":4},{"id":"GO:0009102","count":4},{"id":"GO:0021937","count":3},{"id":"GO:0070886","count":3},{"id":"GO:0030835","count":3}]},{"hash":"215674953240439581","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034402","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0006383","count":1},{"id":"GO:0006384","count":1},{"id":"GO:0006366","count":1}]},{"hash":"519303123661435280","title":"Ribosome biogenesis and ribosomal subunit export","description":"The top terms show clear enrichment for ribosome-related processes: ribosomal small subunit and large subunit export from the nucleus and ribosomal small subunit biogenesis, pointing to a core function in ribosome assembly and trafficking. Other terms present (DNA replication, splicing, actin localization) are sparse and weaker, making ribosome biogenesis the most representative theme for this cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042023","count":1},{"id":"GO:0000056","count":1},{"id":"GO:1904669","count":1},{"id":"GO:0042274","count":1},{"id":"GO:0045793","count":1}]},{"hash":"656439261147277453","title":"Unknown","description":"There are no shared GO terms or interactions in this cluster (edges/degree/triangles are zero and Top Terms are empty), so there is no clear common function to name. Without functional convergence or annotations, the appropriate label is Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"2292313974052850545","title":"Unknown","description":"The Top Terms are scattered across RNA processing (tRNA processing and tRNA biosynthesis) and various metabolic processes (pyruvate decarboxylation, formate metabolism, lactate oxidation, photosynthesis-related steps, and cofactor biosynthesis), with no single dominant function tying most proteins together. This makes it hard to assign a coherent, specific label beyond Unknown.","confidence":"","size":12,"edges":11,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006214","count":1},{"id":"GO:0019684","count":1},{"id":"GO:0008616","count":1},{"id":"GO:0008033","count":1},{"id":"GO:0060702","count":1}]},{"hash":"1123848296735375789","title":"Neural development and synaptic signaling","description":"Dominant GO terms show neural development and synaptic activity, including axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential, and visual perception, suggesting a neural network\u2013oriented cluster. Some terms such as mitotic cell cycle and ABA signaling appear less related and may reflect annotation noise or multi-function genes, but the core theme remains neuronal growth and synaptic function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0060291","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0010800","count":8},{"id":"GO:0043065","count":8}]},{"hash":"2005920290492015271","title":"RNA processing and cell cycle signaling regulators","description":"This cluster shows strong hints of RNA processing and ribosome-related maturation (mRNA splicing via spliceosome, mRNA transport, SSU-rRNA maturation) along with signals governing cell cycle progression and phosphorylation-based signaling (mitotic cell cycle; positive regulation of protein autophosphorylation and serine/threonine kinase activity, GTPase activity). The combination suggests proteins that link RNA processing with cell cycle signaling rather than a single narrow function, so the label emphasizes both themes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0071456","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0000278","count":3}]},{"hash":"427931909664509678","title":"RNA processing and translation initiation","description":"The top terms point to a cohesive module of RNA metabolism: mRNA splicing and spliceosome/processome assembly, mRNA export, regulation of mRNA stability under stress, and assembly of translation initiation machinery (preinitiation complexes, eIF4F) and IRES-driven initiation, alongside miRNA-mediated silencing. This indicates a shared function in RNA maturation and the control of translation initiation.","confidence":"High","size":12,"edges":11,"triangles":1,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":10},{"id":"GO:0060211","count":10},{"id":"GO:0001731","count":10},{"id":"GO:0034462","count":10},{"id":"GO:0010610","count":10}]},{"hash":"574070145803393813","title":"Diverse Transmembrane Transport","description":"These proteins are linked to transmembrane transport of a wide range of substrates, including vitamins, xenobiotics, nitrite, sugars, and organic ions, as reflected by GO terms such as vitamin transmembrane transport, xenobiotic transmembrane transport, sodium- and sodium-independent transport, and D-xylose transmembrane transport. The presence of a vesicular neurotransmitter loading term also suggests vesicle-associated transport. The shared theme is membrane transport activity across diverse substrates.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":12},{"id":"GO:0006855","count":12},{"id":"GO:0042891","count":11},{"id":"GO:0098700","count":10},{"id":"GO:0070715","count":10}]},{"hash":"870559541057043666","title":"DNA Transcription Regulation and DNA Repair","description":"This cluster centers on transcription control, with GO terms for regulation of DNA-templated transcription and transcription initiation/elongation, plus DNA damage response and repair terms (SOS response, nucleotide-excision repair). A minority term about transformation competence is present, but the dominant theme ties transcription regulation to DNA damage signaling and repair, suggesting a coherent functional cluster.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:2000270","count":1},{"id":"GO:0032968","count":1},{"id":"GO:0034244","count":1},{"id":"GO:0030420","count":1}]},{"hash":"1663668877798545887","title":"RNA processing and translation initiation","description":"This cluster centers on mRNA maturation and handling\u2014splicing, spliceosome assembly, and mRNA export\u2014together with the machinery and regulation of translation initiation (including preinitiation complex formation and eIF4F assembly) and stress-related mRNA stability and silencing. These connected themes suggest coordinated control of mRNA processing and protein synthesis, especially under stress or alternative translation modes (e.g., IRES). ","confidence":"High","size":12,"edges":10,"triangles":6,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0035278","count":6},{"id":"GO:0060211","count":6},{"id":"GO:0001731","count":6},{"id":"GO:0034462","count":6},{"id":"GO:0010610","count":6}]},{"hash":"1200310922209758813","title":"Acetylation and polyamine metabolism","description":"The top GO terms cluster around acetylation: spermidine acetylation, putrescine acetylation, peptidyl-lysine N6-acetylation, N-terminal peptidyl-glutamic acid acetylation, and N-acetylglucosamine metabolic process, suggesting a core theme of acetylation-related modifications in proteins and metabolites. Supporting plant-related processes like melatonin biosynthesis and leaf formation regulation appear, which can involve acetylation pathways. Overall, the cluster seems centered on acetylation-driven metabolism and protein/amine modifications.","confidence":"High","size":12,"edges":64,"triangles":200,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0060358","count":9},{"id":"GO:0032918","count":9},{"id":"GO:0018003","count":9},{"id":"GO:0030187","count":9},{"id":"GO:0009447","count":9}]},{"hash":"1582862034769686504","title":"Ubiquitin-Dependent NF-kappaB and TNF Signaling","description":"Most top GO terms cluster around ubiquitin-related regulation (deubiquitination, proteasomal processing, ubiquitin ligase activity) and inflammatory signaling pathways (non-canonical NF-kappaB, TNF-mediated signaling). There are a few peripheral terms (plant hypersensitive response, zinc response) that are less central, but the dominant theme is ubiquitin-proteasome\u2013mediated control of inflammatory signaling. ","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":5},{"id":"GO:0038061","count":5},{"id":"GO:0033209","count":4},{"id":"GO:0090090","count":4},{"id":"GO:0060071","count":4}]},{"hash":"112531154286762155","title":"Inflammation-Driven Angiogenesis","description":"This cluster shows enrichment in acute inflammatory response, sprouting angiogenesis, and endothelial proliferation, consistent with inflammation-associated vascular remodeling. Additional terms like lipoprotein transport, receptor-mediated endocytosis, and foam cell differentiation suggest macrophage-linked lipid handling within inflamed vessels, supporting a combined immune-vascular theme.","confidence":"Medium","size":12,"edges":15,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0018277","count":5},{"id":"GO:0002438","count":5},{"id":"GO:0002040","count":5},{"id":"GO:0061053","count":5},{"id":"GO:0042953","count":5}]},{"hash":"347956739665458190","title":"Copper Transport and Homeostasis","description":"The dominant GO terms point to copper ion import, copper ion homeostasis, and copper-related transmembrane transport, suggesting these proteins work together in copper uptake and intracellular balance; the additional terms on xenobiotic transport and cisplatin response may reflect broader metal-stress or membrane-transport connections.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":1},{"id":"GO:1902311","count":1},{"id":"GO:0098705","count":1},{"id":"GO:0006878","count":1},{"id":"GO:0015680","count":1}]},{"hash":"1005454227720700748","title":"Unknown","description":"Top Terms are not provided, so no shared GO terms can be inferred; with no functional signal, a specific label cannot be assigned.","confidence":"","size":12,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[]},{"hash":"741620228853689362","title":"Co-translational membrane targeting and translation regulation","description":"The top GO terms cluster around SRP-dependent cotranslational protein targeting to membrane and related translocation, plus regulation of translation, which suggests these proteins function in guiding nascent peptides to membranes and controlling translation. Ubiquitination and homooligomerization may reflect ancillary quality control or assembly roles. Some terms like neurotransmitter transport or DNA topoisomerase regulation appear sporadic and less central to this theme. Overall, a shared focus on membrane targeting during translation best explains the cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000372","count":1},{"id":"GO:0051260","count":1},{"id":"GO:0006836","count":1},{"id":"GO:0016567","count":1},{"id":"GO:0006614","count":1}]},{"hash":"841545307793342384","title":"Bone formation and matrix remodeling","description":"The cluster shows concrete bone-related processes, notably collagen catabolic process and intramembranous ossification, which point to bone formation and extracellular matrix remodeling as a core theme. While there are additional terms related to secretory pathways and immune signaling (neurotransmitter secretion, dense core granule exocytosis, T cell anergy, neutrophil degranulation) present only at lower frequency, the bone-related terms are the strongest signal. Some terms appear obsolete or ancillary, but the prominent pattern supports a bone formation/remodeling interpretation.","confidence":"Medium","size":12,"edges":54,"triangles":124,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:1900122","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0001957","count":2},{"id":"GO:0043314","count":1},{"id":"GO:1905433","count":1}]},{"hash":"377831088929937491","title":"Retroviral integration and latency","description":"This cluster is dominated by terms tied to retroviral lifecycle: DNA integration, RNA-templated DNA biosynthesis, DNA recombination, and establishment of integrated proviral latency, indicating proviral genome integration and latent infection processes. Additional terms about viral entry into the host nucleus and symbiont\u2013host interactions reinforce a viral/host integration theme, with supporting RNA processing-related terms reflecting expression of these elements.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0006278","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3}]},{"hash":"875365888442593939","title":"Retroviral genome integration and latency","description":"The cluster shows strong enrichment for GO terms tied to retroviral life-cycle steps: DNA integration, DNA recombination, RNA-templated DNA biosynthetic (reverse transcription), establishment of integrated proviral latency, viral penetration into the host nucleus, and DNA replication. These collectively point to proteins involved in retroviral genome insertion and maintenance within host cells. Some terms about symbiont entry/apoptosis may reflect broader host\u2013pathogen interaction contexts, and the triglyceride biosynthesis term is likely incidental. Overall, the theme is retroviral genome integration and latency.","confidence":"High","size":11,"edges":41,"triangles":75,"max_degree":10,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":8},{"id":"GO:0006310","count":8},{"id":"GO:0006278","count":8},{"id":"GO:0075713","count":8},{"id":"GO:0039651","count":8}]},{"hash":"95355004542203905","title":"Proteoglycan and glycosaminoglycan biosynthesis","description":"The cluster is enriched for proteoglycan-related biosynthetic and metabolic processes (heparan sulfate, dermatan sulfate, chondroitin sulfate) and polysaccharide localization, pointing to roles in glycosaminoglycan/proteoglycan assembly and extracellular matrix composition; the inclusion of chondrocyte development and ureteric bud formation supports involvement in ECM-mediated development. ","confidence":"High","size":11,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0033037","count":2},{"id":"GO:0015015","count":2},{"id":"GO:0030208","count":2},{"id":"GO:0050655","count":2},{"id":"GO:0030202","count":2}]},{"hash":"1175767482528013132","title":"Oxidative stress and DNA damage response","description":"The top GO terms converge on cellular defense against stress and DNA processing: DNA recombination, cellular response to hydrogen peroxide, apoptotic process, and response to xenobiotic stimuli. These point to a theme of DNA damage response and oxidative stress signaling, with other terms like regulation of mRNA stability and corneocyte development likely reflecting broader regulatory roles or tissue-specific aspects. Overall, the strongest signal is oxidative stress\u2013linked DNA damage response, with some outliers that reduce specificity.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":6},{"id":"GO:0070301","count":5},{"id":"GO:0003335","count":5},{"id":"GO:0042493","count":5},{"id":"GO:0014912","count":5}]},{"hash":"1652071613132948895","title":"Viral DNA integration and proviral latency","description":"The top GO terms emphasize viral genome processes: DNA recombination and DNA integration, RNA-templated DNA biosynthesis, and specifically establishment of integrated proviral latency, along with viral entry into the host nucleus and symbiont-host cell interactions. This combination strongly points to mechanisms of viral genome integration and latency, with related host-cell entry steps, rather than generic DNA metabolism. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0015074","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4}]},{"hash":"1855704334190457890","title":"Mammary gland development and lactation regulation","description":"This cluster is enriched for mammary gland development and lactation terms (alveolus development and lactation), with supporting signals from transcriptional regulation, cell cycle control, and Wnt signaling that underlie mammary tissue growth and differentiation; a few other terms such as insulin signaling reflect broader growth and chromatin dynamics, while one obsolete term is likely noise.","confidence":"Medium","size":11,"edges":16,"triangles":4,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0071157","count":2},{"id":"GO:0060749","count":2},{"id":"GO:0010696","count":2},{"id":"GO:0007595","count":2}]},{"hash":"1494712933532235951","title":"Nucleic acid repair and RNA modification","description":"The cluster centers on RNA processing and tRNA/modification steps, coupled with DNA repair and links to programmed cell death, suggesting a module that coordinates nucleic acid maintenance with cell death regulation.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"programmed cell death","top_go_terms":[{"id":"GO:0006397","count":4},{"id":"GO:0035553","count":4},{"id":"GO:1990983","count":4},{"id":"GO:0012501","count":4},{"id":"GO:0042245","count":4}]},{"hash":"691372465942147199","title":"Immune signaling and cytoskeletal remodeling","description":"This cluster is dominated by immune-related processes (NK T cell differentiation, B cell affinity maturation, IL-4 production) and is linked to cytoskeletal dynamics (filopodium and lamellipodium assembly) and small GTPase/Ras signaling, suggesting a theme of immune cell activation coupled with actin remodeling. The heart development term is less central, likely reflecting shared signaling pathways rather than a core cluster function.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0001865","count":8},{"id":"GO:0008286","count":8},{"id":"GO:0035023","count":8},{"id":"GO:0046847","count":8}]},{"hash":"838755842494047326","title":"Spliceosome-driven mRNA processing","description":"The cluster is heavily enriched for terms related to mRNA splicing and processing by the spliceosome (e.g., mRNA splicing via spliceosome, regulation of mRNA splicing via spliceosome, splice site recognition, small-subunit processome assembly) and includes related post-transcriptional regulation such as ncRNA- and miRNA-mediated silencing and translation initiation. This coherence suggests a core function in RNA processing and regulation of mRNA maturation and translation, rather than a distinct other pathway. Confidence in this interpretation is High.","confidence":"","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0000398","count":5}]},{"hash":"2299288084169301572","title":"Purinergic signaling and nucleotide metabolism","description":"The cluster\u2019s top terms center on nucleotide metabolism (purine catabolic process, adenosine and ATP metabolism) and phosphorylation dynamics (phosphorylation/dephosphorylation), pointing to energy signaling and purinergic regulation as the core theme. Some terms (lipopolysaccharide biosynthesis, cell adhesion, polarity, and angiogenesis) are less tightly connected and may reflect broader annotation or context rather than a single shared function.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016311","count":4},{"id":"GO:0006195","count":3},{"id":"GO:0016310","count":3},{"id":"GO:0046085","count":3},{"id":"GO:0015991","count":2}]},{"hash":"1376651128059130851","title":"Embryonic and placental development","description":"This cluster centers on developmental processes, especially placental/extraembryonic differentiation and embryogenesis: trophoblast giant cell differentiation, EMT in endocardial cushion formation, endocrine system development, and pancreatic cell development. A few terms touch broader cell-cycle or modification processes, but the dominant signal is developmental differentiation in embryonic and placental contexts.","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010957","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0032298","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060806","count":2}]},{"hash":"1248965370747980334","title":"Histone modification and transcription","description":"The top GO terms center on histone acetylation and methylation (histone H3/H4 marks) and DNA-templated transcription, indicating a chromatin state\u2013regulation theme that controls gene expression. Other terms like ribosome biogenesis and cell division align as downstream cellular processes, but the core is chromatin modification governing transcription.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043966","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0061087","count":2},{"id":"GO:0042254","count":2}]},{"hash":"2174393601932220948","title":"Signaling and Cytoskeletal Remodeling","description":"The top GO terms cluster around activation and regulation of signaling pathways (ERK cascade, Wnt signaling, GTPase activity) and post-translational modifications (serine phosphorylation, ubiquitination), together with cytoskeletal and adhesion dynamics (stress fiber assembly, cell spreading, substrate adhesion). This suggests a coherent functional theme where signal transduction coordinates cytoskeletal remodeling and cell-adhesion behavior, with some broader links to apoptosis and hormone signaling.","confidence":"Medium","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":6},{"id":"GO:0033138","count":6},{"id":"GO:0033144","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0043149","count":5}]},{"hash":"1224953344441888286","title":"Unknown","description":"The top GO terms span widely different processes\u2014from cell proliferation regulation and ubiquitin/ERAD to translation initiation, transcription factor localization, actin capping, glial apoptosis, and antibacterial defense\u2014with several obsolete annotations, indicating no coherent shared function among the proteins. This lack of a common theme suggests the cluster is not functionally cohesive. ","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0070208","count":1},{"id":"GO:1905705","count":1},{"id":"GO:0001731","count":1}]},{"hash":"1956066954025460909","title":"RNA Splicing and Translation Regulation","description":"The top GO terms cluster around mRNA processing and post-transcriptional control: multiple spliceosome-related splicing activities, regulation of mRNA stability and poly(A) tail dynamics, and components of translation initiation/reinitiation and miRNA-mediated silencing. This combination points to a set of proteins coordinating splicing and downstream control of gene expression at the RNA level, including translational regulation by ncRNA pathways. Therefore, the label reflects the core theme of RNA processing and translational regulation.","confidence":"High","size":11,"edges":5,"triangles":1,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":6},{"id":"GO:0000398","count":6},{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0001731","count":5}]},{"hash":"407904691497992060","title":"Golgi- and Synaptic Vesicle Trafficking","description":"This cluster centers on vesicle trafficking and localization processes linked to the Golgi and synapses, including ER-to-Golgi transport, Golgi organization, vesicle fusion with the Golgi, and receptor/protein localization to the plasma membrane and synapse, which are key to long-term synaptic potentiation and regulated secretion. The presence of corticosterone response and insulin secretion-related terms supports broader secretory regulation integrated with trafficking pathways.","confidence":"High","size":11,"edges":16,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:1903358","count":3},{"id":"GO:0010811","count":3},{"id":"GO:0048280","count":3},{"id":"GO:0051412","count":2}]},{"hash":"2044531754835429408","title":"Retroviral DNA Integration and Latency","description":"These proteins are enriched for GO terms tied to DNA replication, DNA integration, and recombination, along with RNA-templated DNA biosynthesis and the establishment of integrated proviral latency\u2014key features of retroviral genome replication and persistence. Additional terms related to viral entry into the host nucleus and modulation of host defenses (e.g., siRNA processing) support a viral lifecycle and host interaction context. Taken together, the cluster most plausibly reflects retroviral DNA integration and proviral latency.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0015074","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006278","count":2},{"id":"GO:0075713","count":2}]},{"hash":"2098389943588338481","title":"Immune signaling and transcriptional regulation","description":"This cluster is enriched for immune-related signaling terms (cellular response to lipopolysaccharide, GM-CSF stimulus, and T cell receptor signaling) and transcriptional regulation (regulation of DNA-templated transcription, DNA-templated transcription), suggesting a core function in immune signal transduction that leads to transcriptional changes. Additional terms like potassium ion transport, dendrite morphogenesis, and other signaling pathways likely reflect broader signaling roles or annotation overlap but do not override the main theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":10},{"id":"GO:0071222","count":9},{"id":"GO:0006813","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0097011","count":9}]},{"hash":"1065092460815007118","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by ribosome-related processes: ribosome biogenesis, cytoplasmic translation, ribosomal subunit export, and tRNA modification, along with cell cycle and cell division terms, indicating proteins focused on ribosome assembly and protein synthesis that support cell growth. Some stress-response terms suggest regulation of translation under nutrient or salt stress, but the core signal ties to ribosome production and function.","confidence":"High","size":11,"edges":16,"triangles":0,"max_degree":8,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0042254","count":4},{"id":"GO:0007049","count":4},{"id":"GO:1901001","count":4},{"id":"GO:1903833","count":4}]},{"hash":"1239149502831884665","title":"Developmental morphogenesis and neural guidance","description":"The terms cluster around developmental processes across multiple tissues (auditory and olfactory structures, heart, otoliths, salivary gland) and neural guidance via semaphorin-plexin signaling, with supporting themes of ERK signaling and cell\u2013cell adhesion. This suggests a shared theme of tissue morphogenesis during development and neural connectivity rather than a single, narrow pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902287","count":2},{"id":"GO:0060117","count":2},{"id":"GO:0071699","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0097324","count":2}]},{"hash":"1383336759147466027","title":"Mitochondrial Transporters and Membrane Potential Regulation","description":"The terms cluster around mitochondrial inner-membrane transport (ADP, iron, heme, thiosulfate) and regulation of membrane permeability and potential, with adaptive thermogenesis underscoring energy metabolism. This points to a cohesive group of mitochondrial carrier/transport proteins involved in substrate import and maintaining mitochondrial energetics.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0015709","count":3},{"id":"GO:0015886","count":3},{"id":"GO:0015866","count":3},{"id":"GO:0046902","count":3},{"id":"GO:1990845","count":3}]},{"hash":"1250384267429119139","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001707","count":2},{"id":"GO:0070843","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0071374","count":2}]},{"hash":"353631724776900292","title":"Cardiac muscle signaling and development","description":"The top terms center on heart development and regulation of cardiac muscle contraction, complemented by signaling-related processes such as GTPase activity regulation and protein phosphorylation, suggesting a core theme of cardiac muscle signaling and development. While there are outliers related to ossification, autophagy, and xenobiotic response, the strongest coherent signal across the cluster is heart- and muscle-focused regulation. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006468","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0016237","count":2}]},{"hash":"784383016931330887","title":"Organic acid catabolism and acetyl-CoA metabolism","description":"The top GO terms cluster around breakdown and processing of small organic acids (glucarate, galactarate, phenylacetate, oxaloacetate) and acetyl-CoA\u2013related metabolism, with a related carbon-fixation pathway, suggesting a cluster focused on central carbon metabolism and small-molecule catabolism. Some terms appear unrelated or obsolete, but the dominant pattern supports this theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043427","count":1},{"id":"GO:0042838","count":1},{"id":"GO:0046392","count":1},{"id":"GO:0006107","count":1},{"id":"GO:0010124","count":1}]},{"hash":"1564328501408679895","title":"Thermal stress\u2013inflammatory signaling","description":"The cluster seems driven by temperature-related terms (diet induced thermogenesis, cellular response to temperature stimulus) and inflammatory signaling (positive regulation of chronic inflammatory response to non-antigenic stimulus), with supporting links to common signaling processes (ERK cascade, protein phosphorylation) and receptor signaling (serotonin pathway). While some terms (viral release, heart development) are less directly connected, the dominant theme centers on temperature/stress responses and downstream signaling and inflammation, suggesting a cohesive cluster around stress-induced signaling networks.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":7},{"id":"GO:0071502","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0019076","count":6},{"id":"GO:0002882","count":6}]},{"hash":"2098295736619205446","title":"Nuclear Transcription and Ribosome Biogenesis","description":"The cluster is enriched for RNA polymerase II transcription terms (initiation, elongation fidelity, transcription-coupled repair, RNA-templated transcription) plus RNA Pol I\u2013mediated rRNA transcription and ribosome biogenesis, suggesting a nuclear program linking transcription with ribosome production. Some outlier terms (oxidant detoxification) may be less central noise but do not override the core transcription/ribosome biogenesis theme.","confidence":"High","size":11,"edges":52,"triangles":141,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0098869","count":5},{"id":"GO:0006283","count":3},{"id":"GO:0001193","count":3},{"id":"GO:0031564","count":3},{"id":"GO:0006379","count":3}]},{"hash":"1271733372485654699","title":"ER Stress and Redox Response","description":"The cluster centers on responses to ER stress and redox-related processes, including detoxification of oxidants and protein deglutathionylation, with signals of transcriptional regulation. This suggests a cohesive theme of managing protein folding stress and redox balance, with downstream effects on DNA binding and transcription.","confidence":"Medium","size":11,"edges":14,"triangles":4,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034976","count":5},{"id":"GO:0033158","count":5},{"id":"GO:0018401","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0045494","count":5}]},{"hash":"736691798345049627","title":"Membrane potential regulation in sensory neurons","description":"The cluster contains GO terms for temperature stimulus response and sensory perception (pain and touch) together with membrane potential and potassium transport terms. This points to proteins involved in neuronal excitability and sensory signaling, especially via ion channel activity and potassium homeostasis.","confidence":"High","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0050976","count":5},{"id":"GO:0060075","count":5}]},{"hash":"1765215223359488638","title":"Cardiovascular development and Rho-GTPase signaling","description":"The top GO terms are dominated by heart development and vascular permeability regulation, plus positive regulation of Rho GTPase signaling and GTPase activity, which together point to cardiovascular development and cytoskeletal signaling in endothelial cells. Some transport/glycosylation terms and an outlier plant term appear, but the core signal remains vascular development and Rho pathway regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0043114","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0035025","count":3},{"id":"GO:0015713","count":2}]},{"hash":"1226473198073079985","title":"Endosomal trafficking and Golgi transport","description":"This cluster is dominated by GO terms describing endosomal movement and cargo routing between endosomes, Golgi, and lysosomes (early to late endosome transport, endosome to lysosome, early endosome to Golgi, endocytic recycling, CvT pathway). While there are some mitotic and cytoskeletal terms, the strongest signal is vesicle trafficking through endosomal-Golgi pathways, justifying a label focused on endosomal transport with Golgi involvement.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045022","count":3},{"id":"GO:1990126","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0032258","count":2},{"id":"GO:0008333","count":2}]},{"hash":"554090116451049922","title":"RNA Modification and DNA Repair Linked to PCD","description":"The cluster centers on RNA processing and tRNA/demethylation-related modifications, plus RNA/DNA repair, with several terms indicating programmed cell death, including mitochondrial permeability changes in necrotic pathways. This suggests a coherent theme where nucleic acid maintenance and modification intersect with cell death signaling.","confidence":"Medium","size":11,"edges":8,"triangles":0,"max_degree":8,"top_function":"programmed cell death","top_go_terms":[{"id":"GO:0006397","count":3},{"id":"GO:0035553","count":3},{"id":"GO:1990983","count":3},{"id":"GO:0012501","count":3},{"id":"GO:0042245","count":3}]},{"hash":"1070910709167741755","title":"Amino acid and metabolite membrane transporters","description":"The GO terms are all about transmembrane transport of amino acids and related metabolites (methionine, leucine, arginine, D-serine, carnitine, polyamines, ammonium), plus transporter regulation and cell volume homeostasis. This indicates a cohesive theme of membrane transporters handling amino acids and related metabolites.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044690","count":1},{"id":"GO:0015812","count":1},{"id":"GO:0006884","count":1},{"id":"GO:0070634","count":1},{"id":"GO:0098713","count":1}]},{"hash":"1958876952262715430","title":"Rho GTPase\u2013driven actin remodeling","description":"This cluster centers on actin cytoskeleton remodeling governed by Rho-family GTPases, evidenced by lamellipodium/filopodium assembly, actin organization, and GTPase signaling driving cell spreading and adhesion. The GO terms emphasize dynamic cytoskeletal change and motility, with contextual links to morphogenesis and vascular remodeling.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":2},{"id":"GO:0007266","count":2},{"id":"GO:1904693","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0030032","count":2}]},{"hash":"2281780841596815923","title":"Multiorgan Morphogenesis and Differentiation","description":"These GO terms cluster around developmental morphogenesis and cell/fate differentiation across multiple tissues and organ systems (heart structures like pulmonary artery/valve and endocardial cushions; kidney loop of Henle; palate morphogenesis; auditory receptor cell fate; osteoblast differentiation) and include stem cell differentiation regulation and immune cell differentiation (gamma-delta T cells), plus a general differentiation-related response. The shared theme is broad developmental morphogenesis rather than a single, specific pathway, so this label best captures the cluster.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061156","count":3},{"id":"GO:0032495","count":3},{"id":"GO:0042492","count":3},{"id":"GO:0061444","count":3},{"id":"GO:0009912","count":3}]},{"hash":"1625173577734022486","title":"Unknown","description":"The top terms span muscle structure, neuronal drug responses, ion transport, signaling regulation, transcriptional repression, and lipid catabolism, with no single coherent function linking them. Zero edges further suggest a heterogeneous, non-cohesive grouping, so a specific label isn\u2019t justifiable.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":2},{"id":"GO:0042391","count":1},{"id":"GO:0097332","count":1},{"id":"GO:0046827","count":1},{"id":"GO:0098719","count":1}]},{"hash":"1656109376189251151","title":"Cardiac development and endocardial cushion EMT","description":"Based on the GO terms, many entries relate to heart formation: atrioventricular canal development, secondary heart field specification, endocardial cushion EMT, arterial endothelial cell fate commitment, and myocardial precursor differentiation. Some terms like keratinocyte differentiation or wing disc patterning appear as minor, possibly cross-annotated terms, but the core signal is cardiac morphogenesis and lineage specification. Therefore, the cluster likely represents proteins involved in cardiac development, especially endocardial cushion EMT.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":2},{"id":"GO:0039021","count":1},{"id":"GO:0036302","count":1},{"id":"GO:0061419","count":1},{"id":"GO:0003198","count":1}]},{"hash":"1987719115336262929","title":"CDK-Regulated Cell Cycle and Transcription","description":"The dominant GO terms point to regulation of cyclin-dependent kinase activity and mitotic cell cycle transitions, alongside transcriptional regulation and proliferation, with a note on meiosis I. This suggests a coordinated network governing CDK-driven cell cycle progression and associated transcription, so the label reflects both the cell cycle control and transcriptional aspects.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045737","count":1},{"id":"GO:0044772","count":1},{"id":"GO:0045893","count":1},{"id":"GO:0008283","count":1},{"id":"GO:0006357","count":1}]},{"hash":"777673639837143119","title":"Ubiquitin-Proteasome Regulation","description":"The cluster's strongest signals are protein ubiquitination, proteasome regulatory particle assembly, and related post-translational modification, suggesting a core theme of protein turnover control. Wnt signaling, vasopressin secretion, and chemokine production may be modulated by ubiquitin-proteasome pathways, while heat response and lipid catabolism are broader cellular contexts that can intersect with protein turnover.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0044707","count":2},{"id":"GO:0090501","count":2},{"id":"GO:0046475","count":2},{"id":"GO:0070213","count":2}]},{"hash":"886579226410756246","title":"Proviral integration and latency establishment","description":"This cluster centers on retroviral lifecycle steps: reverse transcription (RNA-templated DNA synthesis), DNA recombination/integration, and DNA replication, plus the explicit process of establishing integrated proviral latency and related viral entry into the host nucleus. The inclusion of host-defense-related terms (e.g., suppression of RNA silencing) and viral entry/host interactions reinforces a unifying theme of proviral genome integration and latency within the host genome. ","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":8},{"id":"GO:0015074","count":7},{"id":"GO:0006278","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0075713","count":7}]},{"hash":"956835456879461393","title":"Retroviral DNA replication and latency","description":"The GO terms cluster around the retroviral lifecycle: reverse transcription (RNA-templated DNA biosynthesis), DNA replication/recombination, DNA integration, and the establishment of proviral latency, plus viral entry into the host nucleus. A few symbiont-host interaction terms are present but don\u2019t override the retroviral core signal.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0015074","count":3},{"id":"GO:0006278","count":3},{"id":"GO:0075713","count":3}]},{"hash":"259974711283139788","title":"Retroviral DNA integration and proviral latency","description":"This cluster centers on DNA integration, recombination, and transposition, plus steps characteristic of retroviral life cycles such as RNA-templated DNA synthesis, entry into the host nucleus, and establishment of integrated proviral latency. The presence of terms relating to host\u2013symbiont interactions and suppression of RNAi processing suggests involvement in host defense evasion alongside genome remodeling, pointing to retroviral/transposon\u2013like machinery.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0039651","count":2},{"id":"GO:1903704","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0006310","count":2}]},{"hash":"707837142083930947","title":"Viral DNA integration and proviral latency","description":"The top GO terms cluster around integration of viral genomes into host DNA (DNA integration, RNA-templated DNA biosynthesis, DNA recombination, proviral latency) and processes involving viral entry into the host nucleus, which together point to proviral maintenance and latent viral infection. Additional terms about symbiont entry and host apoptosis hint at intracellular infection dynamics, but the strongest signal is proviral DNA integration and latency. Overall, this set most plausibly reflects viral genome integration and latency mechanisms, with some ancillary host-entry interactions.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4}]},{"hash":"2073887393218960612","title":"Retroviral Integration and Genome Replication","description":"The top GO terms cluster around DNA recombination, DNA integration, reverse transcription (RNA-templated DNA biosynthesis), DNA replication, and establishment of proviral latency, complemented by viral entry into the host nucleus and host-pathogen interaction terms, pointing to a retroviral life-cycle module and host defense countermeasures.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":5},{"id":"GO:0015074","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0075713","count":4}]},{"hash":"10167288769634192","title":"Ubiquitin-Dependent Proteolysis in Mitosis","description":"The cluster is dominated by ubiquitin-mediated degradation processes tied to cell-cycle control: SCF- and APC/C-related proteolysis, K11/K48-linked ubiquitination, and mitotic cell cycle/anaphase-promoting complex\u2013dependent catabolic activity. This suggests a cohesive role in regulating mitosis via targeted protein degradation, with the peroxisome import term appearing less connected to the main theme. ","confidence":"Medium","size":10,"edges":34,"triangles":51,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0070979","count":7},{"id":"GO:0051301","count":6},{"id":"GO:0000278","count":6}]},{"hash":"1989727533894010562","title":"Acute-phase inflammatory and coagulation response","description":"The top GO terms cluster around inflammation and host defense (acute-phase response, defense response to Gram-positive bacteria) and coagulation (blood coagulation), with additional signals toward immune-related processes. Although a few terms span broader cellular processes (e.g., translation initiation, signaling), the strongest, recurring themes point to an inflammatory/immune and coagulation role for this protein group.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:0060733","count":2},{"id":"GO:0006953","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0045445","count":2}]},{"hash":"1940492998922824835","title":"Eye Development and Visual Signaling","description":"The cluster is dominated by terms tied to retina development and visual perception, suggesting a core function in eye formation and visual processing. Supporting signaling activities (GTPase regulation, protein phosphorylation, adenylate ciclase/cAMP signaling) and related proliferation terms point to developmental signaling processes common to eye tissues. Some terms (heart development, amphetamine response) are less central but may reflect broader signaling roles or pleiotropy in developmental pathways.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0008283","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0006468","count":6},{"id":"GO:0007507","count":6}]},{"hash":"389816796634121692","title":"Tissue remodeling and morphogenesis","description":"The top GO terms point to developmental processes and remodeling across tissues\u2014bone resorption, decidualization, epithelial tube branching in lung morphogenesis, basement membrane disassembly, and signaling related to Wnt, thyroid hormone, and neural precursor proliferation\u2014suggesting a cohesive theme of morphogenesis and extracellular remodeling, with some immune/neuropeptide associations as supplementary signals.","confidence":"Medium","size":10,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045453","count":7},{"id":"GO:0046697","count":6},{"id":"GO:0010813","count":6},{"id":"GO:0035593","count":6},{"id":"GO:0060448","count":6}]},{"hash":"1039417868194440984","title":"Mitochondrial dynamics and cardiolipin regulation","description":"The top GO terms cluster around mitochondria: inheritance, stress-induced fusion, and regulation of cardiolipin metabolism, which strongly suggests a shared role in mitochondrial dynamics and lipid regulation. While other terms touch on signaling (PKC) and immune-related processes (IL-2 production), the core pattern points to mitochondrial maintenance and stress response pathways. Therefore, a name focused on mitochondrial dynamics and cardiolipin regulation best represents the group.","confidence":"High","size":10,"edges":37,"triangles":84,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":7},{"id":"GO:1990046","count":7},{"id":"GO:0045541","count":7},{"id":"GO:0032623","count":7},{"id":"GO:0060355","count":7}]},{"hash":"1988989199883345079","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0000480","count":3},{"id":"GO:0000472","count":3},{"id":"GO:0000398","count":2},{"id":"GO:0019076","count":1}]},{"hash":"1080802015026449527","title":"Neural development and brain fluid/ion transport","description":"The proteins show brain morphogenesis and neuron development terms alongside several transport-related processes (chloride and bicarbonate transport, CSF secretion, fluid transport, pH regulation), suggesting a theme of neural development linked to brain ion/fluid homeostasis.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048854","count":1},{"id":"GO:0010036","count":1},{"id":"GO:0035641","count":1},{"id":"GO:0021860","count":1},{"id":"GO:1902476","count":1}]},{"hash":"1005920472525434669","title":"DNA Replication Initiation & MCM Assembly","description":"This cluster is characterized by GO terms focusing on DNA replication initiation, strand elongation, cell cycle, and MCM complex assembly, pointing to core replication machinery and replication timing during the cell cycle; a few outlier terms exist but do not override the primary theme.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0030174","count":1},{"id":"GO:0007307","count":1},{"id":"GO:0006271","count":1},{"id":"GO:0090102","count":1}]},{"hash":"1516277398974758073","title":"Mitochondrial Transport and Membrane Potential Regulation","description":"The cluster\u2019s frequent GO terms center on transport of substrates into/within mitochondria (thiosulfate, heme, ADP, iron) and on regulation of mitochondrial membrane properties (permeability and potential). This points to a cohesive mitochondrial transport/metabolic regulation module, with adaptive thermogenesis supporting energy/heat production linked to mitochondrial function. Some terms are obsolete, but the core theme remains mitochondrial transport and membrane energetics.","confidence":"High","size":10,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015709","count":6},{"id":"GO:0015886","count":6},{"id":"GO:0015866","count":6},{"id":"GO:0046902","count":6},{"id":"GO:1990845","count":6}]},{"hash":"1993490761315018546","title":"Mitochondrial Transport and Membrane Regulation","description":"The top terms strongly point to mitochondrial functions: transport of various substrates (thiosulfate, heme, ADP, iron) into mitochondria, along with regulation of mitochondrial membrane permeability and membrane potential, all of which underpin energy metabolism and adaptive thermogenesis. The mixture suggests a cohesive theme around mitochondrial transport and membrane control rather than a broader, non-specific process.","confidence":"Medium","size":10,"edges":16,"triangles":6,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015709","count":9},{"id":"GO:0015886","count":9},{"id":"GO:0015866","count":9},{"id":"GO:0046902","count":9},{"id":"GO:1990845","count":9}]},{"hash":"502607793774924914","title":"Integrin-mediated adhesion and leukocyte trafficking","description":"The top terms are dominated by cell adhesion and immune signaling: integrin-mediated signaling, heterophilic cell\u2013cell adhesion, leukocyte tethering or rolling, and complement receptor signaling. While there are a few terms related to molting/cuticle and cholesterol response, the strongest and most consistent theme across the cluster is cell adhesion combined with immune cell trafficking and signaling.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018996","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0050901","count":2},{"id":"GO:0002430","count":2}]},{"hash":"1159317767895297882","title":"RNA processing and viral RNA regulation","description":"The proteins cluster around mRNA splicing, stability, and catabolic processes, with additional signals of host-mediated perturbation of viral RNA replication and transport of viral material, pointing to a theme of RNA metabolism linked to viral RNA handling. Some terms are obsolete or peripheral, but the dominant functions suggest a role in RNA processing and viral RNA regulation.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":8},{"id":"GO:0010610","count":6},{"id":"GO:0044830","count":5},{"id":"GO:0006402","count":5},{"id":"GO:0010738","count":5}]},{"hash":"247864546293003545","title":"RNA processing and genome maintenance with apoptosis","description":"Top terms show RNA processing, RNA repair, tRNA modification\u2013related translational regulation, and DNA repair, plus programmed cell death, suggesting a cohesive theme of nucleic-acid metabolism and genome integrity under stress. Some terms (mitotic spindle assembly, myelination) are less clearly linked, likely reflecting broad annotations.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0006397","count":2}]},{"hash":"626344798322533982","title":"RNA processing and transcription regulation","description":"Most terms center on RNA biogenesis and regulation of transcription by RNA Pol II (polyadenylation, mRNA cleavage, transcription termination, CTD dephosphorylation) with transposable element silencing also tying to RNA silencing pathways; a couple terms about calcium signaling and seed dormancy appear peripheral. Overall, the cluster seems to reflect RNA processing and transcription control.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010526","count":1},{"id":"GO:0006379","count":1},{"id":"GO:0070940","count":1},{"id":"GO:0006378","count":1},{"id":"GO:0042769","count":1}]},{"hash":"2253962615444236107","title":"Ion and Small Molecule Membrane Transport","description":"The top GO terms point to a strong enrichment for transmembrane transport across a variety of substrates\u2014vitamins, xenobiotics, ions (Na+/K+), nitrite, organic cations/anions, and even neurotransmitter loading\u2014suggesting a cohesive cluster of proteins that function broadly in moving substances across membranes. The glucose starvation response is a secondary context note, but does not override the primary transport theme.","confidence":"High","size":10,"edges":41,"triangles":90,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":10},{"id":"GO:0006855","count":10},{"id":"GO:0071805","count":10},{"id":"GO:0042908","count":10},{"id":"GO:0098700","count":9}]},{"hash":"2194808594214251239","title":"GPCR Signaling and Hormone Secretion","description":"The cluster's frequent GO terms center on GPCR pathways that inhibit adenylate cyclase (serotonin and dopamine receptors), coupled with ERK1/2 cascade regulation and protein phosphorylation, and with increased hormone secretion. These features point to a coherent theme of GPCR-mediated signaling controlling downstream phosphorylation and endocrine responses. Some terms like heart development and viral release appear less connected but do not dominate the functional signal.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":5},{"id":"GO:0002882","count":5},{"id":"GO:0033861","count":5},{"id":"GO:0007198","count":5},{"id":"GO:0070374","count":5}]},{"hash":"1741122556497877382","title":"Cardiac and Hormonal GPCR Signaling","description":"This cluster is driven by GO terms pointing to GPCR signaling that inhibits adenylate cyclase (serotonin and dopamine receptors), which ties into downstream pathways like ERK activation and protein phosphorylation. The presence of terms related to heart development, hormone secretion, and intestinal smooth muscle contraction supports a unifying theme of GPCR-mediated signaling regulating cardiac function, hormonal release, and smooth muscle activity. Some terms (viral release, nonspecific inflammatory response) appear tangential but do not undermine the core GPCR/Hormone signaling theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":4},{"id":"GO:0002882","count":4},{"id":"GO:0033861","count":4},{"id":"GO:0007198","count":4},{"id":"GO:0070374","count":4}]},{"hash":"490047817766342284","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":26,"triangles":26,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":2},{"id":"GO:0006407","count":1},{"id":"GO:0000461","count":1},{"id":"GO:0000447","count":1}]},{"hash":"2295400200006262850","title":"Innate immune response and coagulation","description":"The top terms cluster around defense against bacteria (Gram-positive), complement activation, and the acute-phase response, indicating innate immune activity. The inclusion of Factor XII activation and regulation of fibrinolysis links the cluster to coagulation/inflammation. Some terms related to development or metabolic responses appear but do not define the core function. Overall, the proteins seem to participate in innate immunity with coagulation/inflammatory cross-talk.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0071333","count":1},{"id":"GO:0051919","count":1}]},{"hash":"1949872985008294343","title":"Neuronal trafficking and synaptic organization","description":"I named this cluster 'Neuronal trafficking and synaptic organization' because the prominent GO terms converge on intracellular transport and secretion (ER-to-Golgi, protein transport, retrograde endosome-to-Golgi transport, neurotransmitter secretion) and on synaptic architecture (gephyrin clustering in postsynaptic density assembly). The inclusion of polarity maintenance also supports a theme of organized cellular trafficking relevant to neural synapses. A few terms relate to broader developmental processes, but the core signal points to trafficking coupled with synaptic assembly and function. ","confidence":"Medium","size":10,"edges":15,"triangles":6,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0033137","count":1},{"id":"GO:0060445","count":1}]},{"hash":"129307971568268456","title":"Collagen biosynthesis and connective tissue development","description":"This cluster features GO terms centered on collagen biosynthesis, collagen-activated signaling, skin development, and extracellular matrix-related processes, suggesting a theme of connective tissue formation and ECM assembly. Cartilage development and endoderm differentiation terms appear as peripheral connections, but the dominant signal is collagen/ECM\u2013related functions across skin and connective tissue. Overall, the proteins seem to participate in ECM production and tissue maturation.","confidence":"Medium","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903225","count":1},{"id":"GO:0003431","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0070994","count":1}]},{"hash":"168962461197643994","title":"Retroviral DNA integration and latency","description":"The GO terms strongly point to retroviral biology: DNA integration, RNA-templated DNA biosynthetic process, DNA replication, and proviral latency establishment. Some terms about symbiont-host interactions and RNAi regulation appear ancillary but do not override the core retroviral theme.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0075713","count":1}]},{"hash":"15774578446713590","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0001707","count":1},{"id":"GO:0070843","count":1},{"id":"GO:0097428","count":1},{"id":"GO:0031204","count":1}]},{"hash":"1322446835207065592","title":"Unknown","description":"There are no GO terms or network connections to unify the 10 proteins; the Top Terms field is empty and there are no edges or triangles, so no shared function can be inferred. The ReCIPE note suggests re-added proteins rather than a coherent functional module, supporting an Unknown label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1455856956935042475","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034402","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0006383","count":2},{"id":"GO:0006384","count":2},{"id":"GO:0006366","count":2}]},{"hash":"1210399535596008411","title":"Unknown","description":"The terms cover a wide range of activities, from viral release and GPCR-related signaling to protein turnover, apoptosis, immune regulation, and even retina development. There isn\u2019t a single coherent function or pathway that unites these GO terms, so a specific, representative label cannot be confidently assigned.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":1},{"id":"GO:0070374","count":1},{"id":"GO:0060189","count":1},{"id":"GO:0043161","count":1},{"id":"GO:0032691","count":1}]},{"hash":"1367013540475134633","title":"Ciliary and Flagellar Assembly and Motility","description":"The top GO terms are strongly centered on cilium assembly and flagellated sperm motility, suggesting a core theme around the formation and movement of cilia/flagella. Other terms (glucose response, pancreatic cell development, various transport processes) appear less cohesive with this main signal, so the cluster is best described by ciliary/flagellar functions, with some annotation noise from peripheral processes.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060271","count":2},{"id":"GO:0009749","count":1},{"id":"GO:0044342","count":1},{"id":"GO:0003323","count":1},{"id":"GO:1905419","count":1}]},{"hash":"1359774805551558501","title":"Retroviral Integration and Proviral Latency","description":"The cluster centers on DNA recombination, DNA integration, RNA-templated DNA synthesis, and DNA replication, all core to retroviral genome integration and proviral latency; additional terms about viral entry into the host nucleus and proviral latency reinforce a retrovirus lifecycle theme.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0015074","count":3},{"id":"GO:0006278","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0075713","count":3}]},{"hash":"1133369745487302462","title":"Proteoglycan sulfation and GAG biosynthesis","description":"The cluster is best captured by glycosaminoglycan (keratan, heparin, chondroitin) proteoglycan biosynthesis and related sulfation processes (peptidyl-tyrosine and protein sulfation). These themes point to extracellular matrix assembly and post-translational modification, with embryonic neurocranial development as a related biological context. Some outlier terms related to xenobiotic metabolism appear, but the core signal centers on sulfation and proteoglycan biosynthesis.","confidence":"Medium","size":9,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006805","count":3},{"id":"GO:0030210","count":3},{"id":"GO:0048702","count":3},{"id":"GO:0006584","count":3},{"id":"GO:0018146","count":3}]},{"hash":"1441473672050582690","title":"Cell cycle and telomere regulation","description":"This cluster is dominated by GO terms about DNA-templated transcription, DNA replication, and cell cycle processes (cell division), with multiple entries on telomere maintenance and telomere capping. The recurring themes point to regulation of genome duplication and chromosomal end protection during cell proliferation, including modulation of cyclin-dependent kinase activity. While a couple terms (fat cell differentiation, cell migration) are less directly related, the core signal consistently aligns with cell cycle control and telomere maintenance. Overall, the proteins likely function together to coordinate replication and chromosome stability during proliferation.","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:0045736","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0045444","count":3},{"id":"GO:0007049","count":3}]},{"hash":"1549367412884149228","title":"Vertebrate organogenesis signaling","description":"The terms cluster around developmental processes and signaling pathways involved in organ formation and neurodevelopment across multiple tissues. Key terms include kidney development, heart development, axial mesoderm formation, neurogenesis, dendritic spine morphogenesis, and signaling pathways (Sonic hedgehog via Smoothened, Roundabout). This convergence suggests a theme of vertebrate organogenesis coordinated by signaling networks.","confidence":"High","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0001822","count":8},{"id":"GO:0007224","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0035385","count":8},{"id":"GO:0050852","count":8}]},{"hash":"1129892415722150381","title":"Actin Cytoskeleton Assembly and Remodeling","description":"This cluster is dominated by GO terms about actin filament assembly (Arp2/3 nucleation, cortical patch assembly, filament bundle assembly, skeletal muscle thin filament assembly) and related processes such as phagocytosis and calcium response, all driven by actin cytoskeleton dynamics and remodeling; mitochondrial inheritance can involve actin-based transport, supporting a unifying theme. The presence of an outlier behavior term is likely incidental.","confidence":"High","size":9,"edges":29,"triangles":56,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":8},{"id":"GO:1904623","count":8},{"id":"GO:0000147","count":8},{"id":"GO:0051017","count":8},{"id":"GO:0002121","count":8}]},{"hash":"24238204170574933","title":"RNA and protein methylation processes","description":"Top terms point to methylation-related processes: RNA guanine-N7 methylation, tRNA wobble uridine modification, and arginine methylation, suggesting a shared methylation-centric function. Other immune/chemical stress and metal-response terms seem ancillary noise rather than core drivers. Thus, the cluster is best described as RNA and protein methylation.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070555","count":3},{"id":"GO:1901052","count":3},{"id":"GO:0002098","count":3},{"id":"GO:0035902","count":3},{"id":"GO:0036068","count":3}]},{"hash":"794874566839976299","title":"Ciliogenesis and Transition Zone Assembly","description":"The proteins show strong representation of ciliary-related processes: cilium assembly, basal body docking to the plasma membrane, transition zone assembly, and localization to the ciliary transition zone, plus sperm axoneme assembly and segment polarity determination. These collectively indicate a primary role in ciliogenesis and TZ organization, with some outlier terms like Wnt regulation and differentiation that may be incidental to a subset of proteins.","confidence":"High","size":9,"edges":24,"triangles":32,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0090090","count":1},{"id":"GO:0097711","count":1},{"id":"GO:0045444","count":1},{"id":"GO:0055007","count":1},{"id":"GO:0060271","count":1}]},{"hash":"574791876772115918","title":"Germline RNA silencing and oogenesis","description":"Most terms cluster around RNA-based regulation in the germline: transposable element silencing, regulatory ncRNA-mediated gene silencing, and germarium-derived oocyte fate determination suggest a shared function in germline RNA regulation and oocyte development. A few unrelated terms (e.g., mesoderm formation, protein transport) are present but do not dominate the signal. Overall, the data point to a theme of germline RNA silencing and oogenesis.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0010526","count":2},{"id":"GO:0007294","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0001707","count":1}]},{"hash":"283320478967289684","title":"Diverse Tissue Development","description":"Top GO terms span multiple organ systems and developmental stages (endodermal fate, forebrain radial glial differentiation, tongue and myoblast development, gonad development, lung smooth muscle formation, T cell receptor rearrangement). There is no single shared molecular function; instead, the terms point to broad developmental differentiation across tissues, making this a clearly developmental cluster without a narrow functional theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060807","count":1},{"id":"GO:0021861","count":1},{"id":"GO:0043586","count":1},{"id":"GO:0046533","count":1},{"id":"GO:2000020","count":1}]},{"hash":"555155271589600680","title":"Neuroimmune signaling and sensory perception","description":"This cluster mixes immune-related terms (defense against bacteria, cytolysis, macrophage cytokine production) with neural/sensory terms (glutamatergic synaptic transmission, conditioned taste aversion, light perception, pain regulation) and GPCR-adenylyl cyclase signaling. The common thread appears to be cross-talk between immune signaling and sensory/neural pathways via GPCR and cAMP regulation.","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":7},{"id":"GO:0019076","count":6},{"id":"GO:0051966","count":6},{"id":"GO:0001661","count":6},{"id":"GO:0007196","count":6}]},{"hash":"1188002894383516094","title":"Unknown","description":"The cluster includes both adipogenesis (fat cell differentiation) and cell migration terms, but also mRNA processing and telomere maintenance, plus several obsolete terms, indicating a mixed set of functions with no single coherent theme. ","confidence":"","size":9,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0045736","count":3},{"id":"GO:0006397","count":3},{"id":"GO:0032212","count":3}]},{"hash":"108294204387265553","title":"Diverse Membrane Transporters","description":"The GO terms are all about transporting substances across membranes, including vitamins, xenobiotics, nitrite, sodium ions, arabinose, galactose, phosphate, nitrate assimilation, and neurotransmitter loading into synaptic vesicles. This suggests a cluster of proteins that function as transmembrane transporters with broad substrate ranges, rather than enzymes or receptors. Therefore, the label \"Diverse Membrane Transporters\" captures the shared function.","confidence":"High","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":6},{"id":"GO:0042891","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0098700","count":4},{"id":"GO:0015707","count":4}]},{"hash":"1482658715452728962","title":"Cell-cycle signaling and growth regulation","description":"The top GO terms cluster around cell cycle progression (cell cycle, exit from mitosis), growth signaling (EGF receptor signaling, Ras pathway), translation, and protein regulation (ubiquitination), with some apoptosis terms. This pattern points to coordinated control of cell proliferation and growth, rather than a single narrow function, so this label captures the common theme.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0010458","count":2},{"id":"GO:0007173","count":2},{"id":"GO:0046579","count":2},{"id":"GO:0097284","count":2}]},{"hash":"1627398650688737703","title":"Unknown","description":"Top GO terms span temperature- and thermogenesis-related processes, pain perception, inflammatory regulation, GPCR signaling, ERK cascade, protein phosphorylation, and heart development, with no obvious common function. The diversity suggests no coherent cluster-level theme, so Unknown with None confidence.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0002024","count":8},{"id":"GO:0071502","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0019076","count":7},{"id":"GO:0002882","count":7}]},{"hash":"446912354170788863","title":"Neurotransmitter GPCR Signaling and ERK Regulation","description":"Top GO terms cluster around serotonin and dopamine receptor signaling, ERK1/2 cascade activation, and downstream phosphorylation and hormone secretion, suggesting a cohesive theme of GPCR-mediated signaling controlling neuronal and endocrine responses across tissues (with occasional outlier terms such as viral release). ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0002882","count":2},{"id":"GO:0033861","count":2},{"id":"GO:0007198","count":2},{"id":"GO:0070374","count":2}]},{"hash":"507476515505133808","title":"mRNA processing and translation initiation","description":"This cluster centers on mRNA maturation and export (spliceosome activity, splicing, poly(A) tail regulation, export), stress-related mRNA stability, and translation initiation complexes (preinitiation, eIF4F assembly, IRES-dependent initiation). The co-occurrence of splicing, processing, and translation initiation terms suggests proteins coordinating RNA processing with the initiation of translation, including viral IRES-related initiation.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0035278","count":7},{"id":"GO:0060211","count":7},{"id":"GO:0001731","count":7},{"id":"GO:0034462","count":7}]},{"hash":"112720455381998398","title":"Calcium-Driven Development and Neural Signaling","description":"The cluster shows GO terms spanning development (microgametogenesis, somatic embryogenesis, R7 cell differentiation, heart development) and neural/muscular signaling (neurotransmitter secretion, regulation of heart contraction, phototransduction, long-term memory) with involvement of calcium handling (release of sequestered Ca2+ by the sarcoplasmic reticulum) and hypoxia response. A common thread is calcium-dependent signaling that modulates differentiation and function across tissues, especially neurons and muscle, suggesting this label fits the shared biology.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055046","count":1},{"id":"GO:0010262","count":1},{"id":"GO:0045466","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0007269","count":1}]},{"hash":"1825158523073970652","title":"Wnt signaling with coagulation and immune responses","description":"The top term is the Wnt signaling pathway, suggesting the cluster centers on Wnt-related signaling. Additional terms point to immune/inflammatory responses (acute-phase response, defense against fungus) and coagulation (fibrinolysis, Factor XII activation), along with development and growth (midbrain development, multicellular organism growth) and metabolic sensing (response to glucose). This indicates a coherent theme around Wnt-mediated signaling intertwined with immune, coagulation, and developmental processes, though the varied terms imply broader functional associations. ","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0071333","count":1},{"id":"GO:0051919","count":1},{"id":"GO:0006953","count":1},{"id":"GO:0030901","count":1}]},{"hash":"95276942137323793","title":"Unknown","description":"There are no top GO terms to guide the label, so there is no clear shared function across the 9 proteins. The network topology (6 edges, 0 triangles) also does not reveal a distinct pathway, so a meaningful, specific label cannot be assigned.","confidence":"","size":9,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[]},{"hash":"2107186645612180425","title":"Inflammation and coagulation regulation","description":"This cluster shows acute-phase response, defense against Gram-positive bacteria, NO biosynthesis, and regulation of fibrinolysis and coagulation, plus ECM secretion/remodeling, indicating a coordinated inflammatory and hemostatic program.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045429","count":3},{"id":"GO:0050830","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0003331","count":2},{"id":"GO:0032930","count":2}]},{"hash":"1230329956238584885","title":"Ubiquitin signaling and genome maintenance","description":"The top terms cluster around ubiquitin-related processes (K63- and K6-linked ubiquitination, regulation of polyubiquitination), suggesting a core function in ubiquitin signaling. Supporting terms point to DNA double-strand break processing and chromatin regulation, implying a role in genome maintenance via ubiquitin pathways. A few outlier terms (e.g., prolactin secretion) exist but do not dominate the theme. Overall, the proteins appear connected through ubiquitin-mediated regulation of DNA repair and chromatin state.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070534","count":9},{"id":"GO:0070423","count":9},{"id":"GO:0051569","count":9},{"id":"GO:0061186","count":9},{"id":"GO:1904153","count":9}]},{"hash":"2136866796382974559","title":"Core cellular growth and metabolism","description":"This cluster centers on fundamental cellular processes: DNA replication, ammonia assimilation, glucose response, and transcriptional regulation under nitrogen conditions, along with protein oligomerization. While there are a couple outlier terms related to host interaction, the dominant terms point to basic growth and metabolic regulation rather than a specific pathway. ","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0090295","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0019676","count":2}]},{"hash":"927663155863241803","title":"Eye development and retinal metabolism","description":"This cluster is strongly enriched for retinol and retinal metabolic processes and embryonic eye formation, including embryonic camera-type eye development and olfactory pit development, suggesting a cohesive theme centered on visual system development and retinal metabolism, with a few general embryonic-development terms present as background signals.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":8},{"id":"GO:0042574","count":8},{"id":"GO:0006069","count":7},{"id":"GO:0031076","count":7},{"id":"GO:0001936","count":7}]},{"hash":"1251151640970125230","title":"Developmental signaling and trafficking","description":"This cluster is enriched for developmental processes (spermatid development, nervous system development, forebrain radial glial differentiation, cytogamy, tissue homeostasis) and also for signaling and intracellular transport (ERK1/ERK2 cascade, Golgi vesicle budding, protein localization to the plasma membrane). The combination suggests a theme of how development and differentiation are coordinated with signaling pathways and membrane trafficking, with some cell cycle involvement. ","confidence":"Medium","size":8,"edges":23,"triangles":32,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007286","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0000755","count":7},{"id":"GO:1903078","count":7}]},{"hash":"2233325380984856360","title":"DNA Replication and Mitotic Cell Cycle Control","description":"This cluster is dominated by GO terms for DNA replication, DNA-templated transcription, DNA repair, and the mitotic cell cycle, with additional signals pointing to mitotic spindle regulation and nuclear export, indicating a cohesive role in genome maintenance and cell division. Some other terms (e.g., signaling pathways and development-related processes) may reflect broader or pleiotropic annotations, but the core theme centers on DNA synthesis, transcription, repair, and mitosis.","confidence":"High","size":8,"edges":8,"triangles":5,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0006351","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0006281","count":5},{"id":"GO:0010696","count":4}]},{"hash":"1551509425400229672","title":"Unknown","description":"There is no coherent functional theme tying the listed GO terms together (plant-specific chlorophyll biosynthesis and stamen formation coexist with yeast-related budding, septation, and general cellular processes), and the cluster has no edges or shared functions. Therefore, I cannot assign a specific, representative label beyond Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015995","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0006511","count":1},{"id":"GO:0016180","count":1},{"id":"GO:0048455","count":1}]},{"hash":"1961960828352709309","title":"Unknown","description":"GO terms span mitotic cell cycle, GTPase signaling, translation initiation, transcription factor localization, actin dynamics, glial apoptosis, and antibacterial defense, showing no clear shared function. Therefore, a single representative label cannot be confidently assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0070208","count":1},{"id":"GO:1905705","count":1},{"id":"GO:0001731","count":1}]},{"hash":"686241836868697750","title":"Ubiquitin-mediated TNF signaling regulation","description":"The cluster\u2019s top GO terms strongly point to ubiquitin-related modulation of TNF signaling (K63-linked ubiquitination; ubiquitin-dependent ERAD) with both negative and positive regulation of TNF pathways, plus related signaling regulation (negative regulation of protein kinase activity). A few terms are ancillary (miRNA silencing, vitamin D receptor regulation) but do not override the central theme of ubiquitin-driven inflammatory signaling. This supports labeling the cluster as ubiquitin-mediated TNF signaling regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0033209","count":1},{"id":"GO:0070534","count":1},{"id":"GO:1901253","count":1}]},{"hash":"215203604739727246","title":"B cell receptor signaling and activation","description":"The top terms center on B cell\u2013related signaling (B cell receptor signaling, affinity maturation) and receptor-mediated pathways (ERK cascade, Kit signaling), with additional immune processes like phagocytosis and T cell regulation suggesting broader immune activation. This makes a coherent label of B cell\u2013focused receptor signaling and activation, even though some terms indicate other immune cell pathways. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:0016337","count":2},{"id":"GO:0038109","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0006911","count":2}]},{"hash":"1032310288958437639","title":"ER-Golgi vesicle trafficking and growth signaling","description":"The terms are dominated by vesicle transport between the ER and Golgi (anterograde and retrograde) and related processes, with supporting hints from mRNA transport, TORC1 signaling, and positive regulation of GTPase activity, suggesting a cohesive theme around intracellular trafficking tied to growth-regulatory signaling rather than a single enzyme function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0070262","count":2},{"id":"GO:0006890","count":2}]},{"hash":"829560708279972404","title":"ECM Remodeling and Tissue Morphogenesis","description":"The cluster is enriched for extracellular matrix organization, limb and mammary gland development, and processes involving cell migration and growth signaling (including HGF receptor pathway), plus cross-linking and fibrinolysis terms, all pointing to extracellular matrix remodeling and organ/tissue morphogenesis.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0060173","count":3},{"id":"GO:0019800","count":3},{"id":"GO:0030198","count":3},{"id":"GO:0051281","count":3}]},{"hash":"2186791465643935530","title":"Cardiovascular development and vascular regulation","description":"The top GO terms cluster around heart development, regulation of heart contraction, bradykinin catabolic processes, and vascular-related processes like endothelial proliferation and fibrinolysis, pointing to a cardiovascular and vascular-regulatory theme. Some neural terms appear but are less central to the dominant vascular signals, so naming the cluster for cardiovascular function best captures its core biology.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":3},{"id":"GO:0048708","count":2},{"id":"GO:0001937","count":2},{"id":"GO:0051918","count":2},{"id":"GO:0006468","count":1}]},{"hash":"657435677655510663","title":"Multi-tissue developmental regulation","description":"The cluster shows GO terms spanning development across several tissues (heart, circulatory system, hypothalamus, gonads, retina) plus redox homeostasis and transcriptional regulation, suggesting a general role in developmental regulation over multiple organ systems rather than a single tissue-specific function.","confidence":"Medium","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0008584","count":3},{"id":"GO:0045494","count":2},{"id":"GO:0072358","count":2}]},{"hash":"2198224140248200793","title":"Craniofacial bone and tooth development","description":"The top GO terms point to embryonic craniofacial skeletogenesis and dental formation, including osteoblast development, odontogenesis of dentin-containing tooth, embryonic cranial skeleton morphogenesis, and chondrocyte differentiation. While there are metabolic and stress-related terms present, the prominent signal is craniofacial skeletal and tooth development, suggesting a cohesive developmental theme for this cluster.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009749","count":2},{"id":"GO:0042542","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1101517438712317505","title":"Embryonic organ morphogenesis and transcription regulation","description":"The top GO terms point to development and morphogenesis across several organs (pancreas, digestive tract, atrial septum, ureter), combined with transcriptional regulation and epigenetic control (RNA Pol II regulation, DNA-templated transcription, histone methylation). This suggests a cluster centered on embryonic organ development guided by transcriptional control rather than a single organ-specific function.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":4},{"id":"GO:0010452","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0003289","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1263386648996887955","title":"Spliceosome and RNA Processing","description":"The top GO terms consistently point to spliceosome assembly and RNA processing, including mRNA splicing, snRNP assembly, and rRNA/tRNA maturation, suggesting a core RNA processing cluster. Some chromatin or cell-cycle terms appear ancillary.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0000245","count":7},{"id":"GO:0045292","count":7},{"id":"GO:1990141","count":6},{"id":"GO:0070317","count":6},{"id":"GO:0006369","count":6}]},{"hash":"636644135038411118","title":"Unknown","description":"The terms include immune signaling, apoptosis, plant defense, metabolism, vascular biology, and behavior, with no single shared function or interaction pattern. There are no edges, so a cohesive biological theme cannot be identified; label Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":1},{"id":"GO:0042771","count":1},{"id":"GO:0034051","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0042347","count":1}]},{"hash":"416381734429734300","title":"GPCR Signaling and Hormone Secretion","description":"The top GO terms cluster around GPCR pathways that regulate adenylate cyclase, MAPK/ERK signaling, and protein phosphorylation, along with processes tied to hormone secretion and muscle/tissue activity in heart and gut. Despite one outlier term, the dominant theme is GPCR-mediated signaling and hormone release.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":7},{"id":"GO:0002882","count":7},{"id":"GO:0033861","count":7},{"id":"GO:0007198","count":7},{"id":"GO:0070374","count":7}]},{"hash":"117668572293638287","title":"Cardiac signaling and contraction regulation","description":"The top GO terms cluster around heart development, regulation of cardiac muscle contraction, calcium release, and cAMP signaling (adenylate cyclase activity), with protein phosphorylation and energy metabolism (electron transport chain) supporting excitation\u2013contraction coupling. A couple of terms (visual perception, response to amphetamine) seem less related, but the dominant signal points to cardiac signaling and contraction mechanisms.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0043950","count":3},{"id":"GO:0055117","count":3},{"id":"GO:0022900","count":3}]},{"hash":"1855981345721542593","title":"Complement activation and MAC regulation","description":"The top GO terms overwhelmingly point to activation of the complement system, including both classical and alternative pathways, and positive regulation of membrane attack complex activation, suggesting the core function of this cluster is involvement in innate immunity and MAC-mediated defense. Supporting terms related to coagulation and cell adhesion align with immune\u2013vascular interfaces and inflammation. Overall, the cluster appears centered on complement activation and MAC regulation.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":4,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001970","count":5},{"id":"GO:0001701","count":5},{"id":"GO:0051918","count":5},{"id":"GO:0006957","count":5},{"id":"GO:0006958","count":5}]},{"hash":"96223859460557884","title":"Gi-Coupled GPCR Signaling and ERK Regulation","description":"The top terms indicate GPCR pathways that inhibit adenylate cyclase (serotonin and dopamine receptors) along with activation of the ERK1/2 cascade and protein phosphorylation, which points to GPCR-mediated signaling and MAPK regulation as the core theme. Additional terms like heart development and intestinal smooth muscle contraction suggest tissue-specific consequences of this signaling. A viral release term appears peripheral, not central to the main functional cluster. Overall, the cluster seems best described by Gi-coupled GPCR signaling converging on ERK/MAPK and phosphorylation events.","confidence":"Medium","size":8,"edges":8,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0002882","count":2},{"id":"GO:0033861","count":2},{"id":"GO:0007198","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1158193994437192247","title":"Neuronal Survival and Synaptic Signaling Regulation","description":"The GO terms cluster around neuronal apoptosis regulation (both positive and negative) and regulation of excitatory postsynaptic potentials, pointing to themes of neuronal survival and synaptic modulation. Also present are Wnt signaling regulation and broader cellular processes (cell cycle, transcription, nucleolar localization) that can intersect neural signaling. Overall, the core theme centers on neuronal signaling and survival rather than a single metabolic pathway, justifying this targeted label.","confidence":"Medium","size":8,"edges":8,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":2},{"id":"GO:0043525","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0010796","count":2}]},{"hash":"2233738899192981647","title":"Complement and coagulation proteins","description":"The top GO terms cluster around classical complement activation, membrane attack complex formation, and blood coagulation, suggesting these proteins participate in innate immune defense and coagulation pathways. Other terms like heterophilic cell-cell adhesion and embryo implantation may reflect extracellular interactions or contextual processes, but the core theme is complement-mediated immunity and coagulation. Overall, these proteins appear to form a cohesive group tied to immune and coagulation functions, with some non-core associations.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":2},{"id":"GO:0001970","count":2},{"id":"GO:0051918","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0007566","count":2}]},{"hash":"1410725549973280373","title":"Immune-driven vascular development and ECM remodeling","description":"This cluster shows a mix of immune-related activity (monocyte activation, lymphocyte chemotaxis) with vascular and extracellular matrix processes (endothelial morphogenesis, VEGF signaling, collagen biosynthesis, bone resorption, heart trabecula formation) suggesting a theme of immune interactions guiding vascular development and ECM remodeling rather than a single narrowly defined function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035419","count":1},{"id":"GO:1900121","count":1},{"id":"GO:0042117","count":1},{"id":"GO:1901509","count":1},{"id":"GO:0007229","count":1}]},{"hash":"1224526509610726979","title":"Leukocyte chemotaxis and signaling","description":"The terms show a clear emphasis on immune cell movement and signaling (dendritic cell and monocyte chemotaxis, purinergic receptor signaling, bleb assembly) with links to vascular processes (endothelial apoptosis, coagulation). While a few terms (iodide transport, bone mineralization) are less related, the dominant theme is leukocyte migration and inflammatory signaling.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061591","count":1},{"id":"GO:0002407","count":1},{"id":"GO:0035590","count":1},{"id":"GO:2000353","count":1},{"id":"GO:0032060","count":1}]},{"hash":"2065102547611297691","title":"Developmental morphogenesis and cell migration","description":"The top GO terms point to tissue morphogenesis across multiple organs (pericardium, aortic valve, ossification) and processes involving cell movement (tangential neuronal migration, endothelial/angiogenic migration, myoblast differentiation). Epithelial polarity also ties into organized tissue development. While some terms are broad (learning, mechanical response), the core signal is developmentally linked morphogenesis and migration, justifying a cohesive label for this cluster.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0022028","count":2},{"id":"GO:0045197","count":2},{"id":"GO:0033138","count":2}]},{"hash":"884313512729250149","title":"Chromatin regulation and transcriptional control","description":"The top GO terms cluster around transcription and chromatin dynamics (SAGA complex localization to regulatory regions, DNA-templated transcription, histone deubiquitination, and mRNA export). Proteasome assembly and DNA repair also tie into genome maintenance and protein turnover that modulate expression; a few terms reflect broader growth programs beyond direct transcriptional control.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000724","count":1},{"id":"GO:0040025","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0072742","count":1},{"id":"GO:0006351","count":1}]},{"hash":"1644388971172290360","title":"GTPase-Regulated Signaling and Vesicle Trafficking","description":"Most terms center on small GTPases (Rho, Ras) and regulation of GTPase activity, indicating a core theme of GTPase-mediated signaling. The presence of vesicle-related processes (synaptic vesicle priming, acrosome reaction) suggests vesicle trafficking and exocytosis coordinated by GTPase activity, with supporting notes on dendrite extension and mitochondrial fission reflecting cytoskeletal dynamics governed by GTPases. This provides a cohesive, specific interpretation of the cluster\u2019s function.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":2},{"id":"GO:0007340","count":2},{"id":"GO:1903861","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0016082","count":2}]},{"hash":"842724867947399802","title":"RTK Growth Factor Signaling and Immune Modulation","description":"The top GO terms cluster around receptor tyrosine kinase signaling pathways (FGFR, KIT, insulin receptor, VEGF/PDGFR axis) and downstream events like STAT phosphorylation and cytokine production, plus immune-related responses (mast cell cytokines, neutrophil clearance). A cell-cycle term (mitotic spindle organization) appears but the dominant signal is growth factor receptor signaling with immune modulation, justifying a focused name on RTK signaling and immune regulation.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007052","count":3},{"id":"GO:0035607","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0038109","count":3},{"id":"GO:0038091","count":3}]},{"hash":"1236660993347067532","title":"Organ morphogenesis and muscle development","description":"The GO terms point to tissue and organ development across multiple tissues (heart/atrial formation and circadian heart rate, skeletal muscle development, nephron/renal tubule morphogenesis, lung differentiation, Malpighian tubule and seminal vesicle morphogenesis) with supporting cell-adhesion roles, suggesting a broad theme of organogenesis and tissue differentiation rather than a single pathway. ","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:2000764","count":8},{"id":"GO:0003210","count":8},{"id":"GO:0072282","count":8},{"id":"GO:0048743","count":8},{"id":"GO:0003053","count":8}]},{"hash":"2120590051487250175","title":"RNA processing and nucleic acid repair","description":"The cluster shows strong signals for mRNA processing, tRNA modification (including wobble uridine), and RNA/DNA repair, plus links to translational regulation by tRNA modification. DNA repair and mitochondrial/permeability\u2013related death terms are present but appear as secondary facets, overall pointing to a cohesive theme of RNA processing and genome maintenance. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0035553","count":2},{"id":"GO:1990983","count":2},{"id":"GO:0012501","count":2},{"id":"GO:0042245","count":2}]},{"hash":"56169874247518970","title":"Neural development and innate immune signaling","description":"Proteins in this cluster show both neural development signals (synapse assembly, axon guidance via semaphorin-plexin, auditory/olfactory development) and immune-related activity (innate immune response, complement activation, immunoglobulin production, Fc-gamma receptor signaling), suggesting a neuro-immune signaling theme rather than a single isolated pathway.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0048671","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0006958","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0002377","count":1}]},{"hash":"29096748376917232","title":"Neuroimmune Stress and Metabolic Regulation","description":"The cluster contains immune defense terms (defense response to bacterium, response to lipopolysaccharide, xenobiotic response) alongside neural/metabolic signals (regulation of membrane potential, serotonin secretion, fear behavior, insulin secretion regulation, triglyceride catabolism, and cell proliferation). This mix suggests a theme where immune and stress signals influence neural activity and metabolic pathways.","confidence":"Medium","size":8,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0042742","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0008283","count":3}]},{"hash":"2266232396601317435","title":"Endosomal and Intracellular Protein Transport","description":"The top GO terms show a clear emphasis on intracellular trafficking, especially late endosome to Golgi transport and general intracellular protein transport, suggesting a core function in moving proteins within the cell. Additional terms point to actin-based structures (podosome assembly) and immune/developmental signaling (innate immune response, NK T cell differentiation), which may reflect context-specific roles where trafficking intersects with signaling. Some terms (mitotic cell cycle, heart development) appear more peripheral, consistent with a cluster centered on transport with ancillary roles in other processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034499","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0045792","count":2},{"id":"GO:0071364","count":2},{"id":"GO:0000278","count":2}]},{"hash":"132721799765731419","title":"General Cellular Stress Response and Apoptosis","description":"These proteins show GO terms tied to responses to multiple stressors (peptide hormone stimuli, hydrogen peroxide, xenobiotics) and to apoptosis, alongside core DNA metabolic processes (DNA replication, DNA recombination) and even skin-related development (corneocytes). The mix suggests a broad stress-response and cell-fate/dna metabolism theme rather than a tight, cohesive pathway, which aligns with a general label but reflects uncertain specificity given the lack of network connectivity. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0071375","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0090502","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006260","count":3}]},{"hash":"749677263296708941","title":"Viral genome integration and proviral latency","description":"The top GO terms point to viral replication and genome processing, including RNA-templated DNA synthesis (reverse transcription), DNA replication, integration, and recombination, along with establishment of integrated proviral latency and viral entry into the host nucleus. Although some terms touch on host-symbiont interactions, the dominant pattern is viral genome integration and latency.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0015074","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0075713","count":1}]},{"hash":"413054784776326425","title":"Protein modification and proteostasis under stress","description":"The cluster is dominated by terms related to post-translational modification (sumoylation, deubiquitination) and protein quality control (aggresome assembly, ER targeting), plus stress-responsive processes (cellular response to toxic substances, TNF signaling). These together suggest a theme of regulating protein fate and maintaining proteostasis under stress, rather than a single, cohesive enzymatic pathway. Some terms (like nucleotide-excision repair) are less central to this theme but do appear among the associated proteins.","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":5},{"id":"GO:1900186","count":4},{"id":"GO:0014070","count":4},{"id":"GO:0006289","count":4},{"id":"GO:1903265","count":4}]},{"hash":"2269534268916328326","title":"Microtubule-driven cell fusion and development","description":"The cluster centers on microtubule dynamics and directed transport, with terms like plus-end directed microtubule sliding, plus-end microtubule depolymerization, and vesicle transport along microtubules, plus nuclear migration and karyogamy during cellular fusion. Development-related terms (root development, ureteric bud invasion, cerebellar granular layer organization) suggest a broader developmental context that relies on cytoskeletal remodeling. Stress granule disassembly may be loosely connected via cytoskeletal interactions. Overall, the data imply a cohesive theme of cytoskeletal/microtubule\u2013driven processes in fusion and development.","confidence":"Medium","size":7,"edges":7,"triangles":1,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0035617","count":6},{"id":"GO:0048364","count":4},{"id":"GO:0000742","count":3},{"id":"GO:0021685","count":3},{"id":"GO:0072092","count":3}]},{"hash":"1678315214887433990","title":"Actin cytoskeleton assembly and remodeling","description":"The cluster is dominated by GO terms tied to actin organization and assembly, including actin cortical patch assembly, actin filament bundle assembly, and skeletal muscle thin filament assembly, with phagocytosis and calcium-response terms that reflect actin-driven processes. Although a few terms are obsolete or unrelated (e.g., mitochondrion inheritance, aggressive behavior), the consistent actin-related signals point to actin cytoskeleton assembly as the core function.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042766","count":2},{"id":"GO:0000001","count":1},{"id":"GO:1904623","count":1},{"id":"GO:0000147","count":1},{"id":"GO:0051017","count":1}]},{"hash":"2165125469510055043","title":"RNA processing and translation initiation regulation","description":"The top GO terms cluster around RNA-level control of gene expression\u2014mRNA splicing, formation of the translation preinitiation complex, and regulation of mRNA export\u2014suggesting a shared role in coordinating RNA processing with initiating translation. Other terms reflect broader stress and development contexts, but the RNA-centric processes best unify the set. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0070208","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0061586","count":3},{"id":"GO:0007568","count":3}]},{"hash":"219512345114191846","title":"Protein folding and maturation","description":"The cluster\u2019s top GO terms cluster around protein folding and quality control (chaperone-dependent refolding, unfolded protein response), along with processes involved in protein targeting to membranes (SRP-dependent cotranslational targeting) and maturation (iron-sulfur cluster assembly). Although there are outliers like DNA replication and karyogamy, the prevailing theme ties to proteome maintenance, folding, targeting, and maturation. Confidence in this label is Medium.","confidence":"","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070389","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0000742","count":2},{"id":"GO:0090084","count":2},{"id":"GO:0006880","count":2}]},{"hash":"2065275708683285781","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around brain development, regulation of synaptic vesicle exocytosis, and signaling pathways (ERK cascade and Smoothened Hedgehog signaling), suggesting a core theme of neural development and neuronal signaling. Some terms like kidney development or mast cell chemotaxis appear less central, but do not override the dominant neural/synaptic theme.","confidence":"Medium","size":7,"edges":17,"triangles":19,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:2000300","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0010796","count":4},{"id":"GO:0002551","count":3}]},{"hash":"1251887706519350187","title":"Ubiquitin-Proteasome Regulation in Oocyte Meiosis","description":"This cluster is driven by ubiquitin-dependent protein catabolic processes (SCF ligase activity and polyubiquitination) and proteasomal degradation, plus terms tied to ERAD. Importantly, it also includes oocyte maturation and spindle assembly in female meiosis I, indicating a role for targeted protein turnover in meiotic regulation. Cadmium response and defense terms appear ancillary. Thus the theme is ubiquitin-mediated proteolysis linked to oocyte meiosis.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0071276","count":5},{"id":"GO:0000209","count":5},{"id":"GO:0050830","count":4},{"id":"GO:0030433","count":4}]},{"hash":"2042222358280530252","title":"Developmental signaling and cell cycle regulation","description":"The cluster shows enrichment for development and growth-control terms (multicellular organism development, skin development, positive regulation of cell proliferation, mitotic cell cycle) and signal transduction through kinases and GTPases (protein serine/threonine kinase activity, positive regulation of GTPase activity, autophosphorylation). While some terms (hypoxia response, cone photoresponse recovery) are more specific, the dominant pattern points to proteins involved in coordinating development and cell proliferation via signaling networks.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0043588","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0031954","count":3}]},{"hash":"2157874212191250789","title":"RNA processing and ribosome biogenesis","description":"The top GO terms cluster around RNA metabolism\u2014splicing, RNA silencing, transcription start site regulation\u2014plus translation, ribosome/mRNP assembly, and stress granule localization. This points to a cohesive theme of RNA processing and ribosome biogenesis as the core function of the cluster.","confidence":"Medium","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031047","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0006412","count":2},{"id":"GO:1902775","count":1},{"id":"GO:0006289","count":1}]},{"hash":"1662076219688395348","title":"Hypoxia-Responsive Cell Cycle and Growth Signaling","description":"The cluster combines terms for hypoxia response, mitosis and spindle assembly, cell proliferation, TORC1 signaling, and kinase activity regulation, along with supporting processes like mRNA transport and actin remodeling. This suggests a coherent module where hypoxic stress interfaces with cell-cycle progression and growth signaling (via TORC1 and kinase activity), with cytoskeletal and RNA transport components contributing to mitotic functions.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0031954","count":3}]},{"hash":"1192759514219200536","title":"Male reproductive development and spermatogenesis","description":"The GO terms cluster around male gonad development, male sex determination, and spermatogenic processes such as spermatid nucleus elongation, with supporting roles in embryonic development and transcriptional regulation. This suggests a cohesive theme of male reproductive organ formation and maturation during development.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000020","count":1},{"id":"GO:1900107","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0014807","count":1},{"id":"GO:2000287","count":1}]},{"hash":"2286291489505716731","title":"Transcription regulation and APC/K11-ubiquitination in cell cycle","description":"Top GO terms emphasize regulation of DNA-templated transcription and DNA-templated transcription, together with K11-linked ubiquitination and APC-dependent protein catabolism during cell division. This pattern suggests a cluster focused on cell-cycle control via coordinated transcriptional regulation and ubiquitin-mediated proteolysis. A few developmental or stress-related terms appear as minor signals.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070979","count":2},{"id":"GO:0051301","count":2},{"id":"GO:1903070","count":2}]},{"hash":"947922537196181183","title":"Meiotic recombination and DNA repair","description":"The cluster\u2019s GO terms overwhelmingly point to meiotic processes and homologous recombination, including joint molecule formation, recombinase assembly, gene conversion at a mating-type locus, DNA strand invasion, and double-strand break repair via homologous recombination, suggesting a coherent meiotic recombination module; a single endodermal differentiation term appears ancillary and does not define the cluster\u2019s core function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:0000724","count":1},{"id":"GO:0007533","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0000709","count":1}]},{"hash":"1022949454813388902","title":"Unknown","description":"Top terms are empty and no GO terms link the proteins; with no shared function, an informative label cannot be assigned, so 'Unknown' is used.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"22227306323303258","title":"Rab-mediated vesicle trafficking and junction organization","description":"The top GO terms cluster around Rab signaling, protein transport, endosomal vesicle fusion, and adherens junction organization, suggesting a coherent function in vesicle trafficking and cell-cell junction regulation. Some neural/muscle terms may reflect related signaling contexts, but the dominant signal points to trafficking and junction maintenance.","confidence":"Medium","size":7,"edges":8,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032482","count":6},{"id":"GO:0050771","count":6},{"id":"GO:0015031","count":5},{"id":"GO:2000222","count":4},{"id":"GO:0021861","count":4}]},{"hash":"512652522266774021","title":"TNF signaling, ubiquitination, and necroptosis regulation","description":"The GO terms cluster around TNF-mediated signaling (regulation, both positive and negative), ubiquitination (K63- and K6-linked), and necroptosis regulation, with related links to cellular stress pathways; this suggests proteins in this group collectively regulate inflammatory signaling via ubiquitin-driven processes and cell death pathways.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":1},{"id":"GO:0033209","count":1},{"id":"GO:0070534","count":1},{"id":"GO:1901253","count":1},{"id":"GO:1903265","count":1}]},{"hash":"1338056803217353302","title":"Cardiovascular Signaling, Inflammation, and Coagulation","description":"This cluster centers on signaling pathways rather than a single pathway, with GO terms for ERK cascade, Rho signaling, protein phosphorylation, and GPCR-mediated signaling (serotonin and dopamine receptors). Cardiovascular-related terms like blood coagulation and heart development, plus an inflammatory response term, suggest a theme of cardiovascular signaling intertwined with inflammatory and coagulation processes. Some terms (e.g., viral release) are less central, but overall the common thread is signaling modules relevant to cardio-inflammatory/coagulation contexts.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0035025","count":3},{"id":"GO:0019076","count":2},{"id":"GO:0002882","count":2}]},{"hash":"1793113451649578722","title":"Adaptive immune signaling and hematopoiesis","description":"The proteins are tied to adaptive immune functions, including T cell receptor signaling and regulation of antigen receptor\u2013mediated signaling, B cell proliferation and humoral responses, gamma-delta T cell differentiation, and hematopoietic/bone marrow development. This combination points to a coherent theme of lymphocyte signaling coupled with hematopoietic development.","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":1},{"id":"GO:0050857","count":1},{"id":"GO:0006933","count":1},{"id":"GO:0001915","count":1},{"id":"GO:0048539","count":1}]},{"hash":"2196895294295824157","title":"GPCR-cAMP-MAPK Signaling in Heart and Muscle","description":"The terms cluster around GPCR pathways that modulate adenylate cyclase (serotonin/dopamine signaling), leading to ERK/MAPK activation and protein phosphorylation, with functional links to heart development, smooth muscle contraction, and hormone secretion. The viral release term appears peripheral noise rather than core function.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":3},{"id":"GO:0002882","count":3},{"id":"GO:0033861","count":3},{"id":"GO:0007198","count":3},{"id":"GO:0070374","count":3}]},{"hash":"578664677660809852","title":"Immune and endothelial signaling modulators","description":"The top GO terms point to modulation of various signaling pathways: innate immune signaling (NOD2), IL-2\u2013mediated signaling, NK cell activation, and protein tyrosine kinase activity; along with endothelial barrier establishment and cytoskeletal Rho signaling. Although diverse, the shared pattern is proteins that regulate signaling events in immune and vascular contexts rather than a single linear pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070433","count":3},{"id":"GO:0090557","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0019933","count":2},{"id":"GO:0007266","count":2}]},{"hash":"1843941042657576062","title":"Membrane signaling and microdomain organization","description":"The top GO terms cluster around membrane-associated processes (membrane raft polarization, eisosome assembly, tight junction assembly) and signaling modulation at the cell surface (PKC signaling, B cell receptor signaling, extrinsic apoptotic signaling). This suggests a functional theme of proteins acting at membrane microdomains to regulate signaling and adhesion rather than a single cohesive pathway.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035208","count":1},{"id":"GO:0034115","count":1},{"id":"GO:0007605","count":1},{"id":"GO:0070830","count":1},{"id":"GO:0048169","count":1}]},{"hash":"431072830910945250","title":"Tissue remodeling and morphogenesis","description":"This cluster centers on processes that remodel tissues and drive shape formation, such as epithelial tube branching in lung morphogenesis, basement membrane disassembly, and bone resorption, along with decidualization. Additional terms point to developmental and signaling contexts (neural precursor proliferation, thyroid hormone response, and regulation of catalytic activity), supporting a cohesive theme of remodeling during development and physiological adaptation.","confidence":"Medium","size":7,"edges":10,"triangles":5,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0001913","count":7},{"id":"GO:2000179","count":7},{"id":"GO:0050790","count":7},{"id":"GO:0060441","count":7},{"id":"GO:0046697","count":7}]},{"hash":"1108043415305215506","title":"Blood vessel remodeling and coagulation","description":"The GO terms cluster around vascular remodeling (smooth muscle cell migration, blood vessel remodeling) and coagulation/hemostasis (blood coagulation, plasminogen activation regulation, fibrinolysis), plus vasoconstriction (positive regulation). A couple neural terms may reflect multifunctional proteins or annotation cross-talk, but the predominant theme ties to blood vessel structure changes and coagulation pathways.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014909","count":2},{"id":"GO:0001974","count":2},{"id":"GO:0071205","count":2},{"id":"GO:0048846","count":2},{"id":"GO:0007596","count":2}]},{"hash":"577226392099429857","title":"Transmembrane Transporters","description":"Based on the top GO terms, the cluster is dominated by transmembrane transport activities across membranes, including vitamin, xenobiotic, ion, and organic molecule transport, as well as neurotransmitter loading. This suggests the proteins function broadly as membrane transporters handling diverse substrates.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":6},{"id":"GO:0006855","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0042908","count":6},{"id":"GO:0098700","count":5}]},{"hash":"2182386592040875951","title":"Central carbon metabolism and redox homeostasis","description":"This cluster is dominated by core metabolic processes: glycolysis, the tricarboxylic acid cycle, and 2-oxoglutarate metabolism, with supporting redox balance and glutathione pathways, plus a xenobiotic response. These co-occurring GO terms suggest a cohesive theme of energy production linked to redox maintenance and detoxification, rather than disparate functions.","confidence":"High","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":6},{"id":"GO:0006096","count":5},{"id":"GO:0006103","count":5},{"id":"GO:0042493","count":3},{"id":"GO:0045454","count":3}]},{"hash":"20883599863052974","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":1},{"id":"GO:0000480","count":1},{"id":"GO:0000472","count":1},{"id":"GO:0009102","count":1},{"id":"GO:0002098","count":1}]},{"hash":"1870398700827593925","title":"Neural and Sensory Development Signaling","description":"The terms point to signaling pathways that drive development and morphogenesis in neural and sensory tissues (retina, otolith, nerve maturation) and involve growth factor receptor signaling (FGFR, KIT, VEGF/PDGFR) and calcium/STAT signaling. Although there is some miscellaneous signaling, the common theme is developmental signaling in neural/sensory organ contexts, suggesting a cohesive cluster function.","confidence":"Medium","size":7,"edges":15,"triangles":13,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035584","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0032693","count":2},{"id":"GO:0032474","count":2},{"id":"GO:0035607","count":2}]},{"hash":"1852942774918648972","title":"Unknown","description":"No GO terms or connections were provided (Edges 0, Top Terms empty), so there is no shared functional signal to name this cluster. The mention of \u201c20 proteins re-added by ReCIPE\u201d implies reclassification rather than a conserved function.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1565251081382216379","title":"Viral DNA integration and proviral latency","description":"Rationale: The top GO terms cluster around viral genome integration, RNA-templated DNA synthesis, DNA recombination, and especially the establishment of integrated proviral latency, along with viral penetration into the host nucleus. These together point to a viral life cycle involving genome integration and latency within host cells, with associated host-entry steps, despite some noise from general DNA replication and symbiont-related terms.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":3},{"id":"GO:0090502","count":3},{"id":"GO:0006278","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0075713","count":3}]},{"hash":"1596491899569807941","title":"Unknown","description":"The top GO terms span NK T cell differentiation, heart and spinal cord development, signaling and phosphorylation, insulin signaling, basement membrane morphogenesis, acrosome reaction, and apoptotic mitochondrial changes. The lack of a unifying biological process and zero edges suggest these proteins do not form a coherent functional module, so the cluster cannot be meaningfully named beyond Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0001865","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0043314","count":5},{"id":"GO:0018107","count":5},{"id":"GO:0008286","count":5}]},{"hash":"1928360318183275213","title":"Vesicle trafficking and protein transport","description":"The top GO terms are dominated by intracellular protein transport, vesicle fusion regulation, and general protein transport, with activation of GTPase activity supporting trafficking control. This points to a cluster of proteins involved in moving proteins/vesicles inside the cell and regulating membrane targeting. A few outlier terms (nitrite transport, iridophore differentiation) are less central to this theme but do not override the core trafficking signal.","confidence":"Medium","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:1903861","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0031340","count":2},{"id":"GO:0015707","count":2}]},{"hash":"406776469971299543","title":"Embryonic organogenesis and craniofacial morphogenesis","description":"The proteins are linked to embryonic development across multiple organs (heart, kidney, thyroid, lung) and to craniofacial organogenesis, plus neural processes like neuron migration and retinal axon guidance. This points to a broad developmental program governing organogenesis and craniofacial morphogenesis rather than a single tissue function.","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0060021","count":2},{"id":"GO:0030878","count":2},{"id":"GO:0001764","count":2},{"id":"GO:0048701","count":2}]},{"hash":"245823260027864088","title":"Collagen synthesis and connective tissue development","description":"This cluster centers on collagen biosynthetic processes, collagen-activated signaling, and development of skin and growth plate cartilage (chondrocyte development), pointing to extracellular matrix formation and connective tissue differentiation. Other terms are more general, but the collagen/skin/cartilage theme is dominant, suggesting the cluster reflects ECM production and connective tissue maturation.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1903225","count":1},{"id":"GO:0003431","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0070994","count":1}]},{"hash":"847860002719878795","title":"Zinc Ion Transport and Homeostasis","description":"The cluster is dominated by zinc-related processes: zinc ion import across the plasma membrane (GO:0006831, GO:0006830, GO:0044749), detoxification of zinc ion (GO:0010312), intracellular zinc ion homeostasis (GO:0006882), and cellular response to zinc ion starvation (GO:0034224). These consistently point to a cohesive function in zinc handling and maintaining zinc balance; a couple of outlier terms (e.g., limb development) likely reflect annotation noise rather than core function.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":2},{"id":"GO:0006831","count":2},{"id":"GO:0010312","count":2},{"id":"GO:0044749","count":2},{"id":"GO:0070574","count":2}]},{"hash":"61872849549911481","title":"Developmental Signaling and Hormone Secretion","description":"Based on the GO terms, the cluster seems to cover proteins involved in developmental processes (seminiferous tubule development; heart trabecula formation) and broad signaling pathways (PKC signaling; NF-kappaB regulation; VEGF signaling; cAMP signaling), with additional linkage to growth hormone secretion. The common thread appears to be signaling roles in development and hormonal regulation rather than a single specific process. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0072520","count":1},{"id":"GO:0060347","count":1},{"id":"GO:0060732","count":1},{"id":"GO:0030252","count":1},{"id":"GO:0051867","count":1}]},{"hash":"2076565926369292820","title":"Retroviral entry, replication, and proviral latency","description":"Top GO terms reveal DNA replication, DNA integration, and RNA-templated DNA synthesis, all aligning with retroviral replication and proviral latency. Additional terms for viral entry into the host nucleus and host RNAi suppression reinforce a retrovirus\u2013host interaction theme, despite some miscellaneous terms. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0015074","count":3},{"id":"GO:0006310","count":3},{"id":"GO:0006278","count":3},{"id":"GO:0075713","count":3}]},{"hash":"387052118294270064","title":"Glycan biosynthesis and cell-surface glycoproteins","description":"The proteins in this cluster are dominated by glycosylation-related processes (O-linked hydroxyproline glycosylation, arabinogalactan protein metabolism, poly-N-acetyllactosamine and Lewis A glycan biosynthesis) and secretion-related polysaccharide formation (mucilage, seed coat). Several terms also touch on cell adhesion and polarity in epithelia, root hair development, and related surface structures, pointing to a cohesive theme of glycoconjugate biosynthesis shaping cell surface properties and development.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010493","count":5},{"id":"GO:0010405","count":5},{"id":"GO:0042248","count":5},{"id":"GO:0007299","count":5},{"id":"GO:0018258","count":5}]},{"hash":"1521482333345804584","title":"Embryonic morphogenesis and cell adhesion","description":"These GO terms point to tissue morphogenesis across organs (axial mesoderm, heart, retina) and to cell\u2013cell/ECM adhesion processes (homophilic adhesion, hemidesmosome assembly). While neural development (dendritic spine morphogenesis, potassium channel clustering) and immune signaling (IL-27 pathway, type IV hypersensitivity) appear, the strongest overlap is embryonic morphogenesis and adhesion. Confidence: Medium","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":5},{"id":"GO:0048320","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0045163","count":5},{"id":"GO:0044708","count":5}]},{"hash":"440421257674639936","title":"RNA Processing and Translation Machinery","description":"This cluster centers on RNA metabolism and protein synthesis: terms for spliceosome and snRNP assembly, tRNA processing, maturation of SSU-rRNA, transcription termination, and translation. The convergence on RNA processing and ribosome/translation functions suggests a coherent group of RNA-processing and protein-synthesis components, though a few terms like chromatin formation or hormone response may reflect broader or context-specific roles.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:1990141","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0000245","count":2},{"id":"GO:0006369","count":2}]},{"hash":"265523683597516610","title":"Oxidative stress response and apoptosis","description":"Top GO terms indicate responses to oxidative stress (hydrogen peroxide) and xenobiotics, plus apoptotic processes and aspects of gene regulation, with corneocyte development suggesting a skin-related context. The common thread is cellular stress responses leading to programmed cell death, with some skin biology signals, so the label reflects the core function and plausible context of the cluster.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":2},{"id":"GO:0003335","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0014912","count":2},{"id":"GO:0071375","count":2}]},{"hash":"1432088009327177025","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning development (lymphangiogenesis, mesoderm development, telomere maintenance), transcription/translation regulation, mitosis, and even a drug response, with no clear shared pathway or cohesive function among the proteins. There are no edges, suggesting no tight functional coupling, so a single, representative label is not supported.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001946","count":2},{"id":"GO:0005979","count":1},{"id":"GO:0030847","count":1},{"id":"GO:0036496","count":1},{"id":"GO:1903501","count":1}]},{"hash":"729976542763013841","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0030490","count":2},{"id":"GO:0008033","count":2},{"id":"GO:0006407","count":1}]},{"hash":"247196471762421742","title":"Ribosome maturation and translation","description":"This cluster is dominated by GO terms tied to ribosome biogenesis and protein synthesis, notably maturation of SSU-rRNA and translation, with supporting signals from tRNA modification. A few metabolic terms (lipopolysaccharide and ubiquinone biosynthesis, lipid homeostasis) appear as outliers, but the strongest, repeated themes revolve around ribosome assembly and the translation process. Confidence: Medium","confidence":"","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000462","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0070525","count":2},{"id":"GO:0009244","count":2},{"id":"GO:0010795","count":2}]},{"hash":"2051208165545171354","title":"Actin Cytoskeleton Organization and Filament Assembly","description":"The common thread is actin cytoskeleton remodeling: Arp2/3-mediated nucleation, patch and bundle assembly, skeletal muscle thin filament assembly, and phagocytosis\u2014all requiring dynamic actin rearrangements; calcium signaling and mitochondrial inheritance can modulate these processes, while the aggression term likely reflects noise rather than core function.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":6},{"id":"GO:1904623","count":6},{"id":"GO:0000147","count":6},{"id":"GO:0051017","count":6},{"id":"GO:0002121","count":6}]},{"hash":"2184779806484639689","title":"Nuclear transport and mitotic regulation","description":"This cluster centers on nuclear processes: NLS-bearing protein import into the nucleus, RNA export from the nucleus, chromatin-related regulation and telomere silencing, and mitotic events such as G1/S transition and centrosome separation, plus SMAD signaling. While a couple of terms (e.g., Golgi localization, gluconeogenesis) are less cohesive, the dominant signal ties to nuclear trafficking and cell-cycle control.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0090526","count":2},{"id":"GO:0000042","count":2},{"id":"GO:0035392","count":2}]},{"hash":"546028245657926222","title":"Cell growth and survival signaling","description":"These proteins are linked to multiple growth-regulating and fate-determining pathways (insulin signaling, Hippo, Wnt), plus differentiation and stress responses (keratinocyte differentiation, DNA damage checkpoint, apoptosis, toxic-substance response). The common thread is signaling networks that govern proliferation, differentiation, and cell survival, though the terms span several pathways rather than a single process, so a general growth/survival signaling label fits best.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":2},{"id":"GO:0060044","count":2},{"id":"GO:0035329","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0007095","count":2}]},{"hash":"690791372698423143","title":"Neural development and signaling pathways","description":"The terms strongly point to neural development and signaling: nervous system development, midbrain dopaminergic neuron differentiation, Hedgehog (Smoothened) signaling, Roundabout (ROBO) signaling, and related cytoskeletal changes (pseudopodium assembly). While some terms touch on other organ development (kidney, hair follicle) and immune signaling, the predominant pattern is neural development and its signaling pathways. ","confidence":"Medium","size":6,"edges":7,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0032467","count":4},{"id":"GO:0007224","count":4},{"id":"GO:0031274","count":4},{"id":"GO:0007399","count":4},{"id":"GO:1904948","count":4}]},{"hash":"1386603803836901713","title":"Unknown","description":"The proteins are annotated with GO terms spanning development (meristem regulation, otolith morphogenesis, proepicardium migration, metanephric tubule development) and immune signaling (TLR4 pathway, cellular response to LPS, NLRP3 inflammasome assembly, defense against Gram-positive bacteria), plus metabolic and neurotransmitter signaling (CAMKK-AMPK, dopamine receptor signaling). There is no clear single biological theme connecting all terms, so a single interpretable label is not apparent.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009934","count":1},{"id":"GO:0034142","count":1},{"id":"GO:0060161","count":1},{"id":"GO:0032474","count":1},{"id":"GO:0072237","count":1}]},{"hash":"1131160163534161662","title":"Intracellular trafficking and organelle quality control","description":"GO terms center on ER-to-Golgi vesicle transport, peroxisomal import, cytoskeletal dynamics (microtubule severing, cilium movement), and quality-control processes (aggresome assembly, stress granule disassembly, nonfunctional rRNA decay), plus regulation of oxidative phosphorylation. Together, these suggest a cluster of proteins involved in intracellular transport and organelle homeostasis, especially under stress, rather than a single, narrow function.","confidence":"Medium","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0030420","count":1},{"id":"GO:0051013","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0016562","count":1}]},{"hash":"1584889750145824234","title":"Amino Acid Metabolism Core","description":"This cluster is driven by amino acid metabolic terms (glutamate, threonine, and lysine catabolic/biosynthetic processes) and related metabolic activities, with additional signals for formaldehyde metabolism, retinol metabolism, nitrosative stress response, and a protein quality control term. The common thread is metabolism and cellular stress handling, though the inclusion of obsolete GO terms and a single proteostasis term adds some ambiguity.","confidence":"Medium","size":6,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019518","count":2},{"id":"GO:0019551","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0006537","count":2},{"id":"GO:0006515","count":1}]},{"hash":"1794487935013484524","title":"Unknown","description":"The top GO terms span diverse processes (stress-response mRNA regulation, nitric oxide biosynthesis, cell cycle regulation, virion attachment, respiration, protein folding, actin assembly, and signaling), with no clear shared function tying all six proteins together. This heterogeneity suggests there isn\u2019t a single coherent biological theme for this cluster, and one term is obsolete, limiting interpretability.","confidence":"","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045429","count":2},{"id":"GO:0010610","count":2},{"id":"GO:1901389","count":1},{"id":"GO:0071157","count":1},{"id":"GO:0019062","count":1}]},{"hash":"563122036941075369","title":"Kinase signaling and cytoskeletal regulation","description":"These proteins repeatedly show GO terms tied to phosphorylation control (protein phosphorylation, autophosphorylation, serine/threonine and tyrosine phosphorylation) and to actin dynamics (Arp2/3-mediated nucleation, GTPase activity regulation), suggesting a coherent role in phosphorylation-driven signaling that governs cytoskeletal remodeling and related processes like mitosis and development. Despite no direct interactions observed, the shared emphasis on kinase activity and actin regulation supports a unified functional theme around signaling and the cytoskeleton.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071456","count":3},{"id":"GO:0050731","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0031954","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1828220365991805654","title":"Nucleocytoplasmic Transport and NPC Assembly","description":"Based on the Top Terms, the proteins are enriched for nuclear import functions (ribosomal protein import into nucleus; NLS-bearing protein import into nucleus) and nuclear pore complex assembly, which together define nucleocytoplasmic transport. A secondary signal is intraciliary transport linked to cilium assembly, but the dominant pattern points to a transport machinery focused on moving proteins across the nuclear envelope and assembling NPCs.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006610","count":2},{"id":"GO:0060188","count":2},{"id":"GO:0006607","count":2},{"id":"GO:0035735","count":2},{"id":"GO:0000060","count":2}]},{"hash":"1797946083070115504","title":"GTPase Regulation and Protein Homeostasis","description":"The GO terms point to several core intracellular processes: regulation of GTPase activity (both positive and negative), autophagy/ubiquitin-dependent degradation, ER-to-Golgi vesicle transport, and translation initiation/reinitiation. Together these suggest a cluster centered on maintaining protein homeostasis through GTPase signaling and trafficking, with turnover linked to translation control.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0006914","count":2},{"id":"GO:0034260","count":2},{"id":"GO:0001731","count":2}]},{"hash":"62940402672802270","title":"Ribosome biogenesis and translation initiation","description":"This cluster centers on rRNA maturation and translation initiation, with terms for maturation of 5.8S and LSU rRNA, formation of translation preinitiation complex, and translation reinitiation. There are also cell division and mitotic-cycle terms, suggesting a tie between ribosome biogenesis/translation and cell proliferation. The core theme is ribosome biogenesis and translation initiation, with some cell-cycle context.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0001731","count":2},{"id":"GO:0000466","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0000463","count":2}]},{"hash":"801524061970823864","title":"ER-Golgi vesicle transport","description":"The GO terms cluster around vesicle trafficking in the secretory pathway (ER to Golgi, Golgi to ER, endocytosis, and Golgi-vacuole transport), with additional hints of endomembrane and neuronal transport roles, indicating a cohesive vesicle-traffic module.","confidence":"High","size":6,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0006897","count":3},{"id":"GO:0006623","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0048490","count":2}]},{"hash":"955169425134115913","title":"Carbohydrate Catabolism and Redox Stress Response","description":"The cluster centers on catabolic processes for simple sugars (glucose, galactose, fructose) and related small-molecule oxidation (formaldehyde, ethanol, NADH), with additional metabolic activities (retinol metabolism) and redox/oxidative stress responses (nitrosative stress, drug response). While some terms are miscellaneous or obsolete, the common thread is metabolism of sugars and small molecules coupled with redox and stress-response processes, rather than a single organ-specific function.","confidence":"Medium","size":6,"edges":12,"triangles":9,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0046294","count":3},{"id":"GO:0006069","count":3},{"id":"GO:0042572","count":3},{"id":"GO:0051409","count":3},{"id":"GO:0003016","count":3}]},{"hash":"921797190010830631","title":"Neurotransmitter synthesis and neural signaling","description":"This cluster is enriched for terms related to neurotransmitter metabolism (glutamate and dopamine), regulation of neuronal excitability (membrane potential), and neural development/stress responses (corticosterone response, neural precursor proliferation), suggesting a cohesive theme around neuronal signaling and brain stress responsiveness. Some terms are obsolete, but the remaining GO terms consistently point to neural function rather than general metabolism.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0042391","count":3},{"id":"GO:0051412","count":3},{"id":"GO:0051573","count":3}]},{"hash":"1769486120690296200","title":"Adhesion and signaling in development","description":"The top GO terms cluster around cell adhesion and signaling: focal adhesion assembly and integrin-regulated adhesion, ephrin receptor signaling, and retinal ganglion cell axon guidance, which together point to adhesion-mediated signaling guiding neural development and tissue organization. While there are a few outliers (DNA replication, nicotinamide metabolism, FSH response), the core theme is adhesion-associated signaling in development.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0031290","count":2},{"id":"GO:0034446","count":2},{"id":"GO:0051893","count":2}]},{"hash":"188141107227250284","title":"Cardiac development and conduction signaling","description":"The terms cluster around heart biology: heart development, left ventricular morphogenesis, regulation of heart contraction, and Purkinje myocyte signaling, with supporting themes of ion-channel clustering and neurotransmitter secretion relevant to cardiac excitation-contraction coupling and neurocardiac communication. A few terms (phototransduction, endothelial migration) are less central, but do not outweigh the cardiac-focused pattern. ","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006468","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0090151","count":1},{"id":"GO:0045163","count":1},{"id":"GO:0007269","count":1}]},{"hash":"1937425174929309856","title":"GPCR-Mediated Signaling and Muscle Contraction Regulation","description":"The terms cluster around GPCR signaling (serotonin and dopamine receptor pathways with adenylate cyclase inhibition), downstream phosphorylation and ERK cascade, and physiological outcomes like hormone secretion and intestinal smooth muscle contraction, suggesting a shared theme of signal transduction leading to muscle function and secretion, despite some outliers.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0002882","count":2},{"id":"GO:0033861","count":2},{"id":"GO:0007198","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1048165246679760672","title":"Neuronal vesicle trafficking and synaptic exocytosis","description":"Based on GO terms, most proteins are involved in vesicle trafficking within neurons: ER-Golgi transport, Golgi-to-plasma membrane transport, and retrograde ER-Golgi transport, plus regulation of synaptic vesicle exocytosis and excitatory postsynaptic potentials. Substantia nigra development and neuronal signaling terms reinforce a neural context. The clustering appears to capture the machinery of vesicle transport relevant to synaptic transmission, rather than cell-cycle or xenobiotic responses.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0043001","count":3},{"id":"GO:0090316","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0008283","count":3}]},{"hash":"617421481162527427","title":"Oogenesis Translational Regulation and mRNA Processing","description":"This cluster centers on translational control and RNA processing during oogenesis, with GO terms spanning translation initiation and preinitiation complex formation, oskar mRNA translation regulation, miRNA-mediated silencing of translation, mRNA stability and poly(A) tail regulation, and splice-site recognition. The inclusion of ovarian follicular epithelium axis specification and oskar-associated translation strongly suggests a Drosophila oocyte development context, tying these functions into a cohesive theme of mRNA regulation in egg development.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0008069","count":2},{"id":"GO:0071230","count":2},{"id":"GO:0035278","count":2},{"id":"GO:0060211","count":2}]},{"hash":"2040176148474116523","title":"Membrane Transporters: Sugars and Ions","description":"Most GO terms describe transmembrane transport activities for a range of substrates, especially sugars (xylose, arabinose, fructose, glucose-related) and ions (sodium, nitrite). This points to a cluster of membrane transporter proteins; the vesicular transport term (neurotransmitter loading) also aligns with transport roles within cells, reinforcing the theme.","confidence":"High","size":6,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098700","count":5},{"id":"GO:0070715","count":5},{"id":"GO:0015707","count":5},{"id":"GO:0043252","count":5},{"id":"GO:0042149","count":5}]},{"hash":"1224593243551761588","title":"Synapse formation and axonal fasciculation","description":"The cluster\u2019s top GO terms converge on neural connectivity: positive regulation of synapse assembly, synapse organization, and axonal fasciculation, pointing to roles in synapse formation and axon bundling. Some RNA processing terms are present but do not define the core theme; the neural connectivity signal is strongest.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008033","count":2},{"id":"GO:0006364","count":2},{"id":"GO:0008285","count":2},{"id":"GO:0046777","count":2},{"id":"GO:0035023","count":2}]},{"hash":"1231578147879200327","title":"Chromatin Epigenetic Modifiers","description":"This cluster is best described by epigenetic regulation of chromatin. The top GO terms include negative regulation of rDNA heterochromatin formation and regulation of histone H3-K4 methylation/demethylation, indicating control of chromatin state. Other terms touch on development and cell division, which may reflect multifunctional, chromatin-associated proteins. Overall, the strongest signal is chromatin modification/epigenetic regulation, so this label captures the core function with a Medium level of confidence.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061188","count":3},{"id":"GO:0051225","count":2},{"id":"GO:0048655","count":2},{"id":"GO:0051569","count":2},{"id":"GO:0060669","count":2}]},{"hash":"442934892646557296","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001707","count":5},{"id":"GO:0071374","count":5},{"id":"GO:1901621","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0070843","count":4}]},{"hash":"1223967269405862594","title":"Developmental Signaling Pathways","description":"The cluster\u2019s top GO terms center on receptor-tyrosine kinase signaling (FGFR, insulin receptor, KIT) and developmental processes (orbitofrontal cortex development, bronchus morphogenesis, placenta development), suggesting proteins involved in signaling networks that guide development across tissues. A few cell-cycle and nuclear export terms are present but secondary to the signaling-development theme. Confidence: High","confidence":"","size":6,"edges":9,"triangles":4,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010696","count":3},{"id":"GO:0035607","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0051436","count":3},{"id":"GO:0046827","count":3}]},{"hash":"499687370848575502","title":"CNS neuron morphogenesis and axon guidance","description":"This cluster centers on CNS development and axon guidance\u2014optic nerve morphogenesis, retinal/central nervous system neuron axon guidance, corpus callosum formation, and general neuron morphogenesis\u2014with Hedgehog signaling modulation; a few immune terms appear as less representative outliers.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":5},{"id":"GO:0048671","count":5},{"id":"GO:0022038","count":5},{"id":"GO:0045880","count":5},{"id":"GO:0048755","count":5}]},{"hash":"2068441180056106320","title":"Collagen Biosynthesis and ECM Development","description":"The terms cluster around collagen biosynthesis and ECM-related processes (collagen biosynthetic process, collagen-activated signaling, cell adhesion molecule production) and tissue-development contexts (skin development, growth plate cartilage chondrocyte development), with protein heterotrimerization supporting collagen triple-helix formation. These collectively indicate collagen/ECM production and connective tissue development as the central theme.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903225","count":1},{"id":"GO:0003431","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0071230","count":1},{"id":"GO:0070994","count":1}]},{"hash":"1083102745321746469","title":"Chromatin-regulated transcription and development","description":"The top GO terms cluster around transcription elongation, histone ubiquitination, and chromatin boundary formation, all pointing to regulation of transcription by chromatin state and DNA repair involvement. Some terms also touch on stem cell maintenance and endodermal fate, suggesting developmental contexts where chromatin regulation shapes gene expression. A few terms (vernalization response, xanthophore differentiation) seem less connected, indicating some heterogeneity, but the dominant signal fits chromatin-controlled transcription with developmental implications.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006368","count":2},{"id":"GO:0001711","count":1},{"id":"GO:0035206","count":1},{"id":"GO:0019827","count":1},{"id":"GO:2001173","count":1}]},{"hash":"2173565033600868266","title":"Unknown","description":"The GO terms span bone development, neural and neuromuscular processes, immune responses (interferon signaling and biotic stimulus), synaptic vesicle clustering, insulin-stimulated glucose import, and endosomal trafficking, with no clear single function tying them together. There are no edges to reinforce a shared module, so a cohesive, specific label cannot be determined.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030282","count":1},{"id":"GO:0097091","count":1},{"id":"GO:0046597","count":1},{"id":"GO:0050884","count":1},{"id":"GO:0035455","count":1}]},{"hash":"1698135623581066045","title":"Neuromuscular signaling and synaptic plasticity","description":"The terms cluster around neuronal plasticity (long-term and short-term), integrin signaling, and muscle-related processes (regulation of skeletal muscle contraction, response to muscle stretch) with supporting ionic homeostasis, pointing to coordinated neuromuscular signaling and activity modulation. A couple of development-oriented terms (skin, mesoderm) seem contextual but do not override the primary neuromuscular theme.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060292","count":1},{"id":"GO:0048022","count":1},{"id":"GO:0014819","count":1},{"id":"GO:0007229","count":1},{"id":"GO:0048172","count":1}]},{"hash":"36347723751913820","title":"Fungal nitrogen metabolism and ammonium transport","description":"This cluster's top GO terms center on nitrogen utilization and ammonium transport (including transepithelial and transmembrane transport) and regulatory aspects of nitrogen use, with additional growth-related responses to nutrient limitation (invasive and pseudohyphal growth). Nucleotide catabolic terms appear but are peripheral to the main theme. Overall, the proteins likely function in nitrogen handling and ammonium transport in fungi under nutrient stress. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006193","count":1},{"id":"GO:0051276","count":1},{"id":"GO:0009213","count":1},{"id":"GO:0015670","count":1},{"id":"GO:0070634","count":1}]},{"hash":"939599403446859551","title":"Proteostasis and Protein Complex Assembly","description":"This cluster is dominated by GO terms tied to protein turnover and assembly: bradykinin and insulin catabolic processes point to proteolysis of peptide substrates, while ubiquitin recycling and the negative regulation of proteolysis reflect control of protein degradation. Concurrently, protein oligomerization terms (homotetramerization and heterooligomerization) indicate assembly of protein complexes. A few terms related to metabolism are present but do not override the clear theme of proteostasis and protein complex formation.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":3},{"id":"GO:0051289","count":3},{"id":"GO:0010992","count":3},{"id":"GO:0009060","count":2},{"id":"GO:1901143","count":2}]},{"hash":"1179195979074826493","title":"Neuronal actin remodeling and synaptic adhesion","description":"The cluster\u2019s top GO terms mostly describe actin cytoskeleton dynamics (reorganization, filament assembly) and processes at synapses and cell\u2013matrix contacts (dendritic spine maintenance, integrin signaling, cell adhesion, cortex actin localization). Together, these point to proteins involved in remodeling the actin cytoskeleton to support synaptic structure and adhesion-dependent signaling, with LTD as a related plasticity context. The presence of a few broader localization terms does not override the dominant synaptic actin theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000251","count":2},{"id":"GO:0043652","count":2},{"id":"GO:0097062","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0007155","count":2}]},{"hash":"2288000561880575086","title":"Collagen biosynthesis and connective tissue development","description":"This cluster centers on collagen production and signaling, skin and cartilage development, and extracellular matrix-related processes (collagen biosynthesis, collagen-activated signaling, skin development). These terms point to connective tissue formation and maturation, with supporting terms related to cell adhesion. While there are some general or ancillary terms, the dominant theme is ECM/collagen-related tissue development.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1903225","count":5},{"id":"GO:0003431","count":5},{"id":"GO:0070208","count":5},{"id":"GO:0071230","count":5},{"id":"GO:0070994","count":5}]},{"hash":"1159584817455065574","title":"Translation Initiation Machinery","description":"These proteins show a clear enrichment for GO terms related to translation initiation, including formation of cytoplasmic initiation complexes, preinitiation complex assembly, and both cap-dependent and IRES-dependent translational initiation, as well as regulation of translational initiation. This points to a cohesive theme of actors controlling the start of protein synthesis. While some terms touch on muscle differentiation or developmental processes, the dominant signal is translation initiation, supporting a dedicated initiation machinery label.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075522","count":1},{"id":"GO:0075525","count":1},{"id":"GO:0001732","count":1},{"id":"GO:0001731","count":1},{"id":"GO:1902416","count":1}]},{"hash":"1648293807854514545","title":"Vesicle trafficking and actin remodeling","description":"This cluster is enriched for intracellular transport terms (COPII loading, late endosome-to-Golgi transport, general intracellular transport) together with multiple actin dynamics terms (polymerization, bundle assembly, nucleation, lamellipodium morphogenesis, barbed-end capping). The shared pattern points to a coordinated role of membrane trafficking with actin cytoskeleton remodeling, reflecting processes that drive vesicle movement and cell motility. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090110","count":3},{"id":"GO:0034499","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0045737","count":2},{"id":"GO:0051016","count":2}]},{"hash":"1862432398692685749","title":"Ubiquitination and polyubiquitination regulation","description":"The cluster's top GO terms are dominated by protein ubiquitination, including K63-linked and K6-linked ubiquitination, and by positive/negative regulation of ubiquitination and polyubiquitination, pointing to a cohesive function around ubiquitin-dependent protein modification and signaling. Several other terms appear obsolete or peripheral (chromatin regulation, hormonal secretion), suggesting noise rather than a different core function.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070534","count":6},{"id":"GO:0070423","count":6},{"id":"GO:0051569","count":6},{"id":"GO:0061186","count":6},{"id":"GO:1904153","count":6}]},{"hash":"1982091418757966337","title":"DNA Damage and Oxidative Stress Response","description":"The GO terms point to stress-related processes: oxidative stress (hydrogen peroxide response), DNA recombination, xenobiotic response, and apoptosis, with additional signals for skin-related corneocyte development and post-transcriptional regulation of mRNA. Together they suggest a cluster of proteins involved in maintaining DNA integrity and cell survival under stress, including skin barrier-related development and mRNA stability control under such conditions.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":3,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":4},{"id":"GO:0070301","count":3},{"id":"GO:0003335","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0014912","count":3}]},{"hash":"1873234261655588019","title":"Nucleotide Metabolism and Salvage","description":"The top GO terms are dominated by nucleotide phosphorylation, salvage, and biosynthetic processes (AMP salvage, ADP/CDP biosynthesis, ribonucleotide interconversion), indicating a module of enzymes handling nucleotide metabolism. Although there are liver and brain development terms, these likely reflect broader tissue contexts rather than core function of the cluster. Thus the cluster is best described as a nucleotide metabolism/salvage module.","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046939","count":3},{"id":"GO:0015951","count":3},{"id":"GO:0001889","count":3},{"id":"GO:0046940","count":3},{"id":"GO:0044209","count":3}]},{"hash":"1272755405880919920","title":"Proteostasis and Stress Response Network","description":"The terms cluster around maintaining protein homeostasis and responding to cellular stress, e.g., aggresome assembly, proteasomal protein catabolic process, and stress granule disassembly, plus supporting roles in protein trafficking, peroxisomal import, and cytoskeletal remodeling that enable efficient proteome maintenance and energy regulation under stress.","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006888","count":3},{"id":"GO:0030420","count":3},{"id":"GO:0051013","count":3},{"id":"GO:0018279","count":3},{"id":"GO:0016562","count":3}]},{"hash":"2149900872632075431","title":"Endocytosis and vesicle trafficking regulation","description":"The top GO terms cluster around endocytosis and vesicle trafficking processes, including endocytosis itself and negative regulation of exocytosis and pinocytosis, with supporting signals of cellular stress responses (hydrogen peroxide) and nutrient-related responses. While some terms relate to nucleotide biosynthesis and phosphorylation, the strongest and most cohesive pattern is regulation of vesicle uptake and trafficking, justifying this name.","confidence":"Medium","size":5,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":4},{"id":"GO:0071333","count":3},{"id":"GO:0030819","count":3},{"id":"GO:0006241","count":3},{"id":"GO:0045920","count":3}]},{"hash":"1046536202023768718","title":"Protein quality control and turnover","description":"This cluster's GO terms center on handling and disposing of proteins and RNAs under stress: aggresome assembly; stress granule disassembly; proteasomal protein catabolic process; nonfunctional rRNA decay. Additional terms refer to trafficking and organelle targeting (ER\u2192Golgi vesicle transport; protein import into peroxisome matrix) and cytoskeletal rearrangement (microtubule severing), which support proteostasis and organelle quality control. The combination suggests a cohesive theme of cellular protein quality control and turnover with supporting trafficking and cytoskeletal dynamics.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":1},{"id":"GO:0030420","count":1},{"id":"GO:0051013","count":1},{"id":"GO:0018279","count":1},{"id":"GO:0016562","count":1}]},{"hash":"1658132480931801163","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0001707","count":2},{"id":"GO:0070843","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0031204","count":2}]},{"hash":"1037842481420002634","title":"Plus-end microtubule dynamics and transport","description":"This cluster is best described as plus-end microtubule dynamics and transport because most terms describe activities at microtubule plus ends (plus-end directed transport, depolymerization, sliding) and microtubule-dependent nuclear migration, with a few outliers that are less central.","confidence":"High","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":4},{"id":"GO:0021685","count":4},{"id":"GO:0072092","count":4},{"id":"GO:0032487","count":4},{"id":"GO:0070462","count":4}]},{"hash":"1167558017417366552","title":"Axon Guidance and Cytoskeletal Regulation","description":"The enriched GO terms cluster around axonogenesis regulation (both positive and negative), semaphorin-plexin signaling, Rho GTPase signaling, and actin cytoskeleton dynamics, with additional cues about cellular responses to mechanical stimuli and redox state. These collectively point to neuronal growth cone signaling and cytoskeletal remodeling governing axon guidance, making this an apt and specific label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032889","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0050771","count":2},{"id":"GO:0050772","count":1},{"id":"GO:0032880","count":1}]},{"hash":"582129889172807536","title":"Leukocyte adhesion and transmigration","description":"These proteins are enriched for GO terms related to immune cell adhesion and signaling, including heterotypic cell-cell adhesion, integrin-mediated signaling, cell-matrix adhesion, and cellular extravasation, as well as T cell activation. While a couple terms (chlorophyll biosynthesis, endodermal differentiation) seem unrelated, the dominant theme is leukocyte adhesion and transmigration processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0031104","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0034113","count":1},{"id":"GO:0002291","count":1}]},{"hash":"726829477509777918","title":"Proteostasis and Stress Response","description":"The terms cluster around maintaining protein homeostasis and responding to cellular stress: aggresome assembly, deubiquitination, tail-anchored ER membrane protein insertion, and cellular response to toxic substances, with supporting signals for endocytic regulation and stress-related pathways. While there is a DNA repair term, the dominant theme centers on proteostasis and stress signaling mechanisms.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1900186","count":5},{"id":"GO:0014070","count":5},{"id":"GO:0006289","count":5},{"id":"GO:1903265","count":5},{"id":"GO:0016579","count":5}]},{"hash":"1462620196777441309","title":"Ubiquitination in TNF signaling and necroptosis","description":"The GO terms are dominated by ubiquitination-related processes (protein ubiquitination, ubiquitin-dependent ERAD, K63- and K6-linked ubiquitination) and TNF-mediated signaling with necroptosis, plus cell cycle regulation and a note on antiviral transport. This suggests a cohesive function for this cluster in ubiquitin-mediated control of TNF signaling and cell fate decisions.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0071157","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0070534","count":2}]},{"hash":"1470777984812900271","title":"Kinase signaling and phosphorylation regulation","description":"This cluster is driven by GO terms related to phosphorylation and signaling, including protein phosphorylation, positive regulation of serine/threonine kinase activity, and regulation of GTPase activity, pointing to a set of proteins involved in signaling pathways and post-translational modification. Additional terms about mRNA transport and developmental processes (spinal cord and kidney development) suggest broader regulatory roles and cross-talk with development, but the core shared theme is phosphorylation-based signaling control. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071456","count":2},{"id":"GO:0072205","count":2},{"id":"GO:0051028","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0042994","count":2}]},{"hash":"982525608258452437","title":"Unknown","description":"The GO terms span disparate processes (protein heterotrimerization, translation initiation, transcription factor localization and regulation, actin filament capping, glial apoptosis, bacterial defense, heat-stress\u2013related mRNA export, and hypoxia response) with no clear shared pathway or functional theme. With edges 0 and only five proteins, there isn\u2019t a coherent, representative function that ties the cluster together, so a concise label cannot be confidently assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":2},{"id":"GO:1905705","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0061586","count":2},{"id":"GO:0051016","count":2}]},{"hash":"777511938390859458","title":"Junctional adhesion and signaling","description":"The cluster centers on cell-substrate and hemidesmosome assembly and related signal transduction (Rho regulation, tyrosine kinase activity), with links to innate signaling (TLR4) and tissue remodeling processes (bone resorption, digestive tract development, cardiac differentiation) and platelet aggregation, suggesting a cohesive theme of adhesion-associated signaling across tissues.","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":"wound healing","top_go_terms":[{"id":"GO:0035024","count":3},{"id":"GO:0034142","count":3},{"id":"GO:0007568","count":3},{"id":"GO:0007044","count":3},{"id":"GO:0045124","count":3}]},{"hash":"83456710491243435","title":"Integrin-Mediated Adhesion and Immune Signaling","description":"This cluster centers on integrin-mediated adhesion and signaling, leukocyte migration in inflammatory response, and related cell junctions (hemidesmosomes); it also includes innate immune signaling via TLR4. The core theme is adhesion-driven immune cell trafficking and signaling, with a few peripheral developmental terms.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0002523","count":2},{"id":"GO:0033631","count":2},{"id":"GO:0035024","count":1},{"id":"GO:0034142","count":1}]},{"hash":"1296656535398473114","title":"Mitotic progression and transcription control","description":"This cluster is enriched for cell cycle and mitosis terms: G1/S and G2/M transitions, spindle pole separation, re-entry into the mitotic cycle, and DNA-templated transcription. The co-occurrence suggests coordinated regulation of cell division with transcriptional programs. Some stress and tissue-context terms (ER UPR, mammary proliferation) are present but do not outweigh the core mitotic/transcription theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0010696","count":2},{"id":"GO:2000775","count":2},{"id":"GO:0046626","count":2},{"id":"GO:0006351","count":2}]},{"hash":"11538536596071258","title":"Energy Metabolism and Catabolic Pathways","description":"The cluster is dominated by GO terms for catabolic processes across multiple substrates (N-acetylneuraminate, adenine, amino acids, and cell wall components) and central energy pathways such as glycolysis and gluconeogenesis, indicating a shared focus on breaking down molecules to generate energy. Some terms touch on other cellular or tissue processes (vacuole fusion, cell wall organization, muscle regeneration), but the strongest signal is core metabolism and energy production.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019262","count":2},{"id":"GO:0006146","count":2},{"id":"GO:0009063","count":1},{"id":"GO:0032889","count":1},{"id":"GO:0061621","count":1}]},{"hash":"2189098684125478999","title":"Endocytic trafficking and lysosome localization","description":"This cluster features GO terms for endosome-to-m melanosome transport, receptor internalization, and protein localization to lysosomes, plus signaling and immune/neural development terms, indicating a shared function in endocytic trafficking and lysosomal targeting that shapes receptor signaling. The lysosome localization and endocytic processes provide a coherent theme across cell types, despite some development-related terms.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035646","count":4},{"id":"GO:0031623","count":4},{"id":"GO:0007166","count":4},{"id":"GO:0090528","count":4},{"id":"GO:1901223","count":4}]},{"hash":"355780393412032403","title":"Lens and neural development","description":"This cluster is driven by developmental GO terms, notably lens fiber cell differentiation and neuron projection development, with broader multicellular organism development also present. Together they point to a developmental program focused on ocular and neural differentiation; the additional RNA processing/repair terms seem ancillary. Confidence: Medium","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0070306","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0006397","count":1}]},{"hash":"34884479073298931","title":"Actin-based membrane protrusions and synapse assembly","description":"The terms are dominated by actin-related structures (actin cortical patches, podosome/ruffle assembly) and neuronal synapse/projection processes (synapse assembly, neuron projection morphogenesis, dendritic spine maintenance). While a few terms touch on chromatin or signaling outside this theme, the core signal points to cytoskeleton remodeling underlying synapse formation and neuronal morphology.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044379","count":3},{"id":"GO:0006348","count":3},{"id":"GO:1990314","count":3},{"id":"GO:0048812","count":3},{"id":"GO:1902951","count":3}]},{"hash":"1792527123130407439","title":"Unknown","description":"The top GO terms are highly heterogeneous, covering development (heart development, establishment of the blood-brain barrier, post-embryonic development), protein localization/assembly (protein heterotrimerization, complex localization, targeting to vacuole), cell division (mitotic cleavage furrow ingression), organelle structure (mitochondrial membrane organization), sensory signaling (phototransduction), and even plant hormone signaling (abscisic acid pathway). There isn\u2019t a single coherent biological function linking these terms, so a precise, representative label isn\u2019t discernible.","confidence":"","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":5},{"id":"GO:0006623","count":5},{"id":"GO:0014045","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0034629","count":5}]},{"hash":"1246196301303934622","title":"SA node action potential regulation","description":"The top GO term is regulation of SA node cell action potential, pointing to a cardiac electrophysiology theme. Additional terms include GPCR signaling, vasopressin secretion, and broader multicellular processes, which together suggest signaling pathways that influence heart rhythm and hormonal regulation. Some terms (e.g., CDK activity, lipid catabolism) are peripheral, but the core pattern centers on cardiac signaling and rhythm regulation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098907","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0044707","count":2},{"id":"GO:0045736","count":2},{"id":"GO:0090501","count":2}]},{"hash":"788573141052407150","title":"Ca2+-Triggered Exocytosis and Signaling","description":"The top terms cluster around calcium release into the cytosol, exocytosis, and signaling pathways (ERK cascade, phosphorylation, GPCR-related signaling), suggesting a shared role in calcium-dependent secretory processes and downstream signaling, with a peripheral link to heart development.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0006887","count":2},{"id":"GO:0019076","count":2},{"id":"GO:0002882","count":2}]},{"hash":"124537167700757199","title":"Mitotic Cell Cycle and DNA Replication","description":"The top terms cluster around DNA replication, mitotic cell cycle, and mitotic regulation (e.g., spindle pole separation, ubiquitin ligase activity in mitosis), indicating a core theme of cell division. While there are ancillary terms related to signaling and development, the strongest signal is mitosis/DNA replication.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0010696","count":4},{"id":"GO:0035607","count":4},{"id":"GO:0008286","count":4}]},{"hash":"1145430876158392449","title":"Actin Cytoskeleton Dynamics and Cell Polarity","description":"This cluster centers on actin-driven processes: microspike assembly, actin cortical patch localization, and regulation of Rho signaling, plus establishment/maintenance of cell polarity and associated exocytosis. These terms point to coordinated cytoskeleton remodeling and polarized membrane trafficking, suggesting a role in shaping and signaling at the plasma membrane. Some terms (e.g., uterus development, IL-2 regulation) are less directly related but do not override the dominant actin/polarity theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030035","count":2},{"id":"GO:1900042","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0006887","count":2},{"id":"GO:0010735","count":2}]},{"hash":"1730163494815120500","title":"Cerebellar Layer Organization","description":"The top GO terms point to structural organization of cerebellar layers (granular and Purkinje), suggesting the cluster centers on cerebellar layer architecture. While other terms refer to general cellular processes like RNA processing or transport, the cerebellar-layer terms are the most distinctive feature here, justifying a label focused on cerebellar layer organization.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":1},{"id":"GO:0032487","count":1},{"id":"GO:1903468","count":1},{"id":"GO:0072383","count":1},{"id":"GO:0034244","count":1}]},{"hash":"1408890018908895881","title":"Quinone biosynthesis and redox metabolism","description":"The top GO terms center on quinone biosynthesis (menaquinone and phylloquinone) and redox-related processes (iron-sulfur cluster assembly, response to redox state), with additional catabolic and beta-oxidation pathways feeding into energy metabolism. This suggests a functional cluster focused on redox-balanced metabolism and cofactors like quinones, rather than a single isolated pathway. Some terms like antibiotic biosynthesis are present but not central. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":2},{"id":"GO:0010124","count":2},{"id":"GO:0009234","count":2},{"id":"GO:0006635","count":2},{"id":"GO:0042372","count":2}]},{"hash":"2137467095675709169","title":"Acute-phase and coagulation responses","description":"The top GO terms show clear signals for inflammatory and coagulation pathways (acute-phase response, defense against fungus, fibrinolysis, and Factor XII activation). While some terms are broader or less directly related (DNA-templated transcription, midbrain development), the strongest shared theme among the terms is inflammation and coagulation. This makes \u201cAcute-phase and coagulation responses\u201d a concise, representative label for the cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0071333","count":1},{"id":"GO:0051919","count":1},{"id":"GO:0006953","count":1},{"id":"GO:0030901","count":1}]},{"hash":"482493188432779474","title":"Organ morphogenesis across tissues (heart, muscle)","description":"The top GO terms cluster around development and morphogenesis of multiple organs and tissues, especially heart/atrial formation, skeletal muscle development, and various organ-specific morphogenetic processes (nephron tubule, Malpighian tubule, seminal vesicle), along with adhesion-related processes and circadian heart rate regulation. This suggests a general theme of organ/tissue morphogenesis rather than a single, narrow function, hence a broad label about organ morphogenesis with emphasis on heart and muscle.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000764","count":4},{"id":"GO:0003210","count":4},{"id":"GO:0072282","count":4},{"id":"GO:0048743","count":4},{"id":"GO:0003053","count":4}]},{"hash":"349558138200282998","title":"Unknown","description":"This cluster has no Top Terms and no edges, so there is no identifiable shared function to name. With only five proteins and no connectivity, we cannot infer a common biological role.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1331358105626451740","title":"Unknown","description":"Insufficient information to assign a functional label: no GO terms are provided and the network metrics do not reveal a clear, shared biological role among the five proteins.","confidence":"","size":5,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[]},{"hash":"92180773923803819","title":"Unknown","description":"The GO terms span diverse contexts (gametogenesis, embryogenesis, various differentiation events, immune signaling, and apoptotic regulation) with no clear shared pathway or function among the proteins, so there isn\u2019t a cohesive theme to name the cluster. ","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055046","count":1},{"id":"GO:0010262","count":1},{"id":"GO:0045466","count":1},{"id":"GO:1904781","count":1},{"id":"GO:0035778","count":1}]},{"hash":"1071657130847655588","title":"DNA cytosine-5 methylation","description":"This cluster is dominated by a GO term describing C-5 methylation of cytosine, pointing to DNA methylation at the 5-position of cytosine. Despite the term being obsolete, the annotation suggests a methyltransferase-related function on cytosine within DNA, which provides a coherent high-level theme for the cluster, even though other functional terms are not represented and there are no interaction edges.","confidence":"Low","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090116","count":1}]},{"hash":"300770148419230850","title":"Ribosome Biogenesis and Translation Initiation","description":"The top GO terms cluster around ribosome biogenesis (ribosome assembly and rRNA maturation) and translation initiation/reinitiation, indicating these proteins are linked to the production and initiation of protein synthesis. While there are vesicle transport terms present, the strongest signals center on ribosome assembly and translation control, suggesting a cohesive theme in the protein group. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0002188","count":2}]},{"hash":"659692245708038704","title":"RNA splicing and translation machinery","description":"The cluster is enriched for translation and translational termination, ribosomal large subunit assembly, and multiple RNA processing and splicing terms (spliceosome assembly, RNA splicing), indicating proteins involved in both RNA processing and the translation/gene-expression machinery. This combination points to a cohesive group functioning in RNA processing and protein synthesis rather than a miscellaneous set.","confidence":"High","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006415","count":1},{"id":"GO:0000027","count":1},{"id":"GO:0015968","count":1},{"id":"GO:0006397","count":1}]},{"hash":"741567549998361126","title":"GPCR Signaling and Hormone Secretion","description":"The top GO terms highlight adenylate cyclase-inhibiting serotonin and dopamine receptor signaling (GPCR pathways) along with positive regulation of ERK1/ERK2 cascade and protein phosphorylation, plus positive regulation of hormone secretion and related tissue processes (heart development, smooth muscle contraction). This pattern suggests a cohesive theme around GPCR-mediated signaling driving MAPK activity and hormone release, with one outlier term about viral release from host cell not changing the overall interpretation.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":4},{"id":"GO:0002882","count":4},{"id":"GO:0033861","count":4},{"id":"GO:0007198","count":4},{"id":"GO:0070374","count":4}]},{"hash":"856448109207998452","title":"Cardiac and intestinal GPCR signaling with ERK regulation","description":"The top GO terms point to regulation of the ERK1/ERK2 cascade, heart development, and GPCR signaling (serotonin and dopamine receptors), along with protein phosphorylation, hormone secretion, and intestinal smooth muscle contraction. Together these suggest a cluster of proteins involved in signaling pathways that coordinate heart development and gut muscle function, mainly through GPCR- and ERK-mediated signaling affecting contraction and secretion. Some terms appear tangential or outdated (viral release, obsolete oxidase regulation) but do not override the core cardio-gastro signaling theme.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0019076","count":3},{"id":"GO:0002882","count":3},{"id":"GO:0033861","count":3}]},{"hash":"1860470708351652930","title":"Protein ubiquitination regulation","description":"These proteins show strong enrichment for ubiquitination-related terms (K63-linked, K6-linked, and polyubiquitination), indicating a core function in ubiquitin-mediated protein modification and signaling, with potential links to DNA repair and protein trafficking.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0070534","count":5},{"id":"GO:0070423","count":5},{"id":"GO:0051569","count":5},{"id":"GO:0061186","count":5},{"id":"GO:1904153","count":5}]},{"hash":"2127457815772648851","title":"Unknown","description":"The GO terms span mitochondrial RNA processing, multiple biosynthetic and regulatory processes (carotene biosynthesis, IPP/MEP pathway regulation, miRNA catabolism), various transport activities (nitrite, organic cation/anion transport), and neural or behavioral themes (neurotransmitter loading, thigmotaxis) as well as stress responses. There is no clear, shared biological function or pathway connecting these terms, and with no edges among the proteins, a cohesive cluster label cannot be inferred.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097222","count":2},{"id":"GO:0001966","count":2},{"id":"GO:2000627","count":2},{"id":"GO:0016120","count":2},{"id":"GO:0010323","count":2}]},{"hash":"1467076540693261760","title":"Neural Development and Axon Guidance","description":"GO terms point to neural development, axon extension, and signaling pathways (ERK/JNK, Wnt, ephrin), with nervous system and hippocampus development as central themes. A couple of terms (mast cell degranulation, beta selection) are less aligned, but the core is neural development and axon guidance.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0043304","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0031532","count":3}]},{"hash":"362790278530108200","title":"Unknown","description":"No GO terms are listed for the five proteins, so there is no detectable shared function or process to name this cluster. With no functional signal, the appropriate label is Unknown.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[]},{"hash":"666859399753974336","title":"Plant Chromatin Remodeling and Growth Regulation","description":"Top terms point to chromatin remodeling and epigenetic regulation, together with plant developmental signals (gibberellin response, vegetative growth, trichome patterning). The presence of chromatin-state processes and growth-related GO terms suggests a cluster centered on how chromatin regulation governs plant development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":1},{"id":"GO:1901430","count":1},{"id":"GO:0072362","count":1},{"id":"GO:1900033","count":1},{"id":"GO:1905615","count":1}]},{"hash":"277739159002868345","title":"Ubiquitin-Mediated Protein Degradation and TNF Signaling","description":"This cluster is centered on ubiquitin-related regulation of protein fate and immune signaling, with multiple GO terms pointing to ubiquitination types and TNF-mediated signaling. The presence of TORC1 signaling regulation and viral material transport regulation further reflects ubiquitin-driven control of cellular signaling and antiviral responses.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0000209","count":2},{"id":"GO:0033209","count":2},{"id":"GO:0070534","count":2},{"id":"GO:1901253","count":2}]},{"hash":"440766937257212754","title":"Neural sensory perception and temperature signaling","description":"This cluster shows a concentration of GO terms related to sensory perception (touch and pain) and responses to temperature stimulation, plus related neural signaling and maturation terms. Although there are some cardiac electrophysiology terms present, the dominant theme appears to be sensory processing and temperature-driven neural signaling, making this label representative of the cluster\u2019s function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050976","count":3},{"id":"GO:0098914","count":3},{"id":"GO:0002024","count":3},{"id":"GO:0071502","count":3},{"id":"GO:0019233","count":3}]},{"hash":"2168984337556200725","title":"Ubiquitin-mediated apoptosis and cell cycle regulation","description":"This cluster centers on ubiquitination-related processes (protein ubiquitination and ubiquitin-dependent protein catabolic process) coupled with negative regulation of apoptosis and regulation of the cell cycle, pointing to a module that controls cell fate through ubiquitin-mediated protein turnover. Additionally, TNF signaling and necroptosis regulation terms appear, suggesting involvement in inflammatory cell-death pathways alongside transcriptional regulation hints. Overall, a coherent theme of ubiquitin-dependent regulation of cell survival and division.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0000209","count":3}]},{"hash":"1677009837162466668","title":"Hippo-WNT Development Signaling","description":"The cluster is dominated by developmental signaling terms (Hippo signaling and Wnt pathway) with heart development and keratinocyte differentiation, plus related regulation of transcription, GTPase activity, and ubiquitination, pointing to a cohesive theme of developmental signaling coordinating cell fate and growth.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035329","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0030216","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006915","count":2}]},{"hash":"354475558390678300","title":"Cardiovascular and bone development","description":"The terms cluster around heart and vascular development (Notch signaling in heart field, cardiac right atrium morphogenesis, venous endothelial differentiation) and bone formation (ossification in bone maturation, vitamin D response), with supporting terms on general development and mechanical signaling. This suggests a cohesive program of cardiovascular and skeletal morphogenesis rather than a single molecular function. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0060843","count":2},{"id":"GO:0003270","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1254471787565611628","title":"Developmental Regulation and Differentiation","description":"Based on the top GO terms, the proteins are linked to developmental processes such as brain development, male gonad and spermatid development, and multicellular growth. Coupled with terms on transcription initiation and chromatin remodeling, the cluster likely contains factors involved in controlling gene expression during development and tissue differentiation. The mix of developmental processes with transcriptional regulation suggests a cohesive role in developmental gene expression programs.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0034184","count":1}]},{"hash":"1327984825557867257","title":"Neural differentiation and heart morphogenesis with cytoskeletal remodeling","description":"The top GO terms cluster around neuronal development (synapse maturation regulation, neuron differentiation) and heart development (cardiac atrium morphogenesis, adrenergic signaling in heart), with supporting terms for cytoskeletal dynamics (filopodium assembly, Rho signaling) and cell division (mitotic spindle assembly). This suggests a focused theme on neural and cardiac tissue development linked by cytoskeletal remodeling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000297","count":3},{"id":"GO:1900169","count":3},{"id":"GO:0086023","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0045666","count":3}]},{"hash":"1825516756749055035","title":"Flavonoid biosynthesis and glycoside formation","description":"The top GO terms cluster around biosynthesis of flavonoids and their glycosylated forms (anthocyanin-containing compounds, quercetin, kaempferol, cyanidin 3-O-glucoside, kaempferol/ quercetin O-glucosides), indicating a coherent theme of plant secondary metabolite production and flavonoid diversification. Some terms like antibiotic metabolism or estrogen-related processes are outliers or represent broader xenobiotic associations, but the strongest signal is flavonoid biosynthesis and glycosylation. This cluster appears annotation-driven rather than reflecting physical interactions, hence a focused flavonoid-related label. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0006711","count":3},{"id":"GO:0009718","count":3},{"id":"GO:0033485","count":3},{"id":"GO:0071412","count":3}]},{"hash":"1564249717477325587","title":"Unknown","description":"The terms span diverse processes (cell cycle regulation, apoptosis, inflammatory/defense responses, development, and endocytosis) with no dominant shared function, so a coherent, specific label can\u2019t be established.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":1},{"id":"GO:0048147","count":1},{"id":"GO:0002526","count":1},{"id":"GO:0071502","count":1},{"id":"GO:0042771","count":1}]},{"hash":"1870529530328994833","title":"Embryonic Development and Organogenesis","description":"The GO terms cluster around developmental processes across embryogenesis, including endocrine and placental/trophoblast differentiation, heart-related EMT in endocardial cushion formation, pancreatic cell development, cartilage morphogenesis, and left-right patterning. While mRNA splicing is a general cellular process, it often accompanies developmental gene regulation, supporting a coherent theme of embryonic tissue formation and differentiation.","confidence":"Medium","size":5,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035270","count":1},{"id":"GO:0060806","count":1},{"id":"GO:0060707","count":1},{"id":"GO:0003198","count":1},{"id":"GO:0003323","count":1}]},{"hash":"806062335885434725","title":"Heterochromatin regulation and transcription control","description":"Dominant theme is chromatin state control: heterochromatin formation, histone modifications, and linked transcription regulation (elongation and antisense transcription). Erythrocyte development is a minor association.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0031452","count":1},{"id":"GO:0006978","count":1},{"id":"GO:0006354","count":1},{"id":"GO:0036124","count":1},{"id":"GO:0000183","count":1}]},{"hash":"1324991258318036570","title":"Serotonin/Dopamine GPCR Signaling with ERK Activation","description":"The terms cluster around GPCR signaling driven by serotonin and dopamine receptors, including inhibition of adenylate cyclase, ERK1/2 cascade activation, and protein phosphorylation, with downstream effects on hormone secretion and muscle/heart-related processes. A stray term about viral release is present, but the core theme is GPCR-mediated signal transduction and ERK signaling governing cellular responses.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":3},{"id":"GO:0002882","count":3},{"id":"GO:0033861","count":3},{"id":"GO:0007198","count":3},{"id":"GO:0070374","count":3}]},{"hash":"1162235375769774569","title":"Embryonic neural and heart morphogenesis","description":"GO terms point to embryonic development across neural tissues (forebrain patterning, hypothalamus differentiation, cerebellar precursor signaling, olfactory placode) and heart morphogenesis (heart development, AV node fate). This suggests a group of proteins involved in early organogenesis, particularly neural and cardiac lineages.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0021937","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0060929","count":1},{"id":"GO:0021979","count":1},{"id":"GO:0030910","count":1}]},{"hash":"214758633663747330","title":"Cellular Stress Response and Ubiquitination","description":"This cluster's GO terms predominantly point to cellular stress responses (cadmium ion, hydrogen peroxide, interferon-alpha, defense against viruses) and a specific ubiquitin pathway (K11-linked ubiquitination), suggesting a cohesive theme of stress signaling coupled to regulated protein turnover. Some terms related to photoreceptor organization and centrosome-associated microtubules may reflect broader structural changes under stress or annotation noise, but the core signal centers on stress response and ubiquitin-mediated regulation.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071276","count":2},{"id":"GO:1902325","count":1},{"id":"GO:0070301","count":1},{"id":"GO:0035845","count":1},{"id":"GO:0035955","count":1}]},{"hash":"644407446648699182","title":"Broad-substrate Membrane Transport","description":"This cluster shows GO terms centered on transmembrane transport across diverse substrates (xenobiotics, sugars like arabinose/galactose, fucose, 4-hydroxyphenylacetate, nitrite/nitrate, potassium ions), with one vesicle-related transport term. The variety indicates a general membrane transporter activity rather than a single substrate-specific function, so a broad membrane transport label fits best.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":2},{"id":"GO:1900754","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0071805","count":1},{"id":"GO:0015751","count":1}]},{"hash":"1073093050379966796","title":"Skin cell stress response and apoptosis","description":"The top GO terms cluster around oxidative stress (cellular response to hydrogen peroxide), corneocyte development (skin differentiation), and apoptotic processes, with additional signals for xenobiotic response and peptide hormone stimulus, suggesting a group of proteins involved in skin cell stress responses and regulated cell fate. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0003335","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0014912","count":3},{"id":"GO:0071375","count":3}]},{"hash":"969068536570878845","title":"Unknown","description":"Top terms are spread across DNA integration, stress responses, skin development (corneocytes), xenobiotic response, and gene regulation, with no obvious unifying function. The absence of edges and presence of obsolete GO terms further undermine a cohesive theme, so a specific label cannot be reliably assigned. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0003335","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0014912","count":2}]},{"hash":"379822400919181209","title":"Plus-end Microtubule Dynamics and Nuclear Migration","description":"The cluster centers on plus-end microtubule activities (depolymerization, sliding, and vesicle transport) and nuclear movement/conjugation terms (karyogamy and nuclear migration), suggesting a cohesive role in microtubule-assisted nuclear positioning during cell fusion. Some unrelated terms appear, but the dominant signal is plus-end\u2013directed microtubule regulation and transport.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000742","count":3},{"id":"GO:0021685","count":3},{"id":"GO:0072092","count":3},{"id":"GO:0032487","count":3},{"id":"GO:0070462","count":3}]},{"hash":"252317619157230216","title":"Retroviral genome integration and latency","description":"The GO terms point to retroviral-like processes: DNA recombination and DNA integration, RNA-templated DNA biosynthesis (reverse transcription), establishment of integrated proviral latency, and viral entry into the host nucleus, which together describe retroviral genome integration and maintenance as provirus within host cells. Some host-symbiont interaction terms appear, but the core signal is retroviral replication and latency.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0015074","count":2},{"id":"GO:0090502","count":2},{"id":"GO:0006278","count":2},{"id":"GO:0075713","count":2}]},{"hash":"239758320481773354","title":"Retroviral integration and latency","description":"The top GO terms point to steps in the retroviral life cycle: RNA-templated DNA synthesis (reverse transcription), DNA integration and recombination, DNA replication, and establishment of integrated proviral latency, along with viral entry into the host nucleus. While a couple of terms refer to generic host-symbiont interactions, the dominant pattern is proviral integration and latency, characteristic of retroviruses.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0075713","count":1}]},{"hash":"41973394770331872","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050775","count":2},{"id":"GO:0015937","count":1},{"id":"GO:1990966","count":1},{"id":"GO:0009611","count":1},{"id":"GO:0046444","count":1}]},{"hash":"1720352123751442181","title":"Neuronal development and synaptic signaling","description":"This cluster centers on brain development and synaptic function, with terms like hippocampus development, axon extension, excitatory postsynaptic potential, dopamine response, ephrin signaling, and JNK pathway, indicating roles in neuronal growth and communication. The presence of cell-cycle and DNA replication terms suggests some connectivity to general cellular proliferation or shared domains, but the dominant theme is neuronal development and synaptic signaling.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0045773","count":2},{"id":"GO:0043366","count":2},{"id":"GO:0000278","count":2},{"id":"GO:1903351","count":2}]},{"hash":"1545322602591439555","title":"Arabinogalactan Protein Glycosylation","description":"The GO terms show a clear focus on arabinogalactan protein metabolic processes and related glycosylation and glycan biosynthesis (e.g., hydroxyproline O-linked glycosylation, poly-N-acetyllactosamine biosynthesis, Lewis A epitope biosynthesis), with supporting plant-specific processes like seed mucilage and root hair development, all pointing to AGP-associated glycosylation and cell-wall glycan biosynthesis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010493","count":1},{"id":"GO:0010405","count":1},{"id":"GO:0042248","count":1},{"id":"GO:0007299","count":1},{"id":"GO:0018258","count":1}]},{"hash":"1383440276626823811","title":"Carbon source catabolism and lipid metabolism","description":"GO terms indicate diverse carbon-utilizing catabolic pathways (glycol catabolic process, 3-chlorocatechol catabolic process, methanol oxidation, anaerobic glycerol catabolic process, L-fucose catabolic process) and lipid metabolism (phospholipid biosynthetic process, glycerophospholipid metabolic process). The combined emphasis on carbon-source degradation and lipid remodeling suggests a metabolic cluster, despite the outlier multicellular development term. Confidence: Medium","confidence":"","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0042846","count":1},{"id":"GO:1901168","count":1},{"id":"GO:0015976","count":1},{"id":"GO:0051143","count":1}]},{"hash":"1721557803671691327","title":"Actin Cytoskeleton Assembly and Remodeling","description":"The cluster is dominated by actin-related processes: Arp2/3-mediated actin nucleation, cortical patch assembly, and filament bundle assembly, with supporting terms like phagocytosis and calcium-responsive actin remodeling. Mitochondrion inheritance in some contexts also relies on actin networks, tying these terms together under actin cytoskeleton organization and dynamics.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":4},{"id":"GO:1904623","count":4},{"id":"GO:0000147","count":4},{"id":"GO:0051017","count":4},{"id":"GO:0002121","count":4}]},{"hash":"2210050494833748116","title":"Ubiquitin-Proteasome Regulation in Neuronal Development","description":"This cluster centers on ubiquitin-mediated proteolysis (including SCF-dependent and K11-linked ubiquitination) and protein catabolism, with links to protein oligomerization and nervous system development, including synaptic plasticity. The convergence of ubiquitin-dependent degradation signals and neural development terms suggests a module where protein turnover modulates neural function and plasticity, even though the proteins form an isolated subgraph. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0031915","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1907703102588666681","title":"Unknown","description":"The top terms cover a very broad and heterogeneous set of processes (cell cycle regulation, multiple signaling pathways, tissue development, neuronal drug response, and even obsolete terms), with no clear common function tying the proteins together.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010696","count":4},{"id":"GO:0035607","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0051436","count":4},{"id":"GO:0046827","count":4}]},{"hash":"1559488111379755771","title":"Unknown","description":"Top GO terms show a mix of signaling pathways (FGF, insulin, Kit), development (placenta, bronchus morphogenesis, orbitofrontal cortex development), and even obsolete terms, with no common process or molecular function linking the proteins, and there are no interactions among them. Hence no clear shared function; Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010696","count":2},{"id":"GO:0035607","count":2},{"id":"GO:0008286","count":2},{"id":"GO:0051436","count":2},{"id":"GO:0046827","count":2}]},{"hash":"218112882018282581","title":"Neurodevelopment and CNS morphogenesis","description":"The top GO terms cluster around neural development and CNS formation, including neurogenesis, central nervous system development, dendritic spine morphogenesis, retina morphogenesis, and neuronal signaling (potassium channel clustering) and behavior. There are also a few broader developmental terms (axial mesoderm, heart development) that appear but are less central. Taken together, the dominant theme is neural development and CNS maturation, justifying this label.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0022008","count":3},{"id":"GO:0007417","count":3},{"id":"GO:0060997","count":2},{"id":"GO:0048320","count":2}]},{"hash":"2134501949778155994","title":"Organelle dynamics and core cellular processes","description":"The four proteins show GO terms tied to organelle maintenance and biogenesis (mitochondrion inheritance, regulation of Golgi organization, ribosome biogenesis, peroxisome fission), suggesting a shared theme around organelle dynamics. Additional terms touch on fundamental cellular processes like cell cycle and apoptosis, and even neuronal/muscle activity, implying broader housekeeping roles. Because the set spans multiple related but not tightly united functions, the label is a best-fit high-level theme rather than a precise function. ","confidence":"Low","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:1903358","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0016559","count":1},{"id":"GO:0048662","count":1}]},{"hash":"1016525229233491355","title":"Diverse Metabolite and Ion Transporters","description":"This cluster centers on transmembrane transport of a variety of substrates\u2014carnitine, sugars (arabinose, galactose, fucose), potassium, and xenobiotics\u2014with some related metabolic terms like nitrate assimilation. The common theme is membrane transport of diverse metabolites and ions.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009437","count":2},{"id":"GO:1900751","count":2},{"id":"GO:1902270","count":2},{"id":"GO:1900754","count":1},{"id":"GO:0042128","count":1}]},{"hash":"1274963227645944634","title":"Unknown","description":"The GO terms in this cluster cover highly diverse and seemingly unrelated processes (immune differentiation, heart development, acrosome reaction, insulin signaling, necroptosis/apoptosis, intracellular targeting, vesicle trafficking, and basement membrane-related morphogenesis). There is no clear, single theme tying these proteins together, so a coherent, specific functional label cannot be assigned beyond Unknown.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001865","count":1},{"id":"GO:0006623","count":1},{"id":"GO:0070266","count":1},{"id":"GO:0007507","count":1},{"id":"GO:0043314","count":1}]},{"hash":"2125974350517705963","title":"Core gene expression and cell growth","description":"These proteins\u2019 GO terms cluster around ribosome biogenesis, formation of translation preinitiation complexes, and cell division, with supporting signals for transcription factor localization and basic development. The common thread is fundamental cellular machinery for protein synthesis and growth, though some terms are deprecated or peripheral, making the link general rather than highly specific.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0043588","count":2},{"id":"GO:0050731","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0000747","count":2}]},{"hash":"1360978743578168007","title":"Cardiac development and circadian rhythm","description":"This cluster is dominated by GO terms tied to heart development and rhythm: cardiac atrium formation, outflow tract morphogenesis, and circadian regulation of heart rate. Additional terms point to morphogenetic cell adhesion and hypoxia/HIF-1alpha signaling, which can influence cardiac development and adaptation. Overall, the shared theme is proteins involved in heart morphogenesis and its rhythmic regulation.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0010203","count":4},{"id":"GO:0061419","count":4},{"id":"GO:2000764","count":4},{"id":"GO:0061030","count":4},{"id":"GO:0003210","count":4}]},{"hash":"2049674760070985273","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:1902775","count":4},{"id":"GO:0001178","count":4},{"id":"GO:1903608","count":4},{"id":"GO:0000393","count":4},{"id":"GO:0042255","count":4}]},{"hash":"527269704392799371","title":"Developmental RTK signaling","description":"The GO terms point to receptor tyrosine kinase\u2013mediated signaling across developmental contexts (e.g., FGFR signaling in brain development, insulin receptor signaling, KIT signaling) and tissue morphogenesis (bronchus morphogenesis, orbitofrontal cortex development). While some terms are more peripheral (sperm capacitation, cocaine response), the unifying theme is signaling networks that govern development and morphogenesis across diverse tissues, suggesting a developmental signaling module.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048240","count":4},{"id":"GO:0010696","count":3},{"id":"GO:0035607","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0051436","count":3}]},{"hash":"468429714167211511","title":"RNA processing and translation initiation","description":"The terms point to both RNA maturation steps (splicing, spliceosome assembly, splice site recognition, mRNA export, poly(A) tail regulation, mRNA stability in stress) and the initiation of translation (preinitiation complex formation, eIF4F complex assembly, IRES-dependent initiation), indicating a cluster centered on RNA processing and translational control.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035278","count":2},{"id":"GO:0060211","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0034462","count":2},{"id":"GO:0010610","count":2}]},{"hash":"1217845721001240740","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902775","count":2},{"id":"GO:0001178","count":2},{"id":"GO:1903608","count":2},{"id":"GO:0000393","count":2},{"id":"GO:0042255","count":2}]},{"hash":"2296535926454251854","title":"Mitochondrial transport and membrane regulation","description":"Based on the GO terms, this cluster centers on mitochondrial transport of various substrates (thiosulfate, heme, ADP, iron) and on regulation of mitochondrial membrane permeability and membrane potential, with adaptive thermogenesis reflecting mitochondrial energy handling. While a couple of terms are less relevant, the dominant theme is mitochondrial transport and energy homeostasis.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0015709","count":1},{"id":"GO:0015886","count":1},{"id":"GO:0015866","count":1},{"id":"GO:0046902","count":1},{"id":"GO:1990845","count":1}]},{"hash":"1224118995005273868","title":"Unknown","description":"The GO terms are diverse and span translation initiation, transcription factor localization, actin filament regulation, stress responses, immune defense, and glial apoptosis. There isn\u2019t a single dominant function linking these four proteins, and several terms are obscure or obsolete, making it hard to assign a coherent, specific cluster function.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":1},{"id":"GO:1905705","count":1},{"id":"GO:0001731","count":1},{"id":"GO:0061586","count":1},{"id":"GO:0051016","count":1}]},{"hash":"1965398978835797699","title":"Multi-tissue Morphogenesis","description":"The top GO terms cluster around morphogenesis and development across diverse tissues (neuronal dendritic spine morphogenesis, nerve branching, spinal cord development, cartilage morphogenesis, craniofacial development, and even plant stamen formation). While a few terms touch on cellular processes like endocytosis and iodide transport, the dominant theme is tissue morphogenesis and development, suggesting these proteins participate in shaping tissues across contexts.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0048755","count":1},{"id":"GO:0006898","count":1},{"id":"GO:0001806","count":1}]},{"hash":"648527967312978487","title":"Unknown","description":"The GO terms include two RNA modification processes (diphthamide formation and tRNA wobble uridine modification) but also a disparate set of terms on cell adhesion, immune activation, and other processes, with no clear, cohesive biological function tying all four proteins. Because there is no unifying theme, a concise, accurate cluster label cannot be confidently assigned.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017183","count":1},{"id":"GO:0007117","count":1},{"id":"GO:0002098","count":1},{"id":"GO:0034392","count":1},{"id":"GO:0007157","count":1}]},{"hash":"1463523242726448036","title":"Chromatin methylation and heterochromatin regulation","description":"The cluster\u2019s terms center on DNA methylation, histone modifications (H3-K9 methylation, H3-K14 acetylation), and heterochromatin formation/regulation, indicating a cohesive theme of epigenetic chromatin control rather than signaling or development; occasional morphogenesis terms appear but do not define the core function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060358","count":1},{"id":"GO:0043046","count":1},{"id":"GO:0051573","count":1},{"id":"GO:0044154","count":1},{"id":"GO:0061038","count":1}]},{"hash":"858455309057217044","title":"Membrane trafficking and signaling regulation","description":"This cluster centers on vesicle trafficking and membrane localization processes (Golgi vesicle budding, multivesicular body assembly, positive regulation of protein localization to the plasma membrane) and includes signaling pathway terms (ERK cascade, dopamine receptor signaling). Although some terms touch development and tissue homeostasis, the common thread is coordination between membrane trafficking and signal transduction. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000755","count":3},{"id":"GO:1903078","count":3},{"id":"GO:0048194","count":3},{"id":"GO:2000222","count":3},{"id":"GO:0021861","count":3}]},{"hash":"1466237325295688283","title":"Nucleotide Metabolism Cluster","description":"The top terms are dominated by nucleotide metabolism and nucleotide catabolic processes (adenosine metabolic process, guanosine-containing compounds catabolic process, ribonucleoside monophosphate catabolic process, and general nucleotide metabolic process), indicating a shared function in nucleotide turnover. A few outlier terms (lipid dephosphorylation, triglyceride catabolism, biotin biosynthesis, plant-specific shoot formation) suggest some functional noise, but the nucleotide metabolism theme is the strongest signal.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:1901069","count":1},{"id":"GO:0046085","count":1},{"id":"GO:0009117","count":1},{"id":"GO:0009158","count":1}]},{"hash":"1188764055015400670","title":"Unknown","description":"The top GO terms span very diverse processes (stress and oxidative responses, signaling regulation, membrane trafficking, skin keratinocyte biology, xenobiotic response) with no clear shared function across the four proteins, so there isn\u2019t a cohesive theme to name the cluster.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902072","count":1},{"id":"GO:0033209","count":1},{"id":"GO:0048227","count":1},{"id":"GO:1902306","count":1},{"id":"GO:0032088","count":1}]},{"hash":"351811298174538750","title":"Unknown","description":"This cluster has no network connections (Edges 0, Triangles 0) and no GO terms to reveal a shared function, so there is no clear theme to name. The protein IDs provide no functional hint, and the ReCIPE note does not establish a biological function. Therefore, Unknown with no confidence.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1352007188573216714","title":"GPCR Signaling and Hormone Secretion Regulation","description":"The top GO terms point to GPCR-related signaling pathways, including adenylate cyclase\u2013inhibiting serotonin and dopamine receptor signaling, with downstream ERK1/2 activation and protein phosphorylation. Additional terms touch on hormone secretion and cardiac/smooth muscle\u2013related processes, which together suggest a theme of GPCR-mediated signaling regulating phosphorylation and hormonal responses. Some terms appear as outliers (e.g., viral release), likely reflecting annotation noise rather than core function. Overall, the cluster is best described by GPCR signaling and related hormone regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0002882","count":2},{"id":"GO:0033861","count":2},{"id":"GO:0007198","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1611121053162170955","title":"GPCR signaling and downstream regulation","description":"The proteins are linked to GPCR pathways, including adenylate cyclase\u2013inhibiting serotonin and dopamine receptor signaling, ERK1/ERK2 cascade regulation, and protein phosphorylation, pointing to GPCR-mediated signaling and downstream responses. Additional terms like heart development and intestinal smooth muscle contraction reflect downstream physiological effects. A single viral release term seems incidental. Overall, the cluster centers on GPCR signaling and its downstream regulatory effects.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0002882","count":2},{"id":"GO:0033861","count":2},{"id":"GO:0007198","count":2},{"id":"GO:0070374","count":2}]},{"hash":"1925667805614314819","title":"Unknown","description":"There is no coherent shared function among the four proteins based on current GO annotations: only one active term (positive regulation of cell population proliferation) is present and supported by a single protein, while the other terms are obsolete histone modification regulators. With no edges or clear functional signal linking the proteins, a reliable cluster label cannot be defined.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":1},{"id":"GO:2000616","count":1},{"id":"GO:0051573","count":1}]},{"hash":"576857634693298573","title":"Developmental maturation and signaling","description":"The GO terms point to broad developmental processes across tissues (bone ossification, spermatid and cerebellum maturation, neural crest differentiation) and include signaling pathway regulation (PKA, Rho) and cytoskeletal remodeling (stress fiber assembly). This suggests a general theme of developmental maturation coupled with modulation of signaling and structure, rather than a single tissue-specific function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0043149","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0010738","count":2},{"id":"GO:0035024","count":1}]},{"hash":"2185006200495700607","title":"Unknown","description":"The GO terms are spread across very different areas, including RNA processing, ribosome biogenesis, and cell cycle, alongside plant development (inflorescence meristem identity and floral organ morphogenesis) and stress responses (ionizing radiation response, salt stress regulation) as well as sumoylation. There is no single unifying function or pathway that ties these terms together for this small cluster, so it cannot be reliably labeled with a cohesive function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016180","count":1},{"id":"GO:0010212","count":1},{"id":"GO:0033235","count":1},{"id":"GO:0014009","count":1},{"id":"GO:0042254","count":1}]},{"hash":"2053364778018614517","title":"Ribosome Biogenesis and rRNA Modification","description":"The proteins cluster around core ribosome-related processes: ribosome biogenesis, translation, and rRNA/pseudouridine synthesis, with supporting terms for ribosomal subunit export from the nucleus. This indicates roles in assembly and rRNA modification rather than unrelated processes. A few terms related to telomerase localization or amino acid starvation response appear incidental to the main ribosome-focused signature, but the dominant signal supports a ribosome-centered function.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0006412","count":2},{"id":"GO:0031120","count":2},{"id":"GO:0031118","count":2},{"id":"GO:0000469","count":1}]},{"hash":"882618148348809476","title":"Developmental chromatin remodeling and differentiation","description":"The GO terms cluster around nucleus organization and chromatin remodeling (including transcription-coupled remodeling and heterochromatin formation) alongside developmental and differentiation processes across tissues (brain, keratinocytes, spermatids) and multicellular growth. This suggests a shared theme of chromatin-state regulation in developmental contexts rather than a single specific pathway, justifying a label centered on developmental chromatin dynamics. ","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0034184","count":2},{"id":"GO:0051290","count":2},{"id":"GO:0071674","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0035264","count":2}]},{"hash":"1416578359443110554","title":"Diverse biosynthetic pathways","description":"The GO terms are dominated by biosynthetic and metabolic processes across a range of compounds (antibiotics, melanin, steroids, vitamins), indicating the proteins cluster around diverse biosynthetic activities rather than a single specific pathway.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0042438","count":2},{"id":"GO:0061370","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0006355","count":2}]},{"hash":"408993211703602494","title":"Multiorgan epithelial morphogenesis","description":"These four proteins cluster around epithelial development and organ morphogenesis across tissues, including lung morphogenesis and epithelial tube branching, ureteric bud branching, mammary gland alveolus development, palate and lens epithelium. The GO terms emphasize epithelial differentiation and branching processes, with supporting signaling pathways (insulin receptor, TGF-beta). Immune-related terms appear but are secondary to the central epithelial morphogenesis theme, suggesting the proteins share roles in epithelial tissue development rather than a single organ-specific function.","confidence":"Medium","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2001111","count":3},{"id":"GO:0060461","count":2},{"id":"GO:2000320","count":2},{"id":"GO:0060678","count":2},{"id":"GO:0061030","count":2}]},{"hash":"337062156782952403","title":"Unknown","description":"There is insufficient functional signal to assign a coherent function to this cluster: no GO terms are listed in Top Terms, and with only a single edge among a few proteins, there is no clear shared biological aspect to anchor a label. Therefore the cluster is labeled Unknown.","confidence":"","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"1143049642141930871","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060315","count":1},{"id":"GO:0060347","count":1},{"id":"GO:1902991","count":1},{"id":"GO:0014808","count":1},{"id":"GO:0007049","count":1}]},{"hash":"1239851276106846453","title":"Unknown","description":"The four proteins show a mix of processes including actin localization and dendritic spine morphogenesis, along with immune differentiation and heart-related signaling, with no clear single function tying them together. The lack of edges and a cohesive GO term theme suggests the cluster is not functionally coherent. Therefore, Unknown with None confidence. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044379","count":1},{"id":"GO:0035750","count":1},{"id":"GO:0060997","count":1},{"id":"GO:0001865","count":1},{"id":"GO:2000251","count":1}]},{"hash":"1238343079386849899","title":"Virus-host interaction and immune response","description":"The cluster\u2019s top terms center on leukocyte migration, viral entry and release, and host-associated activation of viral processes, which together suggest involvement in viral infection and the ensuing immune response. Some terms are obsolete or general (e.g., protein folding), indicating mixed signal, but the core theme aligns with virus\u2013host interactions and immune movement.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein folding","top_go_terms":[{"id":"GO:1901407","count":4},{"id":"GO:0050900","count":3},{"id":"GO:0019076","count":3},{"id":"GO:0030260","count":3},{"id":"GO:0006457","count":3}]},{"hash":"1640798521916236026","title":"Neurohormonal Signaling and Muscle Regulation","description":"The terms point to signaling pathways influenced by neurotransmitter receptors (adenylate cyclase\u2013inhibiting dopamine and serotonin receptor signaling), ERK cascade activation, and protein phosphorylation, which feed into hormone secretion and smooth muscle actions (intestine) and developmental processes like heart development. While there are some outliers (viral-host interactions), the core theme centers on neurohormonal signaling and its effects on muscle-associated functions. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":3},{"id":"GO:0002882","count":3},{"id":"GO:0033861","count":3},{"id":"GO:0007198","count":3},{"id":"GO:0070374","count":3}]},{"hash":"134841591022001789","title":"Ubiquitin-Dependent Protein Degradation","description":"The top terms center on ubiquitination and proteolysis (protein autoubiquitination, K48-linked ubiquitination, ubiquitin-dependent protein catabolic process, ubiquitin-dependent ERAD pathway), indicating a theme of ubiquitin-mediated protein turnover and quality control. A few other terms mention related processes (virus material transport, peroxisomal import) but do not outweigh the core degradation-focused signal.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":3},{"id":"GO:1901253","count":2},{"id":"GO:1903762","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0070936","count":2}]},{"hash":"1245055226773561772","title":"RNA processing and translation control","description":"Top GO terms indicate a coherent focus on translation initiation and reinitiation, as well as broader RNA processing steps (splicing, export, mRNA stability, poly(A) tail regulation, and spliceosome assembly), suggesting proteins in a unit coordinating RNA maturation with translation regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0035278","count":1},{"id":"GO:0060211","count":1},{"id":"GO:0034462","count":1}]},{"hash":"1604033105173821231","title":"Endocytic and Golgi-lysosome vesicle trafficking","description":"The top GO terms point to vesicle movement within the endomembrane system, including endocytosis, Golgi-to-lysosome and endosome-to-Golgi transport, and lysosomal transport. These together suggest a coherent theme of intracellular vesicle trafficking, with supporting terms like cytoskeletal organization that often accompanies transport processes; occasional spermatogenesis-related terms may reflect specialized trafficking roles. Overall, the cluster most plausibly represents endomembrane vesicle trafficking functions.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":1},{"id":"GO:0006858","count":1},{"id":"GO:0048873","count":1},{"id":"GO:0060052","count":1},{"id":"GO:0006896","count":1}]},{"hash":"1857598984679880420","title":"Developmental transcription and signaling","description":"This cluster centers on transcriptional control (RNA Pol II transcription, miRNA transcription) and signaling pathways (SMAD signaling, TNF response) that drive development, with additional links to developmental processes such as dorsal closure and imaginal disc fusion. The presence of chromatin regulation (histone deacetylation) and proteasomal degradation also ties into gene expression control during development. Overall, the proteins appear to participate in coordinated transcriptional regulation and signaling during development.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":3},{"id":"GO:0061614","count":3},{"id":"GO:0045064","count":3},{"id":"GO:0010499","count":3},{"id":"GO:0007391","count":3}]},{"hash":"2114473166090772998","title":"Synaptic vesicle trafficking and SNARE-mediated exocytosis","description":"The dominant GO terms point to vesicle transport between Golgi, endosomes, and vacuoles, Ca2+-dependent exocytosis, SNARE complex assembly, and regulation of synaptic transmission (including GABAergic), indicating a core theme of vesicle trafficking and exocytosis at synapses. Some outlier terms (DNA integration, proteolysis) likely reflect noise rather than core function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0060292","count":1},{"id":"GO:0006895","count":1},{"id":"GO:0045956","count":1}]},{"hash":"2282735735183322665","title":"Unknown","description":"The GO terms are highly diverse and do not point to a single shared function or pathway (mitochondrial inheritance, nitrate/nitrogen metabolism, CNS myelin maintenance, fungal and lipid metabolism, skin differentiation, and NO biosynthesis), making a cohesive cluster label inappropriate. Therefore, Unknown with None.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0032443","count":1},{"id":"GO:0001949","count":1}]},{"hash":"1792738724711490368","title":"Sterol biosynthesis and lipid metabolism","description":"This cluster centers on lipid and sterol biosynthetic processes, with several GO terms for cholesterol and ergosterol pathways (lathosterol, ergosterol), ether lipid metabolism, and various sterol oxidation steps, suggesting a cohesive function in sterol and lipid biosynthesis. Some terms about myelin maintenance and sebaceous gland differentiation appear as related lipid biology contexts but are less central to the core theme. Overall, the dominant signal supports a sterol and lipid metabolism focus.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006633","count":1},{"id":"GO:0032286","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0080065","count":1}]},{"hash":"862529925173147651","title":"DNA Replication and Repair","description":"Most terms center on DNA synthesis and multiple repair pathways (DNA replication; nucleotide-excision repair; single- and double-strand break repair; classical NHEJ). A few other terms (cofactor biosynthesis, embryonic development, V(D)J recombination) are less central, but do not outweigh the core genome-maintenance signal. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0008616","count":1},{"id":"GO:0006728","count":1},{"id":"GO:0006729","count":1},{"id":"GO:0006297","count":1}]},{"hash":"555057714441051704","title":"Retroviral DNA Integration and Latency","description":"The cluster is enriched for viral lifecycle processes: DNA integration, recombination, RNA-templated DNA synthesis, and DNA replication, plus proviral latency establishment and viral entry into the host nucleus. These terms together suggest a cohesive theme of retroviral integration into the host genome and maintenance of proviral latency, with associated host interaction steps.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":2},{"id":"GO:0006310","count":2},{"id":"GO:0006278","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0075713","count":2}]},{"hash":"1472244623717026720","title":"Synaptic vesicle exocytosis and neurotransmitter release","description":"The cluster's GO terms cluster around neuronal vesicle trafficking and exocytosis (multivesicular body sorting, regulation of synaptic vesicle exocytosis, calcium-dependent exocytosis, neurotransmitter secretion) and include brain development, suggesting a shared role in neuronal vesicle trafficking and neurotransmitter release. A few terms (e.g., mating projection growth) appear incidental but do not alter the main theme.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0071985","count":2},{"id":"GO:2000300","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0010796","count":2}]},{"hash":"1080528892385368351","title":"Signaling Pathways and Ubiquitin Regulation","description":"The top GO terms point to several canonical signaling pathways (tumor necrosis factor signaling, Wnt signaling including planar cell polarity, T cell and Fc-epsilon receptor signaling) together with protein ubiquitination processes (deubiquitination, proteasomal ubiquitin-independent degradation). This pattern suggests the cluster captures components involved in diverse signal transduction events that are tightly linked to protein turnover by ubiquitin-related mechanisms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0060071","count":2},{"id":"GO:0016579","count":2},{"id":"GO:0010363","count":2}]},{"hash":"915957411306196142","title":"Unknown","description":"The GO terms are highly diverse (chromatin-related, signaling pathways, immune and metabolic processes) and many are obsolete, with no clear shared function linking the proteins. There isn\u2019t a cohesive theme to justify a specific label, so an Unknown assignment is appropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990141","count":1},{"id":"GO:1990619","count":1},{"id":"GO:1902237","count":1},{"id":"GO:0033210","count":1},{"id":"GO:0048012","count":1}]},{"hash":"45742819821800262","title":"Membrane trafficking and adhesion","description":"The top GO terms cluster around vesicle trafficking (COPII budding, endosomal vesicle fusion, constitutive secretory pathway) and adherens junction organization, suggesting a shared theme of membrane dynamics and cell-cell adhesion, despite some terms pointing to differentiation and growth regulation. Confidence: Medium","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006348","count":2},{"id":"GO:2000222","count":2},{"id":"GO:0021861","count":2},{"id":"GO:0060161","count":2},{"id":"GO:1902766","count":2}]},{"hash":"1806264950613886264","title":"Transcription and Cell Cycle Regulation","description":"Top GO terms center on transcription termination and translational regulation, alongside mitotic control and kinetochore localization, with mesoderm development also represented. This points to a regulatory module that integrates gene expression control and cell division processes, though metabolism-related terms are present but less central. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0005979","count":3},{"id":"GO:0030847","count":3},{"id":"GO:0036496","count":3},{"id":"GO:1903501","count":3},{"id":"GO:0042220","count":3}]},{"hash":"746956537227022523","title":"Adaptive immune activation and IgG isotype switching","description":"This cluster shows strong representation of adaptive immune functions: B cell cytokine production, T cell\u2013mediated immune responses to tumor cells, positive regulation of inflammatory and TNF production, and isotype switching to IgG. Together these indicate a cohesive theme of adaptive immune activation and antibody-related processes, though a couple of terms (scaRNA localization to Cajal body, misfolded protein detection) are less directly tied and may reflect broader cellular context or noise.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090666","count":1},{"id":"GO:0002368","count":1},{"id":"GO:0032212","count":1},{"id":"GO:1904469","count":1},{"id":"GO:1903427","count":1}]},{"hash":"1929992286479163804","title":"Lymphocyte Activation and Proliferation","description":"The GO terms clustered here are strongly centered on immune activity in lymphocytes: B cell cytokine production, isotype switching to IgG, and positive regulation of inflammatory and T cell\u2013mediated responses, indicating activation of B and T cells. The presence of cell-cycle and telomere maintenance terms suggests proliferative activity in these immune cells. A couple of terms about misfolded-protein detection and scaRNA localization to Cajal bodies are less directly tied to immunity but may reflect general cellular stress and RNA processing in rapidly dividing cells. Overall, the cluster seems best described as immune activation involving lymphocyte proliferation.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090666","count":3},{"id":"GO:0002368","count":3},{"id":"GO:0032212","count":3},{"id":"GO:1904469","count":3},{"id":"GO:1903427","count":3}]},{"hash":"75248082107091582","title":"Mitotic cell cycle and cytokinesis regulation","description":"The terms are dominated by core mitotic processes: cell division, positive/negative regulation of proliferation and cytokinesis, DNA replication (Okazaki fragment processing in mitosis), and cytoskeletal regulation (actin filament capping). The presence of ubiquitination (K11-linked) ties to APC-driven control of mitosis. A few terms touch neural development, but the prevailing theme is coordination of cell division and cytokinesis, indicating this cluster reflects mitotic cell cycle regulation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0050773","count":2},{"id":"GO:1905705","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0032466","count":2}]},{"hash":"231811705619404796","title":"Mitochondrial dynamics and cardiolipin metabolism","description":"The top GO terms are dominated by mitochondrial processes: inheritance, stress-induced fusion, and regulation of cardiolipin metabolism, which together point to mitochondrial maintenance and lipid remodeling as the core theme for this cluster. Some others touch on signaling or secretion, but they are less central to the main mitochondrial-focused pattern.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":3},{"id":"GO:1990046","count":3},{"id":"GO:0045541","count":3},{"id":"GO:0032623","count":3},{"id":"GO:0060355","count":3}]},{"hash":"278537563414235900","title":"Embryonic development and cell adhesion","description":"The top GO terms cluster around developmental morphogenesis (heart, axial mesoderm, retina, dendritic spine) and cell\u2013cell or cell\u2013matrix adhesion (hemidesmosome assembly, homophilic adhesion), suggesting a group of proteins involved in tissue patterning and connectivity during embryogenesis. Some terms (immune signaling) are less aligned with this theme, but the prevailing pattern points to developmental processes and adhesion. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0048320","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0045163","count":3},{"id":"GO:0044708","count":3}]},{"hash":"22654364749938826","title":"Vesicle trafficking and membrane dynamics","description":"The top GO terms cluster around vesicle trafficking processes: COPII-coated vesicle budding, endosomal vesicle fusion, and positive regulation of the constitutive secretory pathway, plus related membrane organization functions like adherens junction organization. This suggests the proteins in this small cluster are linked by roles in vesicle transport and membrane dynamics rather than a single, narrow function. Some terms reflect broader developmental or signaling contexts, but the strongest common theme is trafficking and membrane maintenance.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000222","count":3},{"id":"GO:0021861","count":3},{"id":"GO:0060161","count":3},{"id":"GO:1902766","count":3},{"id":"GO:1903435","count":3}]},{"hash":"1503835423222163158","title":"Neural development and signaling","description":"This cluster\u2019s GO terms center on brain development and neural signaling, including regulation of ephrin receptor signaling, neuroblast division in the subventricular zone, lateral ventricle development, stem cell differentiation, and GABA secretion. Supporting terms related to intracellular trafficking and cell junctions (Golgi localization, endocytosis, endosome transport, adherens junctions) fit with neuronal differentiation and synaptic maturation, suggesting a neural development and signaling module rather than a single isolated process.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901187","count":2},{"id":"GO:0048863","count":2},{"id":"GO:0014051","count":2},{"id":"GO:2000643","count":2},{"id":"GO:0051645","count":2}]},{"hash":"2087303838515138456","title":"Embryonic morphogenesis and tissue adhesion","description":"The GO terms cluster around developmental and morphogenetic processes: heart development, axial mesoderm formation, retina morphogenesis, dendritic spine morphogenesis, and adhesion-related processes (hemidesmosome assembly, homophilic cell-cell adhesion). While there are mentions of neural signaling and immune pathways, the dominant theme is embryonic tissue formation and organization, suggesting a cluster of proteins involved in morphogenesis and cell\u2013cell interactions during development.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0048320","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0045163","count":3},{"id":"GO:0044708","count":3}]},{"hash":"316393404389605880","title":"Cofactor and vitamin biosynthesis","description":"Top terms repeatedly point to biosynthesis of cofactors and vitamins (menaquinone, PQQ, protoporphyrinogen IX, thiamine, lipoate) and related lipoylation, indicating a function in assembling essential coenzymes. A few terms about immune regulation and antibiotic response are less consistent with the rest; overall the shared theme is cofactor/vitamin biosynthesis, so the label reflects the cluster\u2019s core function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009234","count":2},{"id":"GO:0046638","count":2},{"id":"GO:0018189","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0009249","count":1}]},{"hash":"1696550585637284777","title":"Developmental signaling and calcium exocytosis","description":"Top GO terms point to heart, skeletal, and nervous system development, along with signaling pathways (Rho, FGF receptor, insulin) and calcium-dependent exocytosis regulation. Although a fungal term (pseudohyphal growth) appears, the dominant theme is development coupled with signaling and secretion, suggesting these proteins function in coordinating tissue development through signaling cascades and calcium-mediated exocytosis.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0001501","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0045956","count":3}]},{"hash":"1778016685645175211","title":"Unknown","description":"No GO terms are listed to tie these three proteins to a common function, and with no obvious shared annotations, no specific label can be assigned.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"2169253141692118308","title":"Embryonic organogenesis","description":"The top GO terms point to embryonic development across multiple organs (eye, forelimb, olfactory pit, digestive tract) and vascular development, suggesting a shared role in organ formation and tissue patterning rather than a single pathway. Despite some obsolete terms, the dominant theme is embryonic organogenesis, making this a coherent cluster label.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006069","count":3},{"id":"GO:0031076","count":3},{"id":"GO:0001936","count":3},{"id":"GO:0019545","count":3},{"id":"GO:0042572","count":3}]},{"hash":"267150260084068909","title":"Diverse biosynthetic processes","description":"This cluster's GO terms span several biosynthetic pathways (NADP+/NAD+ biosynthesis, polyphosphate metabolism, various plant secondary metabolite biosynthesis like anthocyanin and secoisolariciresinol, lipopolysaccharide biosynthesis, and phosphorylation). The common thread is the production of diverse biomolecules, rather than a single specific function.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006741","count":1},{"id":"GO:0019674","count":1},{"id":"GO:0006797","count":1},{"id":"GO:0016310","count":1},{"id":"GO:0009718","count":1}]},{"hash":"1078340083741428004","title":"Immune Signaling and Tissue Remodeling","description":"The cluster includes terms for immune response and bone remodeling, with associated signaling activities such as GPCR pathways (serotonin and dopamine receptor signaling), ERK cascade, and protein phosphorylation, plus a mention of heart development. This suggests a theme of inflammatory/immune signaling linked to tissue remodeling and developmental signaling, warranting a label that captures both aspects. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046849","count":2},{"id":"GO:0006955","count":2},{"id":"GO:0019076","count":1},{"id":"GO:0002882","count":1},{"id":"GO:0033861","count":1}]},{"hash":"1888533207650413077","title":"Retrotransposon and DNA transposition","description":"The top GO terms cluster around DNA integration, recombination, RNA-templated DNA synthesis, DNA transposition, and retrotransposition, including proviral latency. This points to mobile genetic elements and retroviral-like integration mechanisms as the core function of the proteins. Some host interaction terms are present but appear secondary to the transposition/retroelement theme.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015074","count":1},{"id":"GO:0006310","count":1},{"id":"GO:0006278","count":1},{"id":"GO:0006260","count":1},{"id":"GO:0006313","count":1}]},{"hash":"2086754252173918494","title":"Neuronal maturation and cortex development","description":"The top GO terms include neuron maturation and cerebral cortex development, with supporting signaling context from cellular response to cAMP, suggesting a neural development/differentiation theme. However, several other terms are broad or unrelated (e.g., aging, estrogen/hormone biosynthesis, nucleotide metabolism), and there are no edges among proteins, so the link is plausible but not strongly cohesive.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0007568","count":2},{"id":"GO:0010269","count":2},{"id":"GO:0042551","count":2},{"id":"GO:0046886","count":2}]},{"hash":"1231160037613618192","title":"TNF signaling and ubiquitin-mediated proteolysis","description":"This cluster centers on tumor necrosis factor\u2013mediated signaling with both positive and negative regulation, and on ubiquitin-dependent protein catabolic processes (including K48- and K6-linked ubiquitination), which together point to regulation of TNF-driven inflammatory signaling and proteasomal protein turnover with links to apoptosis. A couple of terms (e.g., viral material transport regulation and X chromosome dosage compensation) are less directly connected, but the dominant theme is TNF signaling intertwined with ubiquitin-mediated degradation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:1901253","count":2},{"id":"GO:0009048","count":2},{"id":"GO:1903265","count":2},{"id":"GO:0042981","count":2}]},{"hash":"1364834575263737075","title":"RTK Signaling in Development","description":"Top GO terms center on receptor tyrosine kinase signaling (FGFR, KIT, insulin receptor) and development-related processes (orbitofrontal cortex development, placenta morphogenesis, bronchus morphogenesis), suggesting a compact module of RTK-driven signals that guide development and tissue differentiation. A few terms (cell cycle or nuclear transport) are more peripheral, but do not override the core RTK-development theme.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010696","count":3},{"id":"GO:0035607","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0051436","count":3},{"id":"GO:0046827","count":3}]},{"hash":"1656156421002356253","title":"Mitochondrial respiration and Fe-S cluster assembly","description":"This cluster\u2019s GO terms converge on mitochondrial energy metabolism, notably NADH to ubiquinone electron transport and the assembly of respiratory chain complex II, plus iron-sulfur cluster biosynthesis/maturation. These functions together underpin cellular respiration and Fe-S\u2013dependent enzyme biogenesis, with related quinone biosynthesis and beta-oxidation feeding into energy production. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":1},{"id":"GO:0010124","count":1},{"id":"GO:0009234","count":1},{"id":"GO:0006635","count":1},{"id":"GO:0042372","count":1}]},{"hash":"1273092916868836871","title":"Unknown","description":"There are no GO terms shown to anchor a shared function, and the cluster is extremely sparse (one edge, no triangles) with only three proteins listed. Without functional enrichment or common GO terms, there is no clear theme to name the cluster.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[]},{"hash":"2060137620457151887","title":"MAPK and Rho GTPase signaling","description":"These proteins appear to participate in signaling pathways that feed into MAP kinase cascades (ERK1/2) and Rho GTPase activation, as evidenced by GO terms for TRK and T cell receptor signaling, activation of GTPase activity, positive regulation of ERK1/ERK2, and regulation of MAP kinase activity. The presence of thymus development and endothelial blood-brain barrier establishment suggests developmental contexts in which these pathways operate. Collectively, the common theme across terms is intracellular signaling networks coordinating growth, differentiation, and cell movement, anchored by MAPK and Rho GTPase signaling.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048538","count":2},{"id":"GO:0048011","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0035023","count":2},{"id":"GO:1900026","count":2}]},{"hash":"1291441637592230790","title":"Unknown","description":"This cluster's top GO terms span very diverse biological processes\u2014ion transport, hormonal responses, cardiovascular regulation, and microbial biosynthesis\u2014without a clear shared function among the proteins. Consequently there is no confidently interpretable unifying theme to assign a precise label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007595","count":1},{"id":"GO:0006883","count":1},{"id":"GO:0002028","count":1},{"id":"GO:0033574","count":1},{"id":"GO:0009103","count":1}]},{"hash":"705088064975898814","title":"Unknown","description":"The top GO terms span pigmentation regulation, signal transduction, cardiac apoptosis, immune cell differentiation and degranulation, barrier establishment, insulin secretion, and neural development with no cohesive biological theme. With such diverse and sparsely represented functions (mostly single-term hits) and no shared pathway or process, there isn\u2019t a clear, representative label for this cluster. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048022","count":1},{"id":"GO:0032485","count":1},{"id":"GO:0010667","count":1},{"id":"GO:0032825","count":1},{"id":"GO:0043303","count":1}]},{"hash":"511477246376956507","title":"Vitamin K\u2013dependent gamma-carboxylation","description":"The GO terms center on vitamin K metabolism and peptidyl-glutamic acid carboxylation, a classic vitamin K\u2013dependent post-translational modification. The photosystem II assembly term, while less directly linked, can reflect a plant/chloroplast context where phylloquinone (a vitamin K form) participates in photosynthetic processes, tying the cluster to vitamin K\u2013related functions in these proteins. Overall, the theme is vitamin K\u2013dependent carboxylation and related metabolic roles.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042373","count":1},{"id":"GO:0010207","count":1},{"id":"GO:0017187","count":1}]},{"hash":"2301231823654288249","title":"Mitochondrial Complex I Assembly","description":"Top GO annotation points to assembly of mitochondrial respiratory chain complex I, suggesting the proteins share a role in Complex I assembly within mitochondria; despite no interaction edges observed, the single, precise function provides a clear, representative label.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032981","count":1}]},{"hash":"1278272219981089160","title":"Unknown","description":"The terms span transcription, differentiation and development, calcium signaling, and immune signaling, with no single shared function. Edges are zero, suggesting no clear interaction among these proteins, so a cohesive label is not supported.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045746","count":1},{"id":"GO:0042265","count":1},{"id":"GO:0061428","count":1},{"id":"GO:0045663","count":1},{"id":"GO:0042264","count":1}]},{"hash":"1714671195980063464","title":"Embryonic and neural morphogenesis","description":"The GO terms cluster around tissue and neural development across multiple organs (heart, axial mesoderm, retina) and neural morphogenesis (dendritic spine formation, nerve branching), with supporting ideas of cell adhesion and ion-channel organization that together point to proteins involved in shaping developing tissues and neural structures; some terms (immune signaling) may be ancillary.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":2},{"id":"GO:0048320","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0045163","count":2},{"id":"GO:0044708","count":2}]},{"hash":"1272985618739552976","title":"Filopodium assembly","description":"This cluster is represented by a single GO term, filopodium assembly (GO:0046847), suggesting the proteins may coordinate actin-driven filopodium formation. The small network (3 proteins, 2 edges) with one annotation indicates a modest but plausible assembly module for protrusion formation.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046847","count":1}]},{"hash":"1023328851005609110","title":"Immune receptor signaling with inflammatory cues","description":"Because the two strongest terms are Fc-epsilon receptor signaling and T cell receptor signaling, with additional TNF-mediated signaling and Rho signal transduction, the cluster appears to reflect immune receptor\u2013driven signaling and inflammatory responses. Wnt pathway regulation terms and ubiquitin-related processes may indicate network cross-talk or broader signaling context, but are less dominant. Therefore, an immune receptor signaling label best represents the core function.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0033209","count":1}]},{"hash":"2272905714159117931","title":"Folate-driven one-carbon metabolism","description":"The strongest consistent themes are tetrahydrofolate interconversion and THF biosynthesis, plus histidine catabolism forming one-carbon units and methionine biosynthesis\u2014all hallmark processes of folate-dependent one-carbon metabolism. The other GO terms seem peripheral or obsolete annotations, not central to the cluster's main function.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019557","count":1},{"id":"GO:0019556","count":1},{"id":"GO:0035999","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0009086","count":1}]},{"hash":"2021664372696208294","title":"Nuclear chromatin remodeling and transcription regulation","description":"Most terms point to nuclear chromatin dynamics and transcription control\u2014chromatin remodeling, heterochromatin formation, transcription initiation, and nucleus organization. The presence of a mitotic sister chromatid cohesion term also links to chromosome maintenance during division, supporting a chromatin-centered role for these proteins.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0034184","count":1},{"id":"GO:0043457","count":1},{"id":"GO:0051290","count":1},{"id":"GO:0071674","count":1},{"id":"GO:0007286","count":1}]},{"hash":"341384519965412411","title":"T cell signaling and inflammatory response","description":"GO terms in the cluster center on adaptive T cell receptor signaling, innate responses to lipopolysaccharide, interferon production, and related immune and signaling processes, with supporting xenobiotic and cyclic nucleotide signaling. This combination points to a cohesive theme of immune activation and inflammation.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010446","count":1},{"id":"GO:0046069","count":1},{"id":"GO:0032729","count":1},{"id":"GO:0071222","count":1},{"id":"GO:0019933","count":1}]},{"hash":"1448149620951011749","title":"Unknown","description":"There is no functional signal: no GO terms, no edges or triangles, and only a note that one protein was re-added by ReCIPE. Without a shared biological function or pathway, a descriptive label cannot be determined.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[]},{"hash":"1582476324520702419","title":"Zinc Transport and Homeostasis","description":"This cluster centers on zinc ion transport across membranes and maintaining intracellular zinc homeostasis, including import, detoxification, and starvation response. An outlier term for limb development is likely incidental and not defining for the core function.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006831","count":1},{"id":"GO:0010312","count":1},{"id":"GO:0044749","count":1},{"id":"GO:0070574","count":1},{"id":"GO:0034224","count":1}]}]