[{"hash":"127509802007686078","title":"Guanylyl Cyclase\u2013cGMP Signaling","description":"The top GO terms cluster around intracellular signal transduction, cGMP biosynthesis, and receptor guanylyl cyclase signaling, plus forskolin response, pointing to a module centered on guanylyl cyclase\u2013driven signaling and cyclic nucleotide production; some peripheral terms (e.g., transcription regulation, hypoxia detection) may be downstream or ancillary.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035556","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0071880","count":5},{"id":"GO:0052565","count":5},{"id":"GO:0006182","count":5}]},{"hash":"1606476307120067119","title":"Dopaminergic Signaling and Drug Response","description":"The cluster centers on neural signaling and responses to psychoactive substances, with specific emphasis on dopamine uptake, morphine/amphetamine responses, and ERK signaling linked to synaptic plasticity (visual learning). Some terms like heart development may reflect broader annotation overlaps, but the dominant theme ties to dopamine-mediated signaling and drug response.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0070374","count":7},{"id":"GO:0043278","count":7},{"id":"GO:0008542","count":7},{"id":"GO:0051586","count":6}]},{"hash":"97950015021791139","title":"Unknown","description":"The top GO terms span neural development, cell division, TORC1 signaling, light perception, cAMP biosynthesis, ERAD, microtubule severing, protein homooligomerization, CENP-A chromatin assembly, and ER-Golgi transport, indicating a diverse set of functions with no single cohesive theme. Therefore, a definitive, specific label cannot be assigned.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":5},{"id":"GO:0051301","count":4},{"id":"GO:1904263","count":4},{"id":"GO:0050908","count":3},{"id":"GO:0006171","count":3}]},{"hash":"263200909300894989","title":"Immune signaling and cell-cycle regulation","description":"This cluster centers on signaling pathways that integrate immune responses (B cell receptor signaling, IL-12 response) with regulators of cell proliferation and DNA damage checkpoints (negative regulation of cell population proliferation, mitotic G1 DNA damage checkpoint signaling, PI3K-AKT). While some terms relate to stress responses (cadmium), the dominant theme is transduction of immune and growth signals that help coordinate activation with cell-cycle control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":28},{"id":"GO:0051436","count":24},{"id":"GO:0050853","count":22},{"id":"GO:0031571","count":22},{"id":"GO:0071276","count":22}]},{"hash":"415764944066702752","title":"Neurodevelopmental signaling and angiogenesis","description":"These GO terms cluster around signaling pathways that govern neural development and vascular formation: CNS neuron axonogenesis, synapse assembly, and mesodermal development, alongside angiogenesis. They also point to broader signal transduction and transcriptional regulation through PI3K signaling, STAT phosphorylation, and NF-kB activity, suggesting a developmental signaling program that coordinates neural connectivity with vascular growth rather than a single narrowly defined process.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071372","count":13},{"id":"GO:0014068","count":13},{"id":"GO:0051965","count":13},{"id":"GO:0001525","count":13},{"id":"GO:0051092","count":12}]},{"hash":"1166575078772707393","title":"GPCR-mediated neuroimmune signaling","description":"The cluster shows a strong emphasis on GPCR-driven pathways, including dopamine receptor signaling and octopamine/tyramine signaling, alongside immune modulation terms (negative regulation of inflammatory response, T cell chemotaxis, eosinophil extravasation) and vascular-related processes (blood coagulation, vascular smooth muscle contraction). This combination suggests proteins that participate in signaling networks coordinating neural, immune, and vascular functions. While some terms (e.g., light absorption) add complexity, the core theme centers on GPCR-mediated communication across these systems. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":28},{"id":"GO:0007191","count":28},{"id":"GO:0001975","count":28},{"id":"GO:0016038","count":28},{"id":"GO:0014829","count":28}]},{"hash":"2036826321608931071","title":"Oocyte maturation and meiotic spindle assembly","description":"This cluster centers on meiotic and developmental processes tied to oocyte maturation and spindle dynamics. Key terms include oocyte maturation, spindle assembly in female meiosis I, and microtubule polymerization, supported by ubiquitin-proteasome\u2013mediated protein turnover; despite some brain development terms, the predominant signal is regulation of meiosis and cytoskeletal organization in oocytes.","confidence":"High","size":29,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":15},{"id":"GO:0006516","count":13},{"id":"GO:0021993","count":13},{"id":"GO:0070544","count":13},{"id":"GO:0008285","count":13}]},{"hash":"1004341485077936000","title":"Brain and neural tube development with transcriptional regulation","description":"The top GO terms are dominated by neural development (neural tube closure, forebrain and brain development) and transcriptional control (DNA-templated transcription, mRNA splicing), suggesting a cluster centered on brain formation and gene expression regulation. Some terms are broader or less related, but the core theme points to neural development and its regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0001843","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0006351","count":5}]},{"hash":"1113359426425247984","title":"Spliceosome-regulated mRNA processing","description":"This cluster centers on spliceosome-mediated mRNA processing and regulation, with terms for positive/negative regulation of mRNA splicing, mRNA export, and modification, plus regulation of translational initiation. It also includes regulatory ncRNA-mediated gene silencing and stress-responsive mRNA stability, suggesting a cohesive module of post-transcriptional gene expression control.","confidence":"High","size":29,"edges":368,"triangles":2770,"max_degree":28,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":22},{"id":"GO:0006378","count":21},{"id":"GO:0031047","count":20},{"id":"GO:0010610","count":19},{"id":"GO:0045292","count":19}]},{"hash":"1047212711273488192","title":"Neural development and synaptic regulation","description":"The top GO terms cluster around neural development and synaptic processes: retina development, synaptic vesicle clustering, learning, dendritic spine morphogenesis, and synaptic transmission regulation. Transcription by RNA polymerase II suggests core gene-expression programs, while the broader nervous-system\u2013related terms (e.g., regulation of respiratory gaseous exchange by nervous system process) support a neural focus. An outlier term like osteoblast development is present but does not dominate the signal, so the core theme remains neural development and synaptic organization/plasticity.","confidence":"High","size":29,"edges":393,"triangles":3331,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060041","count":16},{"id":"GO:0002076","count":13},{"id":"GO:0002087","count":13},{"id":"GO:0006366","count":9},{"id":"GO:2000809","count":9}]},{"hash":"1902884099378778642","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0032543","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0051084","count":1},{"id":"GO:0022417","count":1},{"id":"GO:0033617","count":1}]},{"hash":"624326517081568347","title":"Neuronal Development and Axon Guidance","description":"The cluster is dominated by GO terms related to nervous system development, brain and inner ear development, axon extension and fasciculation, trigeminal ganglion development, and synapse assembly, pointing to a cohesive role in neural development and axon pathfinding; a single endothelial-barrier term is likely incidental. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0048846","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0061551","count":3}]},{"hash":"1377734850634491677","title":"Ubiquitin-Proteasome Degradation","description":"The cluster is dominated by GO terms related to ubiquitin tagging and proteasomal degradation (SCF-dependent ubiquitin-dependent protein catabolic process, ubiquitin-dependent protein catabolic process, and protein polyubiquitination), indicating a cohesive set of proteins primarily involved in ubiquitin-mediated protein turnover. Other terms (transcription, DNA repair, development) appear less central, likely reflecting secondary roles or annotations, but do not override the clear degradation theme.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0042787","count":5},{"id":"GO:0000209","count":4},{"id":"GO:0071276","count":4},{"id":"GO:0043547","count":4}]},{"hash":"564420970876761470","title":"Muscle development and transcription regulation","description":"The top GO terms cluster around transcriptional control (DNA-templated transcription, RNA Pol II\u2013mediated transcription, nucleosome assembly) and muscle differentiation (skeletal muscle cell differentiation, myotube development, heart development), with a glucocorticoid response signal (dexamethasone stimulus) and kinase signaling regulation, suggesting coordinated transcription programs guiding muscle development and glucocorticoid-responsive gene expression.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0043516","count":3},{"id":"GO:0033138","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1951623742240955033","title":"Ubiquitin-Regulated Muscle Development","description":"This cluster is dominated by GO terms related to ubiquitination processes (negative regulation of protein ubiquitination, ubiquitin-dependent protein catabolic process, K33-linked ubiquitination) and skeletal muscle development (skeletal muscle fiber development, skeletal muscle tissue development), suggesting a theme of ubiquitin-mediated regulation of muscle formation and maintenance. Some peripheral terms (renal sodium absorption, reproductive development) appear less central or possible annotation noise, but do not override the core ubiquitination-muscle theme.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0070294","count":2},{"id":"GO:0045496","count":2},{"id":"GO:0048741","count":2}]},{"hash":"1759976747204482139","title":"Multi-tissue Developmental Regulation","description":"The top GO terms point to development across several tissues (skeletal muscle, heart, hippocampus, cerebellar cortex, nervous system) and include transcription and signaling regulation terms, suggesting a broad developmental/ regulatory theme rather than a single cohesive pathway. The lack of network connections (edges/triangles) supports a loose, multi-tissue developmental grouping rather than a specific functional module.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007519","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0033138","count":2},{"id":"GO:0021766","count":2}]},{"hash":"797872215054074891","title":"Innate immune response and coagulation","description":"The GO terms cluster around defense against pathogens and coagulation: responses to lipopolysaccharide, Gram-positive bacteria, and yeast, along with complement activation and blood coagulation. While there is an outlier term about biomineral tissue development and an obsolete PI3K signaling term, the dominant theme ties innate immune defense to the coagulation cascade.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":5},{"id":"GO:0032496","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0031214","count":5},{"id":"GO:0030194","count":5}]},{"hash":"1076136242423001114","title":"Unknown","description":"The top GO terms span muscle sarcomere organization, neural development, immune signaling, cell adhesion, and kidney ion transport, with no clear, unified function tying them together. Because there isn\u2019t a single dominant theme, the cluster is best labeled Unknown.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045214","count":5},{"id":"GO:2001200","count":5},{"id":"GO:0050853","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0007413","count":4}]},{"hash":"1832304886742242339","title":"Organ development and cell polarity","description":"The GO terms point to developmental processes across multiple organs (heart, nervous system, kidney) and to cellular organization features such as planar polarity and sarcomere assembly, with additional roles in trafficking and immune signaling. This combination suggests a cluster centered on developmental pathways and tissue organization rather than a single, specific pathway. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006893","count":3},{"id":"GO:0090522","count":3},{"id":"GO:0045214","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0007399","count":3}]},{"hash":"1229279397723314339","title":"Immune signaling and vesicle trafficking","description":"The top terms converge on immune signaling (B cell receptor signaling, innate immune response, T cell differentiation) and vesicular transport (endosome to lysosome transport), with additional cell adhesion and signaling-related processes. While some development terms appear, the dominant signal is immune communication coupled to intracellular trafficking, justifying this label.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0007519","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1224286915595775570","title":"Ubiquitin-regulated skeletal muscle development","description":"The top GO terms cluster around ubiquitination (ubiquitin-dependent protein catabolic process; K33-linked ubiquitination) and skeletal muscle development (skeletal muscle fiber development, skeletal muscle tissue development). Together these point to a role where ubiquitin-mediated protein turnover regulates muscle formation and growth. Some immune signaling terms are present but appear ancillary to the dominant ubiquitination-muscle theme. Confidence in this label is High.","confidence":"","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001200","count":8},{"id":"GO:0050853","count":7},{"id":"GO:0031397","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0070294","count":6}]},{"hash":"988201881568030881","title":"Unknown","description":"The top GO terms are scattered across nervous system functions (sensory perception of pain, olfactory learning), skin/ECM processes (keratinocyte differentiation, collagen fibril organization), and vascular/peptide maturation (endothelin maturation, angiotensin maturation) plus basic cellular processes like water homeostasis and defense. Because there is no clear, shared biological process linking all proteins, there is no coherent label for the cluster.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0001921","count":6},{"id":"GO:0019233","count":5},{"id":"GO:0008355","count":5},{"id":"GO:0030216","count":4},{"id":"GO:0014068","count":4}]},{"hash":"756844011799539566","title":"Lung development and surfactant homeostasis","description":"Based on the prominent lung-related terms (lung epithelial cell differentiation, surfactant homeostasis) and associated developmental processes (branching morphogenesis in blood vessels), the cluster appears to center on lung tissue formation and function. Additional terms point to general cellular processes (nuclear import, GTPase regulation, myosin II assembly) that accompany differentiation and tissue remodeling, while a few terms are less specific. Overall, the core theme best fits lung development and surfactant metabolism.","confidence":"Medium","size":28,"edges":18,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006607","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0006919","count":4},{"id":"GO:0042403","count":4},{"id":"GO:0043129","count":3}]},{"hash":"1593253854728507127","title":"Ubiquitin-Proteasome System and Antigen Presentation","description":"The cluster is dominated by ubiquitin\u2013proteasome\u2013related processes (protein deubiquitination, SCF-dependent ubiquitin-protein catabolic process, ubiquitin-dependent proteolysis, proteasome core complex assembly) and antigen processing/presentation via MHC I, plus TNF signaling and viral processes. This suggests a cohesive theme around regulated protein turnover and downstream immune processing, with additional support from mRNA stability regulation and deubiquitination, which can modulate proteostasis and immune responses. Overall, the terms point to a proteostasis-immune processing theme. ","confidence":"High","size":28,"edges":105,"triangles":430,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":8},{"id":"GO:0031146","count":6},{"id":"GO:0043488","count":6},{"id":"GO:0016032","count":6},{"id":"GO:0033209","count":6}]},{"hash":"1593053619958951563","title":"Endocytosis and vesicle trafficking","description":"The top GO terms prominently feature endosome transport (early to late endosome) and caveolin-mediated endocytosis, pointing to a cohesive role in vesicle formation and receptor internalization. Other terms related to signaling and polarity may reflect downstream effects or roles of trafficking in shaping cell behavior, but the strongest common theme is endocytosis and vesicle transport.","confidence":"High","size":28,"edges":91,"triangles":57,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000641","count":28},{"id":"GO:0033138","count":28},{"id":"GO:0048538","count":28},{"id":"GO:0010696","count":28},{"id":"GO:1903351","count":28}]},{"hash":"858846844403051566","title":"Embryonic development and Wnt signaling","description":"GO terms center on developmental processes (placenta, labyrinthine layer, neuron development) and on positive regulation of canonical Wnt signaling, suggesting a developmental signaling cluster. Transcription and DNA maintenance terms are also present but appear secondary to development.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0006281","count":3},{"id":"GO:0001890","count":3}]},{"hash":"118785541411604002","title":"Heart development and calcium signaling","description":"The cluster includes terms tied to heart formation and function (outflow tract morphogenesis; cardiac muscle hypertrophy in response to stress) and calcium signaling (release of sequestered Ca2+ from the SR) along with ion transport (Na+/K+ flux), suggesting a cohesive theme around cardiac development and excitation\u2013contraction signaling. Additional terms on multicellular development and ossification reflect broader developmental roles, with temperature-related responses providing ancillary context. Overall, the data point to a cardiac development/calcium signaling core with supportive ion transport processes.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003151","count":5},{"id":"GO:0007275","count":5},{"id":"GO:0071502","count":5},{"id":"GO:0097623","count":5},{"id":"GO:0019233","count":5}]},{"hash":"1060609395862962891","title":"Dopaminergic GPCR Signaling in Cardiovascular and Immune Functions","description":"The cluster is dominated by GO terms for adenylate cyclase\u2013activating GPCR signaling, including dopamine receptor pathways and amphetamine response, with strong ties to vascular regulation (blood pressure, vascular smooth muscle contraction) and anti-inflammatory immune modulation (negative regulation of inflammatory response, T cell differentiation). While a few terms (electron transport chain, light absorption) are less directly related, the core theme appears to be dopaminergic GPCR-driven signaling affecting cardiovascular tone and immune function.","confidence":"Medium","size":28,"edges":3,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":26},{"id":"GO:0007190","count":26},{"id":"GO:0010579","count":26},{"id":"GO:0045777","count":26},{"id":"GO:0050728","count":23}]},{"hash":"6352165325798149","title":"ECM Remodeling and Coagulation","description":"These proteins show a clear emphasis on extracellular matrix remodeling and vascular-associated processes: tissue remodeling, elastin turnover, and smooth muscle cell-matrix adhesion, together with coagulation and complement activation. Although there are mentions of development and transcriptional regulation, the dominant theme is remodeling of the ECM in a vascular/immune context, suggesting a cluster tied to ECM turnover and coagulation-related functions. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":12},{"id":"GO:0030901","count":10},{"id":"GO:2000097","count":9},{"id":"GO:0048771","count":9},{"id":"GO:0045079","count":9}]},{"hash":"2285928430211023024","title":"Vertebrate organogenesis","description":"These proteins show enrichment across diverse developmental and morphogenetic processes in multiple vertebrate organs (midbrain, habenula, pancreas, outflow tract, placenta, prostate, male gonad), suggesting a shared theme of organogenesis rather than a single pathway. The presence of a general transcriptional regulation term adds a note on regulatory control during development. ","confidence":"Medium","size":28,"edges":6,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":9},{"id":"GO:0061113","count":8},{"id":"GO:0035264","count":8},{"id":"GO:0003148","count":7}]},{"hash":"1659644796747680754","title":"Cell signaling and endocytosis","description":"The top terms cluster around cellular communication and trafficking\u2014endocytosis, B cell receptor signaling, integrin signaling, and nitric oxide biosynthesis\u2014along with neural development processes like synapse assembly and nervous system development. While a minor term (wybutosine biosynthesis) is different, the dominant pattern is signaling and membrane trafficking across immune and neural contexts, supporting this label.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0007596","count":2},{"id":"GO:0007229","count":2},{"id":"GO:0045429","count":2}]},{"hash":"2084800180345960612","title":"Skeletal muscle development and sarcomere organization","description":"Top terms center on skeletal muscle differentiation, muscle fiber and tissue development, and sarcomere organization, with ubiquitin\u2011dependent proteolysis indicating protein turnover relevant to muscle remodeling; a few terms appear incidental (e.g., swimming, renal ion transport).","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0035914","count":7},{"id":"GO:0031397","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0070294","count":6}]},{"hash":"1248554835594072285","title":"Mitochondrial translation and protein import","description":"The cluster shows enrichment for mitochondrial-specific processes: mitochondrial translation and protein import into the mitochondrial matrix, along with protein folding and oxidative stress response (cellular response to hydrogen peroxide). These together point to mitochondrial protein homeostasis and synthesis as the core theme of this group, with a few additional, less connected terms reflecting broader cellular regulation or developmental processes. Confidence in this thematic label is moderate, since not all top terms align perfectly, but the mitochondrial translation/import signals are the strongest pattern.","confidence":"Medium","size":28,"edges":298,"triangles":2255,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0070301","count":3},{"id":"GO:0006457","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0050790","count":2},{"id":"GO:0032543","count":2}]},{"hash":"2217921332892490617","title":"Chemical stress response and detoxification","description":"The proteins cluster around chemical stimulus responses: xenobiotic stimulus, toxic substances, ethanol, estradiol, and oxidant detoxification, along with xenobiotic transmembrane transport. The combination of transport and redox detox pathways points to a coherent theme of cellular defense against chemical stress and xenobiotic exposure.","confidence":"High","size":28,"edges":15,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":4},{"id":"GO:0009636","count":4},{"id":"GO:0045471","count":4},{"id":"GO:0071805","count":3},{"id":"GO:0055114","count":3}]},{"hash":"1783671595421649811","title":"Immune signaling and inflammation regulators","description":"The top GO terms point to immune/inflammatory roles (production of inflammatory mediators, positive regulation of chemokine production, negative regulation of fibroblast apoptosis), suggesting these proteins participate in immune signaling and inflammatory regulation. While a couple of terms related to neural signaling (synapse assembly) and chromatin modification appear, they are fewer and less representative. The mix indicates a broad regulatory cluster rather than a single cohesive pathway, so the label reflects the prominent immune/inflammatory theme with moderate confidence.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0070940","count":2},{"id":"GO:0016569","count":1},{"id":"GO:0043486","count":1}]},{"hash":"594464888138402222","title":"Rho GTPase signaling regulators","description":"The terms point to regulation of GTPase activity and Rho signaling, along with kinase activity and development-related processes, suggesting this cluster comprises proteins that broadly modulate signaling pathways affecting cytoskeletal dynamics and tissue development.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0071902","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0043129","count":2}]},{"hash":"1698017113965536920","title":"Developmental and Immune Signaling Proteins","description":"The top GO terms span organ development (multicellular organism, skeletal system, forebrain, neuron projection, lens fiber differentiation) and immune signaling (B cell receptor signaling, cytokine production) as well as vesicle trafficking (COPII-coated vesicle budding). This suggests a broad set of proteins involved in developmental programs across tissues with concurrent roles in immune communication and trafficking, rather than a single specific pathway. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0031175","count":4},{"id":"GO:0030900","count":4}]},{"hash":"1207724054350049186","title":"Developmental Transcription Regulation and Tissue Remodeling","description":"The cluster is enriched for regulation of transcription by RNA polymerase II (both positive and negative), along with developmental terms (midbrain development, post-embryonic development) and tissue remodeling-related processes (elastin catabolic process, smooth muscle cell\u2013matrix adhesion, tissue remodeling). This points to a cohesive theme of developmental gene expression control coupled with extracellular matrix turnover and remodeling, possibly in vascular or organ development; the digestion and blood coagulation signals may reflect ancillary processes linked to remodeling/wound healing. ","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":12},{"id":"GO:0045944","count":11},{"id":"GO:0007586","count":11},{"id":"GO:2000097","count":10}]},{"hash":"877630923021028360","title":"Neural crest development and craniofacial morphogenesis","description":"The strongest signals are neural crest cell differentiation and embryonic cranial skeleton morphogenesis, pointing to a developmental cluster centered on neural crest\u2013derived craniofacial formation. Other terms like transcription and proteolysis align with general developmental regulation, while immune-related terms appear as less central context. ","confidence":"Medium","size":28,"edges":20,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071407","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0009253","count":3},{"id":"GO:0090200","count":2},{"id":"GO:0048701","count":2}]},{"hash":"741842413579344396","title":"Ubiquitin-Dependent Protein Turnover","description":"This cluster's top GO terms are dominated by ubiquitination and proteolysis (ubiquitin-dependent protein catabolic process, protein ubiquitination, polyubiquitination), indicating a shared function in tagging proteins for degradation. Additional terms point to roles in circadian rhythm regulation, innate immune response, and development (nervous system, skeletal muscle, B cell signaling), which often involve ubiquitin-mediated signaling and turnover. Overall the pervasive ubiquitination-related terms suggest a coherent theme of protein turnover through ubiquitin tagging, with ancillary involvement in signaling and development pathways.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0008285","count":7},{"id":"GO:0051436","count":7},{"id":"GO:0000209","count":7},{"id":"GO:0016567","count":6}]},{"hash":"1442280635388009089","title":"Secretory inflammatory mediators","description":"This cluster is driven by terms tied to producing inflammatory mediators and chemokines (GO:0002532, GO:0090197) and by secretory pathway processes such as COPII-coated vesicle budding (GO:0090114), plus protein turnover via SCF-dependent proteasomal degradation (GO:0031146). Together, these suggest a common theme of generating and secreting inflammatory signals, with some related growth/development terms appearing as secondary signals. Confidence: Medium.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0002532","count":3},{"id":"GO:0090197","count":3},{"id":"GO:0005975","count":3},{"id":"GO:0006032","count":3},{"id":"GO:0035264","count":2}]},{"hash":"1050171359994010169","title":"ER-Golgi Vesicle Transport and Lysosome Targeting","description":"The top GO terms point to intracellular vesicle trafficking, especially ER-to-Golgi (anterograde) and Golgi-to-ER (retrograde) transport, plus targeting to vacuoles/lysosomes, indicating a cohesive theme of vesicle transport machinery and organelle targeting. Some terms (brain development, pigmentation, apoptosis) are less directly related and may reflect broader functional associations, but the dominant signal is ER-Golgi/lysosome-related trafficking. ","confidence":"High","size":28,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0048490","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0006623","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0043473","count":3}]},{"hash":"934879392846063407","title":"Ubiquitin-Dependent Proteolysis and Ubiquitination Regulation","description":"The top GO terms are dominated by ubiquitin-related processes, including ubiquitin-dependent protein catabolic process, negative regulation of protein ubiquitination, and K33-linked ubiquitination, pointing to a core theme of ubiquitin-mediated protein turnover and signaling. Other terms (germinal center formation, blood coagulation, skeletal muscle development) are more diverse and likely reflect pleiotropy or annotation noise rather than a single shared pathway. Therefore, the label emphasizes the ubiquitin-centric functions seen in the cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0002467","count":4},{"id":"GO:0007596","count":3},{"id":"GO:0031397","count":3},{"id":"GO:2000312","count":3}]},{"hash":"2241706780302768398","title":"Unknown","description":"The top GO terms cover diverse processes (apoptosis, innate immunity, transcription, lysosome localization, DNA damage response, GTPase regulation, and various development/morphogenesis terms) across different species. Because these functions do not point to a single cohesive biological theme for the cluster, there isn't a clear, representative label beyond Unknown.","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0061462","count":2},{"id":"GO:0006977","count":2}]},{"hash":"400771488932292701","title":"Developmental signaling and neural cytoskeletal dynamics","description":"Reasoning: The GO terms center on development (heart, multicellular organism) and neural processes (visual perception, neuron projection development) and are complemented by cytoskeletal and signaling activities (microtubule polymerization, intracellular signal transduction, GTPase regulation). This suggests a cohesive theme of developmental signaling linked to neural differentiation and cytoskeletal remodeling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046785","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0043547","count":2}]},{"hash":"1675962005749921118","title":"Membrane receptor signaling and endosomal transport","description":"This cluster centers on signaling at the cell surface and intracellular trafficking. Top terms include cell surface receptor signaling pathway and multiple signaling pathways (Notch, VEGF, integrin), plus regulation of cell motility, indicating coordinated membrane signaling. Other terms point to vesicle trafficking, such as protein localization to lysosome and endosome-to-melanosome transport, suggesting a shared role in routing signaling cargo through endosomal/lysosomal pathways. Overall, the proteins likely participate in membrane signaling coupled with trafficking processes that modulate signaling outcomes.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010940","count":2},{"id":"GO:1901223","count":2},{"id":"GO:0043128","count":2},{"id":"GO:2000145","count":2},{"id":"GO:1900746","count":2}]},{"hash":"813977948150196789","title":"Bacterial lipid uptake and secondary metabolite biosynthesis","description":"The cluster shows strong enrichment for fatty acid import/transport (long-chain and medium-chain), fatty acid biosynthetic processes, and related catabolic pathways (malonate, phenylacetate), along with biosynthesis of siderophores and menaquinone. This indicates a bacterial metabolic module that links lipid uptake with production of secondary metabolites and cofactors, consistent with a biosynthetic and transport-focused core, with bioluminescence reflecting association with luminescent bacterial systems. ","confidence":"Medium","size":27,"edges":261,"triangles":1484,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0044539","count":10},{"id":"GO:0090410","count":10},{"id":"GO:0006633","count":10},{"id":"GO:0010124","count":10},{"id":"GO:0009698","count":10}]},{"hash":"1247340058974865800","title":"cGMP/guanylate cyclase signaling cluster","description":"The dominant theme is cyclic GMP signaling and guanylate cyclase activity, supported by terms like cGMP biosynthetic process, receptor guanylyl cyclase signaling, and related intracellular signal transduction. Additional hints from adrenergic receptor signaling and transcription regulation suggest a broader signaling network, with hypoxia detection likely as a stress cue within this pathway.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0051092","count":11},{"id":"GO:0035556","count":11},{"id":"GO:0033138","count":10},{"id":"GO:0006182","count":10},{"id":"GO:0030828","count":10}]},{"hash":"1184086074597663312","title":"Dopaminergic Neuron Development and Synaptic Regulation","description":"This cluster centers on dopaminergic neuron development and synaptic signaling: substantia nigra development, dopamine uptake regulation, long-term synaptic plasticity, and ERK signaling are prominent GO terms. The presence of cell junction and endothelial barrier terms may reflect brain vasculature context in nigrostriatal circuits, reinforcing a theme of dopaminergic neuron maturation and synaptic function within the brain.","confidence":"Medium","size":27,"edges":243,"triangles":1108,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034332","count":5},{"id":"GO:0061028","count":5},{"id":"GO:0051586","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0021762","count":5}]},{"hash":"2149567709883719148","title":"ER stress\u2013driven transcription and development signals","description":"The top GO terms cluster around RNA polymerase II\u2013driven transcription and its regulation, especially in the context of endoplasmic reticulum stress and nutrient responses, with several development-related processes (placenta, liver regeneration, salivary gland development). This suggests a cohesive theme of transcriptional control under ER stress with developmental implications. ","confidence":"High","size":27,"edges":348,"triangles":2851,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0045669","count":9},{"id":"GO:0071353","count":9},{"id":"GO:0006351","count":8},{"id":"GO:1990440","count":8}]},{"hash":"2029798017172754926","title":"Cell Proliferation and Development","description":"The cluster centers on DNA replication and mitotic cell-cycle transitions, indicating proliferative capacity, while also including terms for nervous system development and hematopoiesis, suggesting concurrent differentiation processes. Additional terms related to nitric oxide response, lipopolysaccharide response, and ubiquitin-mediated catabolism imply regulatory/stress contexts rather than a single pathway.","confidence":"Medium","size":27,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0007399","count":4},{"id":"GO:0071732","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1359110603009298049","title":"Multisystem Development and Signaling","description":"This cluster's GO terms span transcription regulation, developmental processes (skeletal, melanocyte migration, axon guidance), immune signaling (B cell receptor signaling, IL-12 response), and signaling pathways (PI3K-AKT), plus ion transport. The wide spread across tissues and pathways suggests no single cohesive function, hence a general multisystem signaling/development label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":6},{"id":"GO:0001501","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0097324","count":4},{"id":"GO:0050853","count":4}]},{"hash":"144130607044471816","title":"Endothelial Barrier Regulation and Coagulation Signaling","description":"Top GO terms point to endothelial barrier establishment, blood coagulation, and fibrinogen regulation as central functions, with Wnt signaling and development terms providing a developmental signaling context. Inflammation and metabolism-related responses (lipopolysaccharide, glucose stimulus) are present but secondary, consistent with cross-talk between vascular function and immune/metabolic signaling. Overall, the cluster best reflects vascular development and coagulation processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":16},{"id":"GO:0030901","count":12},{"id":"GO:0032496","count":12},{"id":"GO:1903142","count":9},{"id":"GO:0035264","count":9}]},{"hash":"2162436627278839199","title":"Immune Modulation and Dopamine Signaling","description":"The set of top GO terms is dominated by immune-related processes (immune response, negative regulation of inflammatory response, T cell chemotaxis) and neural signaling via dopamine pathways (adenylate cyclase-activating dopamine receptor signaling, response to amphetamine). While terms related to photoreceptor maintenance and light absorption appear, the strongest and most coherent theme across the cluster is immune modulation linked with dopaminergic signaling, suggesting proteins involved in coordinating immune responses with neural signaling. Confidence: Medium.","confidence":"","size":27,"edges":6,"triangles":2,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019076","count":6},{"id":"GO:0006955","count":5},{"id":"GO:0045494","count":5},{"id":"GO:0050728","count":4},{"id":"GO:0007191","count":4}]},{"hash":"773969987009622602","title":"Ubiquitination and circadian regulation","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process, negative regulation of protein ubiquitination, K33-linked ubiquitination) and a term for circadian rhythm regulation, pointing to a core theme of ubiquitin-mediated protein turnover with circadian control. While there are some muscle and kidney development and signaling terms present, they appear ancillary to the main ubiquitination/circadian axis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0042752","count":7},{"id":"GO:0031397","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0070294","count":6}]},{"hash":"900621361788140169","title":"Zebrafish muscle development and neuromuscular signaling","description":"The top GO terms cluster around skeletal muscle differentiation and muscle fiber development, plus locomotion and neurosensory development (swimming and anterior lateral line development). Additional terms point to neuronal/synaptic regulation and general protein regulation, which can support muscle and neuromuscular function. Some annotations appear peripheral or species-spanning, but the core signal is muscle development with related neuromuscular processes.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035914","count":4},{"id":"GO:0048899","count":3},{"id":"GO:0031397","count":3},{"id":"GO:1900242","count":3},{"id":"GO:2000312","count":3}]},{"hash":"705041703787769857","title":"Neural and cardiac development with neuronal apoptosis","description":"The Top Terms point to nervous system development, hippocampus development, and heart development, indicating a developmental theme with tissue differentiation in neural and cardiac contexts. Additional terms about neuron apoptotic regulation and apoptotic DNA fragmentation reinforce a focus on cell fate decisions in neurons. Immune signaling terms and NF-kappaB-related activity appear secondary and not central to the main theme. Overall, the cluster seems to reflect neural and cardiac development with neuronal apoptosis as a unifying thread.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0035234","count":3},{"id":"GO:0021766","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0046007","count":3}]},{"hash":"2067376779694569294","title":"Neural and endocrine development with ECM remodeling","description":"The cluster\u2019s top terms point to development of neural (midbrain) and endocrine (pituitary) tissues, coupled with extracellular matrix remodeling (tissue remodeling, elastin catabolic process, regulation of cell-matrix adhesion). The concurrent immune/inflammatory signals (response to LPS, chemokine production regulation, coagulation) suggest a broader development-associated remodeling module with inflammatory/repair involvement.","confidence":"Medium","size":27,"edges":6,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0030901","count":11},{"id":"GO:0032496","count":10},{"id":"GO:0021983","count":7},{"id":"GO:2000097","count":7}]},{"hash":"801895542182297452","title":"Vascular ECM remodeling and coagulation","description":"This cluster centers on extracellular matrix remodeling and vascular-associated processes: tissue remodeling, elastin catabolic activity, and smooth muscle cell\u2013matrix adhesion point to vascular remodeling, while blood coagulation and classical complement activation indicate coagulation and innate immune involvement. The NF-kappaB regulation term suggests inflammatory signaling that can accompany vascular remodeling. A few mitochondrial assembly terms are present but do not define the core theme, making a vascular remodeling/coagulation interpretation the most coherent. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009791","count":2},{"id":"GO:0033617","count":2},{"id":"GO:0032981","count":1},{"id":"GO:0043123","count":1},{"id":"GO:2000097","count":1}]},{"hash":"1984266638362875267","title":"Synaptic vesicle trafficking and dendrite development","description":"The proteins cluster around presynaptic vesicle processes (maturation and priming) and intracellular transport, plus signals related to dendrite extension and neuronal development. This combination suggests a module focused on synaptic vesicle handling and neuronal process growth, with supporting membrane signaling pathways (PI signaling, Hedgehog/Smoothened) that often intersect with neuronal maturation and trafficking. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":4},{"id":"GO:0048015","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0061511","count":3}]},{"hash":"273688960020530140","title":"Nematode development and reproduction","description":"The top GO terms cluster around nematode-specific developmental and reproductive processes, including maternal axis specification, fertilization and polyspermy prevention, embryogenesis, pharyngeal pumping, and molting/cuticle formation, with some associated tissue growth regulation. This indicates the proteins function together in the nematode life cycle, spanning early development to later morphogenesis and feeding. ","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":3},{"id":"GO:2000360","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0043050","count":3},{"id":"GO:0035124","count":3}]},{"hash":"1944843474178715228","title":"Developmental transcriptional regulation and hemostasis","description":"The top GO terms show strong emphasis on regulation of transcription by RNA polymerase II (both positive and negative), together with organogenesis signals (pancreas morphogenesis, midbrain development, multicellular growth) and hemostasis processes (blood coagulation, fibrinogen regulation, fibrinolysis), suggesting a cluster of proteins involved in developmental regulation with links to vascular/coagulation pathways.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0061113","count":14},{"id":"GO:0035264","count":14},{"id":"GO:0030901","count":14},{"id":"GO:0045944","count":14}]},{"hash":"1613118778219887378","title":"Blood coagulation and immune defense cluster","description":"The top GO terms indicate strong signals for coagulation (blood coagulation, regulation of fibrinogen, biomineral tissue development) and immune defense (complement activation via lectin pathway, defense response to fungus), suggesting a module of proteins involved in hemostasis and innate immunity, with some auxiliary developmental signaling terms. ","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031214","count":7},{"id":"GO:0030194","count":7},{"id":"GO:0000122","count":6},{"id":"GO:0001867","count":6},{"id":"GO:0050832","count":6}]},{"hash":"1388266743075290960","title":"Cardiovascular GPCR signaling and prostaglandin response","description":"This cluster centers on GPCR signaling (adrenergic pathway, GPCR internalization) and prostaglandin-related responses, with terms like prostaglandin E stimulus, cAMP signaling, heart development, and vasoconstriction highlighted. While some terms (e.g., visual perception, bone remodeling) are less directly connected, the dominant theme is GPCR/cAMP signaling linked to cardiovascular and prostanoid pathways.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032720","count":3},{"id":"GO:0071880","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0046849","count":3}]},{"hash":"715179429918180788","title":"GPCR-mediated cAMP/cGMP signaling","description":"The dominant GO terms point to GPCR signaling pathways, adenylate cyclase activation, cAMP biosynthesis, and related intracellular signal transduction, including forskolin response and receptor guanylyl cyclase signaling. Together these suggest a cohesive module centered on cyclic nucleotide signaling downstream of GPCRs, with transcriptional regulation as a downstream effect. ","confidence":"High","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071880","count":25},{"id":"GO:0035556","count":25},{"id":"GO:0007168","count":25},{"id":"GO:1904322","count":25},{"id":"GO:0006171","count":25}]},{"hash":"2164051334716360000","title":"Cell signaling and adhesion","description":"These proteins map to multiple signaling-related processes: phosphorylation signaling, ephrin receptor signaling, T cell receptor signaling, exocytosis, and PI3K activity, along with cellular responses to dopamine, LPS, and amino acid starvation, plus regulation of focal adhesion and axon extension. The shared theme is broad cell communication and adhesion across immune and neural contexts. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033138","count":23},{"id":"GO:1903351","count":23},{"id":"GO:0071222","count":23},{"id":"GO:0048013","count":23},{"id":"GO:0051893","count":23}]},{"hash":"437225202236912227","title":"Cardiac signaling and vascular regulation","description":"The top GO terms cluster around heart development and vascular functions (heart development; vasoconstriction; prostaglandin response) and signaling processes (GPCR internalization; ERK cascade; PI biosynthesis), with an accompanying immune/inflammatory modulation signal. While a dopamine uptake term appears, the dominant theme is cardiovascular signaling and regulation, with inflammation as a modulatory layer. ","confidence":"High","size":26,"edges":6,"triangles":0,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051586","count":9},{"id":"GO:0008283","count":9},{"id":"GO:0010513","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0071380","count":9}]},{"hash":"664656950223626889","title":"Neural development and synaptic signaling","description":"The terms show a prominent emphasis on nervous system development (GO:0007399), synaptic protein localization (GO:0035418), sensory perception of pain, and cellular response to dopamine, pointing to a cluster centered on neural development and synaptic signaling. Some terms also reflect broader developmental processes like heart development and angiogenesis, suggesting pleiotropy, but the neural/synaptic theme is strongest.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050830","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0071333","count":8},{"id":"GO:0045766","count":7},{"id":"GO:0007275","count":6}]},{"hash":"850753742780657309","title":"Developmental transcriptional regulation","description":"The cluster's top terms center on DNA-templated transcription and negative regulation of transcription by RNA polymerase II, paired with multiple developmental processes (embryonic eye morphogenesis, heart development, placenta, vagina). This pattern suggests proteins involved in regulating gene expression during development, such as transcription factors or regulators, with some ancillary signaling-response terms (lipopolysaccharide and retinoic acid) that are less central. ","confidence":"Medium","size":26,"edges":36,"triangles":1,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0045444","count":5}]},{"hash":"1397294433909497131","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045332","count":2},{"id":"GO:0050718","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0048484","count":2},{"id":"GO:0033153","count":2}]},{"hash":"1972536676610433304","title":"Chemokine-driven inflammation with calcium signaling","description":"This cluster is dominated by GO terms for inflammatory mediator production and positive regulation of chemokine production, indicating an immune/inflammatory signaling theme. The presence of calcium transport and store-operated calcium entry terms suggests associated calcium signaling roles in these inflammatory processes, with some metabolism terms likely peripheral. Overall, the core signal points to chemokine-driven inflammatory signaling linked to calcium dynamics.","confidence":"Medium","size":26,"edges":28,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002532","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0006816","count":1}]},{"hash":"1479438842739371622","title":"Skeletal muscle development and sarcomere organization","description":"The cluster is enriched for terms tied to muscle structure and development, including sarcomere organization, skeletal muscle fiber development, and heart development, alongside actin filament dynamics and Rho-mediated cytoskeletal signaling. These themes collectively point to proteins involved in muscle cell differentiation and cytoskeletal architecture rather than unrelated processes.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0048741","count":2},{"id":"GO:0008284","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1067255037766588520","title":"Diverse membrane transporters","description":"This cluster is characterized by GO terms for transmembrane transport of a wide range of solutes (sodium, vitamins, sugars, nitrite/nitrate, phosphate, sialic acid, xenobiotics), indicating a shared role in transporting substances across membranes. The lack of edges does not detract from the common function; the proteins appear to be various transporters with broad substrate specificity. ","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0035461","count":3},{"id":"GO:1900754","count":3},{"id":"GO:0015757","count":3},{"id":"GO:0015751","count":3}]},{"hash":"809312011940813081","title":"Ubiquitin-Proteasome\u2013Mediated Proteolysis and Cell Cycle Regulation","description":"The cluster is dominated by GO terms for ubiquitin-dependent degradation (including SCF-dependent proteasomal pathways, and polyubiquitination) and ERAD, indicating the core involvement of the ubiquitin\u2013proteasome system. Additionally, terms related to regulation of the G1/S cell cycle, DNA damage checkpoints, and transcriptional control in G1/S, plus circadian and stress-response connections (cadmium exposure), point to a set of proteins that modulate cell cycle and stress signaling through ubiquitin-mediated proteolysis. Taken together, these annotations describe a cohesive group centered on ubiquitin-dependent proteolysis with downstream impacts on cell cycle regulation and stress responses.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0031146","count":10},{"id":"GO:0000209","count":7},{"id":"GO:0030433","count":7},{"id":"GO:0042752","count":6}]},{"hash":"623534028196417493","title":"Ubiquitin-Proteasome Regulation of Oocyte Maturation","description":"Judging from the top GO terms, the cluster is enriched for ubiquitin-dependent proteolysis (proteasome and SCF complex) and processes tied to meiosis and oocyte maturation (spindle assembly in female meiosis I, oocyte maturation). The recurrent links to ubiquitin-mediated protein catabolism suggest a functional module centered on regulated protein degradation during cell-cycle progression, which is especially critical in oocyte development. While circadian regulation and glycoprotein catabolism appear, the dominant signal points to proteolysis-driven control of cell division and maturation.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0042752","count":12},{"id":"GO:0021993","count":11},{"id":"GO:0051436","count":11},{"id":"GO:0031146","count":11}]},{"hash":"1826624991741245931","title":"Neural signaling and synaptic plasticity","description":"The cluster centers on neuronal communication and plasticity, with terms like regulation of glutamatergic transmission, long-term synaptic plasticity, prepulse inhibition, and sensory/pain processing, suggesting a CNS-focused functional theme. A few terms (angiogenesis, dendritic cell differentiation) are peripheral but do not override the dominant neural signaling signal.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0035584","count":3},{"id":"GO:0001525","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0001975","count":3}]},{"hash":"1801582301823809721","title":"Immune and inflammatory signaling regulators","description":"This cluster shows a strong enrichment for terms related to immune modulation and inflammatory processes (negative regulation of inflammatory response, T cell chemotaxis, CD8+ gamma-delta T cell differentiation, eosinophil extravasation, blood coagulation) with additional signaling terms (dopamine and octopamine/tyramine pathways) suggesting neuromodulatory influences. The combination points to proteins that regulate immune/inflammatory signaling rather than a single cohesive pathway, justifying a label around immune/inflammatory regulation. The sparse connectivity (one edge, no triangles) also supports a collection of regulators rather than a single multi-protein complex.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":20},{"id":"GO:0007191","count":20},{"id":"GO:0001975","count":20},{"id":"GO:0016038","count":20},{"id":"GO:0014829","count":20}]},{"hash":"1513149324285735793","title":"Broad developmental differentiation across tissues","description":"These GO terms point to developmental processes across several tissues (bone/osteoblasts, uterus, parathyroid) and to related cellular differentiation and signaling events (neural projection morphogenesis, synaptic potentiation, B cell signaling). There is no single pathway linking all terms, but the common thread is broad tissue development and differentiation. The cluster likely groups proteins involved in various aspects of growth, tissue specification, and cell junction/transcytosis processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060065","count":4},{"id":"GO:0060017","count":3},{"id":"GO:0002051","count":3},{"id":"GO:0070830","count":3},{"id":"GO:1900273","count":3}]},{"hash":"590344968539770527","title":"Immune and reproductive signaling","description":"The cluster features immune-related signaling terms (positive regulation of TLR2 signaling, T-helper 1 cell differentiation) alongside apoptosis regulation, steroid hormone response, and spermatogenesis, suggesting a module that links immune modulation with male reproductive/hormonal processes. While there is diversity, the strongest common thread appears to be immune signaling with ancillary reproductive/hormonal context.","confidence":"Medium","size":26,"edges":23,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1902042","count":3},{"id":"GO:0048545","count":3},{"id":"GO:0043046","count":2},{"id":"GO:1903672","count":2},{"id":"GO:0034137","count":2}]},{"hash":"2080150260430952019","title":"Embryogenesis and fertilization","description":"This cluster highlights processes related to early development and fertilization, including maternal axis specification, prevention of polyspermy, and embryonic morphogenesis. While some terms touch on broader life-cycle processes (e.g., molting or cuticle formation) these terms cluster around developmental transitions and reproductive events across species, supporting a label focused on embryogenesis and fertilization.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":4},{"id":"GO:2000360","count":4},{"id":"GO:0006508","count":4},{"id":"GO:0043050","count":4},{"id":"GO:0035124","count":4}]},{"hash":"373336376546277405","title":"B cell signaling and germinal center formation","description":"The top GO terms are dominated by B cell receptor signaling, germinal center formation, and dendritic cell differentiation, with supporting terms for T cell selection and cell-cell adhesion, all pointing to adaptive immune activation and lymphoid development. Although a couple of terms relate to broader developmental processes, the strongest signals center on B cell\u2013mediated signaling and germinal center biology, suggesting the cluster reflects adaptive immune function and lymphoid interactions.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0007399","count":2},{"id":"GO:0002467","count":2},{"id":"GO:0060304","count":2}]},{"hash":"1012469578766286703","title":"Inflammation and vascular remodeling signaling","description":"The terms point to inflammation (inflammatory response, NF-kappaB signaling), hypoxia response, proteolysis and tissue remodeling, and vascular-associated processes (platelet regulation, smooth muscle contraction, skeletal development). While some terms reflect broader development, the cluster collectively emphasizes inflammatory and vascular remodeling contexts, justifying this label. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006508","count":3},{"id":"GO:0090331","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0010800","count":3},{"id":"GO:0071456","count":3}]},{"hash":"577213078425532484","title":"Unknown","description":"The GO terms show a broad mix of development across multiple organs (kidney, retina, prostate), together with neural signaling (neuropeptide signaling, sensory perception of pain) and general processes like inflammation and nutrient response. There isn\u2019t a single cohesive function or pathway that ties these terms into a clear, interpretable cluster name, so a safe label is Unknown.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001822","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0007218","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0051260","count":2}]},{"hash":"1361530439923149574","title":"Unknown","description":"The top terms span diverse developmental contexts (immune, nervous, muscular, renal, reproductive) and ubiquitination processes, with no shared pathway or strong functional link, and there are no edges tying the proteins together. Thus there is no clear, coherent theme to name the cluster confidently.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001200","count":4},{"id":"GO:0050853","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0031397","count":3},{"id":"GO:2000312","count":3}]},{"hash":"483893411293194022","title":"Embryogenesis and Reproductive Regulation","description":"This cluster\u2019s top GO terms are strongly centered on embryogenesis and reproductive processes (sperm binding regulation, blastocyst formation, polyspermy prevention, and developmental morphogenesis such as outflow tract and endocardial cushion EMT). While a few terms seem unrelated or noisy (e.g., nematode pharyngeal pumping, bone ossification), the dominant theme points to developmental biology and reproduction. Confidence: Medium","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000360","count":2},{"id":"GO:0001825","count":2},{"id":"GO:0060468","count":2},{"id":"GO:0072218","count":2},{"id":"GO:0003198","count":2}]},{"hash":"886274779569647915","title":"GPCR Signaling in Immune, Vascular, and Vision Pathways","description":"The top terms cluster around G protein-coupled receptor signaling across several contexts: dopamine and octopamine/tyramine pathways, amphetamine response (neurotransmitter signaling), photoreceptor-related light absorption, and immune/vascular processes such as T cell chemotaxis, inflammatory regulation, eosinophil activity, and blood coagulation. This suggests a cohesive theme of GPCR-mediated communication affecting immune, vascular, and sensory functions.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":18},{"id":"GO:0007191","count":18},{"id":"GO:0001975","count":18},{"id":"GO:0016038","count":18},{"id":"GO:0014829","count":18}]},{"hash":"367794254497144218","title":"Ribosome Biogenesis and Cell Cycle Core","description":"The cluster is dominated by GO terms for ribosome biogenesis, translation, DNA replication, and cell cycle/division, suggesting a core growth and proliferation program. Less central terms (proviral latency, DNA integration, symbiont entry) appear peripheral to the main theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0075713","count":3},{"id":"GO:0015074","count":3}]},{"hash":"1583026614173324437","title":"Nematode development and reproduction","description":"The top GO terms cluster around nematode-specific developmental and reproductive processes, including embryogenesis (maternal axis specification, embryonic morphogenesis), fertilization-related regulation (prevention of polyspermy), and the molting/cuticle cycle (molting, cuticulin-based development). The presence of a nematode-specific term (nematode pharyngeal pumping) alongside these suggests a coherent theme of development and reproduction in nematodes, with some general proteolysis and protein quality control reflecting supporting cellular remodeling during these processes. Overall, the terms point to a developmental/reproductive program characteristic of nematodes rather than a single biochemical pathway. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":3},{"id":"GO:2000360","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0043050","count":3},{"id":"GO:0035124","count":3}]},{"hash":"1710429390843839531","title":"Host DNA replication and proviral integration","description":"Top GO terms show a strong emphasis on DNA replication and DNA biosynthesis, including DNA integration and recombination, indicating a core theme of nucleic-acid processing and genome remodeling. The presence of terms about viral entry, proviral latency, and symbiont interactions (entry into host cells, apoptosis activation, plasmodesma organization) suggests the cluster also captures host-pathogen/symbiont interfaces alongside DNA-templated processes. Therefore, the label reflects the central DNA replication/integration activity with related host-interaction processes.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0075732","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3}]},{"hash":"2005016625328787","title":"Ubiquitin-regulated skeletal muscle development","description":"The top GO terms point to ubiquitin-dependent protein catabolic processes and skeletal muscle development, including muscle fiber and tissue development, suggesting a cluster centered on ubiquitination control shaping muscle formation. There are also signals of innate immune signaling and renal-related processes, but they appear secondary to the dominant theme of ubiquitin-mediated regulation in muscle contexts.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0048741","count":5},{"id":"GO:0045087","count":4},{"id":"GO:0031397","count":4},{"id":"GO:2000312","count":4}]},{"hash":"1261378662824885301","title":"Ubiquitin-Proteasome\u2013Mediated Developmental Regulation","description":"The proteins appear linked by the ubiquitin-proteasome system (SCF-dependent ubiquitin tagging and proteolysis, protein polyubiquitination) with several development-related GO terms (BMP signaling, in utero embryonic development, angiogenesis) suggesting they regulate embryonic development and associated processes through targeted protein degradation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:2000312","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0030509","count":3}]},{"hash":"674175376896653216","title":"Nucleolar ribosome biogenesis","description":"The top GO terms cluster around ribosome biogenesis and various transcription activities in the nucleolus, including rRNA transcription by RNA Pol I, tRNA transcription by Pol III, and general transcription activities, plus translation. This indicates a cohesive theme of nucleolar assembly of ribosomes and associated transcription machinery, with a secondary note of broader muscle development signals that may be incidental. Overall, the dominant function is nucleolar ribosome production, making this a coherent label.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0042274","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0017126","count":2},{"id":"GO:0042790","count":2}]},{"hash":"709863707288996814","title":"Neural Development and GABAergic Synaptic Regulation","description":"The top GO terms point to neural development (brain, spinal cord, neural tube closure, neuromuscular junction development) and regulation of synaptic transmission, particularly GABAergic, with accompanying signals in Rho/GTPase pathways and extrinsic apoptotic signaling. These together suggest a cluster of proteins involved in nervous system development and modulation of synaptic signaling, rather than general metabolism or immune functions. The eye pigment granule term appears less connected, acting as a minor outlier. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007528","count":2},{"id":"GO:0008057","count":2},{"id":"GO:0001843","count":2},{"id":"GO:0007406","count":2}]},{"hash":"1472491159964478883","title":"Diverse specialized metabolite biosynthesis","description":"The top GO terms point to a range of biosynthetic processes for specialized metabolites (antibiotics, tropane alkaloids, retinoids, phylloquinone) and lipids (fatty acid and sphingolipid biosynthesis), plus sporulation-related formation. This spread suggests a cluster centered on general secondary metabolism rather than a single, narrow function, so a label noting diverse biosynthetic roles is most representative.","confidence":"Medium","size":25,"edges":144,"triangles":344,"max_degree":19,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0017000","count":12},{"id":"GO:0042574","count":10},{"id":"GO:0002138","count":10},{"id":"GO:0030497","count":10},{"id":"GO:0046677","count":10}]},{"hash":"271521743777530849","title":"B cell receptor signaling and JNK/MAPK pathway","description":"The top GO terms cluster around B cell receptor signaling, PI3K/AKT signaling, JNK cascade, and tyrosine phosphorylation, with NK T cell differentiation also represented, indicating a cohesive immune receptor\u2013signaling module feeding into MAPK/JNK pathways. The neuron development term is likely an annotation cross-over rather than a primary function here.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0050853","count":22},{"id":"GO:0043491","count":21},{"id":"GO:0070671","count":21},{"id":"GO:0007257","count":21},{"id":"GO:0033138","count":21}]},{"hash":"235786876389651406","title":"Neuronal vesicle trafficking and brain development","description":"The proteins show enrichment for vesicle transport between ER, Golgi, endosomes, and related compartments (ER-Golgi, Golgi-ER, endosome to melanosome, plasma membrane to endosome) and for neural development processes (axon guidance, brain development). This combination suggests a cluster of proteins primarily involved in intracellular vesicle trafficking in neural contexts, with related roles in growth and cytoskeletal regulation.","confidence":"High","size":25,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":7},{"id":"GO:0007411","count":5},{"id":"GO:0051496","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0007420","count":5}]},{"hash":"1662663332724693744","title":"Unknown","description":"The GO terms span plants and animals, including brassinosteroid homeostasis, vitamin D and ozone responses, detoxification, and organ development, with no single shared function tying all proteins together.","confidence":"","size":25,"edges":16,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":13},{"id":"GO:0010193","count":12},{"id":"GO:0010268","count":12},{"id":"GO:0010760","count":12},{"id":"GO:0010430","count":12}]},{"hash":"601251511769567286","title":"Developmental organ morphogenesis and gene regulation","description":"Top GO terms indicate broad involvement in embryonic organ development (midbrain, neural crest, heart, pancreas, digestive tract) and morphogenesis, coupled with transcriptional regulation by RNA polymerase II. This points to a cohesive cluster of proteins guiding developmental programs and their control rather than a single pathway, with a few outliers (fertilization, immunoglobulin production) present but not central. Therefore, this label best reflects the main function of the cluster.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":9},{"id":"GO:0061551","count":8},{"id":"GO:0007338","count":8},{"id":"GO:0001755","count":6}]},{"hash":"844975939808782944","title":"Retinoid and Steroid Biosynthesis","description":"The top terms show strong signals for retinoid metabolism (retinol, retinal, retinoic acid) and steroid-related biosynthesis (testosterone, androgen metabolism), with an additional hint of fatty acid elongation. While a few terms pertain to other secondary metabolites (antibiotics, anthocyanins), the dominant pattern points to biosynthesis of retinoids and steroids, supported by broader lipid metabolism. This makes a focused label preferable over a generic metabolic cluster.","confidence":"Medium","size":25,"edges":193,"triangles":646,"max_degree":20,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0042574","count":10},{"id":"GO:0061370","count":10},{"id":"GO:0042572","count":10},{"id":"GO:0008209","count":10}]},{"hash":"1761343069982874076","title":"Neural sensory and mucosal immune signaling","description":"This cluster shows enrichment across sensory and neural processes (temperature and light perception, pain), dopamine signaling, and responsiveness to stimuli, coupled with mucosal immune functions (intraepithelial T cell differentiation) and secretory/vascular activity (saliva secretion, smooth muscle contraction). The common thread appears to be neural-sensory regulation of mucosal physiology and associated immune responses, rather than a single isolated pathway.","confidence":"Medium","size":25,"edges":94,"triangles":77,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":21},{"id":"GO:0019233","count":21},{"id":"GO:0046541","count":21},{"id":"GO:0002024","count":21},{"id":"GO:0050728","count":20}]},{"hash":"1650815562435433631","title":"Immune signaling and angiogenesis","description":"The cluster shows enrichment for innate immune response and T cell receptor signaling, along with angiogenesis and its positive regulation, suggesting immune activation linked to vascular remodeling. Ion transport and PI3K-signaling-related terms indicate membrane signaling contexts common to these processes, supporting a cohesive immune-angiogenic signaling theme. Confidence: Medium","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035725","count":6},{"id":"GO:0071805","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0001525","count":5},{"id":"GO:0048169","count":5}]},{"hash":"140958935604689242","title":"Pain and temperature neural signaling","description":"The cluster shows strong enrichment for GO terms tied to nociception and thermoregulation (cellular response to temperature stimulus, sensory perception of pain, diet-induced thermogenesis) and core neural signaling processes (regulation of membrane potential, glutamatergic transmission, prepulse inhibition, sensory perception regulation). Together these suggest a coherent theme of neural pathways governing pain, temperature sensing, and sensory gating. Confidence: High","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0002024","count":16},{"id":"GO:0001975","count":13},{"id":"GO:0051930","count":13}]},{"hash":"1346227986589799237","title":"Mitotic spindle assembly and cell cycle","description":"Dominant GO terms center on mitotic cell cycle, cell division, and mitotic spindle assembly, indicating the proteins in this cluster are primarily involved in mitosis. While there are additional terms related to mRNA processing and transport, they are less representative of the core function. Therefore, the label reflects the primary theme of mitotic progression and spindle formation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0030433","count":4},{"id":"GO:0000398","count":4}]},{"hash":"1157983472942097049","title":"Ubiquitination regulation and proteolysis","description":"The top GO terms show strong enrichment for ubiquitin-related processes (negative regulation of ubiquitination, ubiquitin-dependent protein catabolic process, and K33-linked ubiquitination), indicating the cluster is centered on ubiquitin signaling and protein degradation. Other terms (GTPase regulation and muscle development) are present but less dominant, so the core theme is ubiquitination pathways.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0031397","count":4},{"id":"GO:2000312","count":3},{"id":"GO:0070294","count":3},{"id":"GO:0045496","count":3}]},{"hash":"820849513313741946","title":"Neural and Cardiac Development Regulators","description":"Based on the GO terms, the cluster centers on transcriptional control and cell proliferation (DNA-templated transcription, mitotic cell cycle) and includes neural development signals (axonogenesis, long-term synaptic potentiation, excitatory postsynaptic potential) alongside heart-related processes (regulation of heart rate, heart development). This suggests a group of proteins coordinating transcriptional programs during neural and cardiac tissue development. An ABA signaling term appears as an outlier, possibly annotation noise. ","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0007409","count":4},{"id":"GO:0002027","count":4},{"id":"GO:0060291","count":4}]},{"hash":"392894598395093017","title":"Unknown","description":"The top GO terms are highly diverse, spanning prostate and male reproductive development, brain region development (striatum, thalamus), photosynthesis, interferon response, and miscellaneous regulatory terms, with several obsolete entries and no shared molecular function or pathway tying the proteins together. Therefore no coherent cluster label can be assigned.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0006463","count":5},{"id":"GO:0071357","count":5},{"id":"GO:0030850","count":5},{"id":"GO:0046661","count":5}]},{"hash":"246750286207595031","title":"DNA replication and biosynthesis cluster","description":"Most terms point to DNA biosynthetic process and replication (GO:0071897, GO:0006260), with additional connection to viral DNA genome replication (GO:0039693) and related nucleic acid metabolism. A few plant-development terms (root hair, seed coat mucilage, epithelium polarity) appear to be incidental annotations of proteins within the cluster rather than the core theme. Overall, the dominant theme is DNA synthesis/replication and associated transcriptional regulation, supporting a cohesive label focused on DNA biogenesis.","confidence":"Medium","size":25,"edges":27,"triangles":16,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0071897","count":5},{"id":"GO:0090305","count":4},{"id":"GO:0039693","count":4},{"id":"GO:0075015","count":3},{"id":"GO:0006260","count":3}]},{"hash":"2270983228676469834","title":"Ribosome Biogenesis and Nucleolar Transcription","description":"The cluster is enriched for ribosome biogenesis and nucleolar transcription activities (including RNA Pol I, II, and III), along with cytoplasmic translation and related cell cycle processes, suggesting a coherent role in ribosome assembly and nucleolar function.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":7},{"id":"GO:0002181","count":4},{"id":"GO:0017126","count":4},{"id":"GO:0042274","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1662705608552025759","title":"Mitotic Regulation and Cell Proliferation","description":"The prominent GO terms center on cell division, regulation of proliferation, and spindle/apc-related mitotic control, suggesting a core theme of mitosis and cell-cycle regulation for this cluster. Some other terms appear more general or unrelated (translation initiation, GTPase activity, nuclear pore localization, pigmentation), but the mitosis-related signals dominate, supporting this label.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008284","count":4},{"id":"GO:0051301","count":3},{"id":"GO:0030433","count":3},{"id":"GO:1902426","count":3},{"id":"GO:0031145","count":3}]},{"hash":"584851014723468145","title":"Immune activation and chemokine production","description":"The top GO terms point to inflammatory and immune processes: production of mediators in inflammatory response, positive regulation of chemokine production, immunoglobulin-mediated immune response, and activation of T cell proliferation. While some metabolic terms appear, the dominant signal is immune activation and chemokine signaling, suggesting these proteins cluster around immune/inflammatory functions. The lack of network edges does not negate this theme; it may reflect dispersed connectivity but a cohesive functional annotation across the proteins.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006032","count":5},{"id":"GO:0002532","count":4},{"id":"GO:0090197","count":4},{"id":"GO:0005975","count":4},{"id":"GO:0016064","count":2}]},{"hash":"639511697248928833","title":"Ion Transport and Muscle Contraction","description":"This cluster is dominated by GO terms for transmembrane ion transport (sodium and potassium) and calcium release into the cytosol, with strong ties to cardiac muscle contraction and heart development, plus related movement processes like peristalsis and locomotory behavior. The recurring theme is ion flux across membranes driving muscle activity and movement, with some additional transport-related functions. ","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035725","count":5},{"id":"GO:0071805","count":5},{"id":"GO:0055117","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0030432","count":4}]},{"hash":"1795165101026055474","title":"Ubiquitin-proteasome regulation in meiosis and development","description":"The cluster is dominated by ubiquitin-dependent proteolysis terms (e.g., ubiquitin-dependent protein catabolic process; SCF-dependent proteasomal ubiquitin-dependent protein catabolic process) along with meiosis-related processes such as oocyte maturation and spindle assembly in female meiosis I, and microtubule polymerization. Additional terms touch on circadian rhythm regulation and neural development (third ventricle development, initiation of neural tube closure), suggesting a common theme of regulated protein turnover coordinating meiotic events and early development. Confidence reflects the coherent linkage among these processes, hence a High score.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0042752","count":11},{"id":"GO:0031146","count":8},{"id":"GO:0007057","count":7},{"id":"GO:0008285","count":7}]},{"hash":"282025218769985327","title":"Developmental Signaling and Morphogenesis","description":"The terms cluster around multicellular development, heart and nervous system development, and cell morphogenesis, with supporting roles for GTPase signaling, PI3K-related regulation, and various cellular processes (apoptosis, cell cycle, ion transport). This suggests a general theme of signaling pathways governing developmental morphogenesis across tissues.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0006915","count":4},{"id":"GO:0043552","count":4}]},{"hash":"1145777488455386259","title":"Amino acid and vitamin biosynthesis cluster","description":"This cluster is enriched for biosynthetic processes across several amino acids (alanine, tyrosine, kynurenine/kynurenic acid), metabolic pathways (pyruvate), and vitamins/cofactors (biotin, cobalamin) as well as a porphyrin precursor, suggesting a core theme of metabolic biosynthesis; the presence of DNA-templated transcription and Notch signaling hints at regulatory proteins mixed in, but metabolism-related terms predominate.","confidence":"Medium","size":24,"edges":83,"triangles":274,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":9},{"id":"GO:0097053","count":8},{"id":"GO:0007219","count":8},{"id":"GO:0009102","count":6},{"id":"GO:0006351","count":6}]},{"hash":"318637048672506280","title":"Dopaminergic GPCR Signaling in Cardiovascular Regulation","description":"This cluster is dominated by GO terms around GPCR signaling that activates adenylate cyclase, notably dopamine receptor signaling and related pathways, which tie closely to vascular smooth muscle contraction and blood pressure regulation. The presence of terms like response to amphetamine and blood pressure modulation supports a dopaminergic/adrenergic signaling theme impacting cardiovascular function. Some terms (electron transport chain, light absorption, immune-related differentiation) are peripheral, but the core pattern centers on GPCR-AC signaling and vascular regulation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":23},{"id":"GO:0007190","count":23},{"id":"GO:0010579","count":23},{"id":"GO:0045777","count":23},{"id":"GO:0050728","count":22}]},{"hash":"1219380907321701557","title":"Neural and vascular development","description":"The terms cluster around nervous system development (inner ear, brain) and synapse formation, plus adhesion and extracellular matrix signaling (cadherin-mediated adhesion, ECM signaling), alongside angiogenesis and endothelial barrier regulation. This points to coordinated development and signaling across neural and vascular tissues, rather than a single pathway, with some remodeling and maturation aspects implied by complement activation and blood pressure regulation terms.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":3},{"id":"GO:0007420","count":3},{"id":"GO:1903142","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0044331","count":3}]},{"hash":"1812516231146075755","title":"Unknown","description":"The GO terms are too diverse to define a single cohesive function for this cluster; they span xenobiotic response, skeletal muscle development, cellular senescence, cobalamin biosynthesis, arginine methylation, general cell growth, histone methylation, tellurium ion response, urea homeostasis, and cell wall catabolic processes, suggesting a heterogeneous set of proteins without a shared dominant role.","confidence":"","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":3},{"id":"GO:0048741","count":3},{"id":"GO:0090398","count":2},{"id":"GO:0009236","count":2},{"id":"GO:0019919","count":2}]},{"hash":"1480395748258272210","title":"DNA repair and cellular stress response","description":"These proteins show GO terms tied to DNA repair (base-excision repair, DNA catabolic process), redox/homeostasis, and xenobiotic response, plus regulation of mRNA stability. The common thread appears to be genome stability maintenance and general stress response, even though a couple of terms (e.g., renal water transport) seem unrelated and may be noise. ","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":6},{"id":"GO:0007568","count":5},{"id":"GO:0043488","count":4},{"id":"GO:0046856","count":4},{"id":"GO:0045454","count":4}]},{"hash":"669576974731291059","title":"Mitochondrial translation and respiration","description":"The cluster is dominated by GO terms for mitochondrial tRNA aminoacylation (threonyl, seryl, prolyl), mitochondrial DNA metabolism, translation, and the respiratory electron transport chain, indicating a cohesive role in mitochondrial protein synthesis and energy production; occasional terms like angiogenesis and Wnt signaling appear less central to this core theme.","confidence":"High","size":24,"edges":159,"triangles":384,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0090263","count":3},{"id":"GO:0070584","count":2},{"id":"GO:0070159","count":2},{"id":"GO:0001525","count":2}]},{"hash":"2017005660856018197","title":"Ubiquitin-Dependent Proteolysis in Meiosis and Oocyte Maturation","description":"The strongest signals are ubiquitin- and SCF-dependent proteasomal protein catabolism and meiosis/oocyte maturation (spindle assembly in female meiosis I, oocyte maturation). Additional terms on circadian rhythm regulation and early development fit with roles of proteostasis in cell-cycle control and development. Overall, the cluster centers on regulated proteolysis guiding meiosis and oocyte maturation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":12},{"id":"GO:0042787","count":12},{"id":"GO:0042752","count":12},{"id":"GO:0007057","count":11},{"id":"GO:0008285","count":11}]},{"hash":"439381440922083993","title":"Actinobacterial metabolism and gene expression","description":"This cluster centers on core metabolic and biosynthetic processes in Actinobacteria, including mycothiol biosynthesis, leucine/valine catabolism, fatty-acyl-CoA biosynthesis, and fundamental transcription/translation functions, suggesting a cohesive theme of energy production and protein synthesis. Some vertebrate GO terms present (heart/post-embryonic development) are likely annotations noise unrelated to bacterial biology.","confidence":"High","size":24,"edges":10,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0010125","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0006412","count":2}]},{"hash":"1868343229939772811","title":"Vascular ECM Remodeling and Coagulation","description":"The cluster centers on extracellular matrix turnover and smooth muscle\u2013related remodeling (smooth muscle cell migration, regulation of cell-matrix adhesion, elastin catabolism, tissue remodeling) and includes components of coagulation and immune signaling (blood coagulation, classical complement activation, regulation of chemokine production). This pattern suggests a vascular remodeling module where ECM dynamics, coagulation, and immune cues converge, rather than a single enzymatic pathway.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014909","count":7},{"id":"GO:2000097","count":6},{"id":"GO:0048771","count":6},{"id":"GO:0045079","count":6},{"id":"GO:0007596","count":6}]},{"hash":"49431650069776846","title":"Developmental signaling with immune functions","description":"GO terms are dominated by developmental processes (skeletal muscle development, nervous system development, neural tube closure, multicellular organism development) with additional immune signaling terms (defense response to Gram-positive bacteria; B cell receptor signaling) and signaling/proliferation activities (GTPase regulation, mitotic cell cycle). This suggests proteins involved in developmental signaling that can also participate in immune-related pathways, rather than a tight single-function module. The sparse connectivity supports a broad, multi-function cluster.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":3},{"id":"GO:0007519","count":2},{"id":"GO:0050853","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0006349","count":2}]},{"hash":"94077153793743533","title":"Vascular morphogenesis and cell-adhesion signaling","description":"The cluster shows enrichment for blood vessel branching, morphogenesis, PDGF receptor signaling, integrin-mediated signaling, and focal adhesion assembly, all pointing to a module governing endothelial adhesion, migration, and vascular remodeling. Cellular calcium responses can also modulate these adhesion/signaling processes. The presence of a neuron development term is less representative here than the vascular/adherence terms, supporting a vascular-adhesion theme as the primary signal. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048666","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007155","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0048008","count":3}]},{"hash":"1040088712607672489","title":"Gene Expression and RNA Processing","description":"This cluster is dominated by terms related to transcription initiation by RNA Polymerase II, translation, and regulation of mRNA stability, as well as ribosomal subunit export from the nucleus. While there are outliers like DNA transposition and chromatid cohesion, the core signal centers on gene expression and RNA processing/transport within the cell. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":2},{"id":"GO:0006313","count":2},{"id":"GO:0010610","count":2},{"id":"GO:0000055","count":2},{"id":"GO:0006412","count":2}]},{"hash":"712397766198944566","title":"Neuro-thermogenic and immune signaling","description":"The top GO terms suggest involvement in neural signaling (dopamine receptor signaling, amphetamine response, pain perception), thermogenesis and temperature-related responses (cellular response to temperature stimulus, diet-induced thermogenesis), and immune modulation (defense against bacterium, negative regulation of inflammatory response), with ERK signaling noted as a downstream pathway. This pattern points to a cluster of proteins that integrate neural, metabolic, and immune stress signals, though the lack of interaction edges makes the connection tentative. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042742","count":17},{"id":"GO:0071502","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0019233","count":17},{"id":"GO:0046541","count":17}]},{"hash":"832517616271584819","title":"Transcriptional repressors coordinating immune-vascular remodeling","description":"These proteins show strong enrichment for negative regulation of transcription by RNA polymerase II, alongside terms tied to development, immune signaling (response to LPS, Toll pathway), and vascular remodeling (endothelial barrier establishment, tissue remodeling, smooth muscle\u2013matrix adhesion, blood coagulation). The cluster likely represents transcriptional repressors that help coordinate inflammation, barrier integrity, and remodeling in developmental and vascular contexts.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0030901","count":9},{"id":"GO:1903142","count":7},{"id":"GO:0032496","count":7},{"id":"GO:0045752","count":7}]},{"hash":"1304110301667727385","title":"Calcium-Driven Signaling and Immune Response","description":"The top terms center on calcium dynamics (calcium release into cytosol, calcium import across membrane) and innate immune signaling (Toll pathway, defense against Gram-positive bacteria), plus neuromuscular transmission, all of which are calcium-dependent processes; this suggests a signaling-focused cluster with intertwined calcium, neural, and immune functions.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008063","count":2},{"id":"GO:0051209","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0007274","count":2}]},{"hash":"2223843670575782255","title":"Vascular signaling and coagulation regulation","description":"Top GO terms cluster around blood coagulation, vasodilation, artery smooth muscle contraction, innervation, norepinephrine regulation, and ERK signaling, indicating a vascular regulation theme controlling blood flow, coagulation, and neural input; kidney development appears as a broader vascular context but the core is vascular function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0001822","count":3},{"id":"GO:0014824","count":2},{"id":"GO:0060384","count":2},{"id":"GO:2001275","count":2}]},{"hash":"755650228767229297","title":"Neural development and axon guidance","description":"The cluster is dominated by nervous system-related processes: nervous system development, brain development, axon guidance, and regulation of dendrite development, with supporting roles for cytoskeletal regulation via GTPase activity and cell proliferation\u2014pointing to a cohesive theme of neural development and neuronal wiring rather than immune defense.","confidence":"Medium","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0001501","count":5},{"id":"GO:0007411","count":5},{"id":"GO:0007399","count":5}]},{"hash":"2089041801934119067","title":"Hematopoietic and immune cell development","description":"Reasoning: The top GO terms cluster around megakaryocyte development, angiogenesis, Kit signaling, dendritic cell differentiation, regulation of T cell receptor signaling, and chemokine production. Together, they point to coordinated development and signaling of hematopoietic and immune lineages (platelet/megakaryocyte lineage and associated immune cells). Some terms appear tangential or deprecated, but the core theme is hematopoietic/immune development and signaling.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035855","count":6},{"id":"GO:0001798","count":5},{"id":"GO:0090197","count":5},{"id":"GO:0050860","count":5},{"id":"GO:0048070","count":5}]},{"hash":"13199456014412874","title":"Unknown","description":"The terms span metabolism, cell cycle, signaling, and polysaccharide biosynthesis across multiple kingdoms, with several obsolete GO entries, showing no single coherent function tying the cluster together.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0060079","count":2},{"id":"GO:0060992","count":2},{"id":"GO:0031623","count":2}]},{"hash":"343804359735853949","title":"Spindle Assembly Checkpoint Signaling","description":"The cluster shows strong representation of mitotic processes: spindle assembly checkpoint signaling, kinetochore-microtubule attachments, and microtubule-directed chromosome movement, indicating a cohesive theme around mitotic control. A couple of immune-related terms appear incidental and do not define the core function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061057","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0044774","count":1},{"id":"GO:0042130","count":1},{"id":"GO:0007094","count":1}]},{"hash":"1990214395906122934","title":"Inflammation, coagulation, and vascular tone","description":"The top terms cluster around inflammatory response, blood coagulation, and responses related to vasculature (vasoconstriction and smooth muscle contraction), with pain and LPS response reinforcing an immune-vascular theme. The dopamine receptor signaling and amphetamine response appear as secondary signals, possibly reflecting neuromodulatory cross-talk rather than a core function of this module. Overall, the cluster seems to represent an inflammation-coagulation-vasomotor program with some peripheral neural signaling. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":11},{"id":"GO:0006954","count":11},{"id":"GO:0032496","count":11},{"id":"GO:0045986","count":11},{"id":"GO:0019233","count":11}]},{"hash":"342885025829300302","title":"Neural development and ubiquitin-dependent proteolysis","description":"The top GO terms combine neural development processes (synapse assembly, initiation of neural tube closure) with ubiquitin-proteasome\u2013mediated protein catabolism, plus related stress and circadian regulation terms, suggesting a neural proteostasis\u2013development module.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0060386","count":2},{"id":"GO:0006516","count":2},{"id":"GO:0021993","count":2},{"id":"GO:1903378","count":2}]},{"hash":"2258251305022182857","title":"Unknown","description":"Top terms across ion transport, chromatin regulation, and fertilization-related processes do not reveal a cohesive, single-function theme for this cluster, making a specific, intuitive label inappropriate. Therefore, Unknown is the appropriate name.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2},{"id":"GO:1902476","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0098532","count":2}]},{"hash":"341201538272492604","title":"Ubiquitin-Dependent Proteolysis and Innate Immunity","description":"The top GO terms show a strong emphasis on ubiquitin-mediated protein degradation (ubiquitin-dependent proteolysis, ERAD, polyubiquitination, autoubiquitination, K11-linked ubiquitination) together with innate immune defenses (defense response to virus, innate immune response, defense against Gram-positive bacteria), indicating a functional cluster centered on ubiquitin-driven proteostasis tied to immune defense.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0030433","count":6},{"id":"GO:0051607","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0051301","count":4}]},{"hash":"1152063699883610448","title":"Developmental Signaling and Cell Adhesion","description":"The terms point to signaling and adhesion activity across developmental and immune contexts: T cell receptor signaling, PDGF response, and NF-kappaB-related regulation indicate signaling; thymus and heart development indicate developmental programs; integrin-mediated signaling and substrate adhesion-dependent cell spreading highlight adhesion processes. Together they suggest a cluster of developmental signaling coupled with cell adhesion.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048538","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0007507","count":3}]},{"hash":"2139952339121900374","title":"Ubiquitin-Dependent Proteolysis and Circadian Regulation","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes (including SCF-dependent pathways) and regulation of circadian rhythm, pointing to a core theme of protein turnover linked to circadian control. While other terms like synaptic vesicle endocytosis and muscle development appear, they seem secondary to the central ubiquitin-proteasome/circadian signal. This makes the label representative of the cluster\u2019s primary function.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":20},{"id":"GO:0042752","count":19},{"id":"GO:0031146","count":11},{"id":"GO:0031397","count":11},{"id":"GO:1900242","count":11}]},{"hash":"1290239287977306001","title":"Pregnancy-associated angiogenesis and maternal immune regulation","description":"The top GO terms cluster around angiogenesis and reproductive processes (GO:0001525 angiogenesis, GO:0045766 positive regulation of angiogenesis; GO:0007595 female pregnancy; GO:0001869 negative regulation of complement activation, lectin pathway; GO:0002438 acute inflammatory response to antigenic stimulus) along with cytokine production and lactation (GO:0050663 cytokine production; GO:0007565 lactation). This suggests a theme of placental vascular development and maternal immune modulation during pregnancy, including immune tolerance and inflammatory signaling. Some terms like regulation of synaptic transmission may be less central or incidental. ","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0050663","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0007565","count":3},{"id":"GO:0010951","count":3}]},{"hash":"1213742100043852684","title":"Retina development and photoreception","description":"The cluster shows a strong enrichment for retina development in a camera-type eye and protein-chromophore linkage, which point to visual system components and photoreceptor biology; accompanying terms on membrane potential regulation and GTPase activity align with neural signaling in vision pathways, supporting a vision/retina-focused theme. Some terms are broader sensory functions, but the retina-related terms provide the main unifying theme.","confidence":"High","size":23,"edges":21,"triangles":3,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":15},{"id":"GO:0019233","count":15},{"id":"GO:0002024","count":15},{"id":"GO:0042391","count":12},{"id":"GO:0018298","count":11}]},{"hash":"1699368787170012824","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms point to embryonic development and organ morphogenesis across multiple tissues (heart, placenta, pancreas, gonads, cranial skeleton) plus a general transcriptional regulation role. This indicates a cluster of proteins involved in developmental processes rather than a single pathway, justifying a label like \"Embryogenesis and organ morphogenesis.\"","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003148","count":5},{"id":"GO:0008584","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0061113","count":5},{"id":"GO:0035264","count":5}]},{"hash":"288102217308675231","title":"MAPK/PI3K signaling in development","description":"This cluster centers on core signaling pathways, notably PI3K/AKT signaling (GO:0043491) and the JNK cascade (GO:0007254), with associated phosphorylation regulation. It also includes development-related terms (thymus and neuron development) and endosome transport regulation, suggesting proteins involved in signaling crosstalk and trafficking that influence development and immune responses (IL-12). Overall, the common theme is signaling through MAPK/PI3K pathways in developmental contexts.","confidence":"High","size":23,"edges":145,"triangles":309,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":23},{"id":"GO:0070671","count":23},{"id":"GO:0007257","count":23},{"id":"GO:2000641","count":23},{"id":"GO:0033138","count":23}]},{"hash":"1640447700273343698","title":"PI3K-AKT Signaling with Immune and Neural Cues","description":"Top terms point to PI3K/AKT signaling and PKB activation as a core theme, with accompanying immune-related responses (interleukin-12) and neural development cues (axonogenesis). While some terms are obsolete and the set is somewhat heterogeneous, the strongest recurring signal is PI3K-AKT\u2013mediated transduction, with related immune and neural development associations, suggesting a broader signaling cluster rather than a single pathway. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":23},{"id":"GO:0070671","count":23},{"id":"GO:0007257","count":23},{"id":"GO:0051092","count":23},{"id":"GO:0048378","count":23}]},{"hash":"1131384756199646586","title":"Oocyte Meiosis and Spindle Assembly Regulation","description":"This cluster is driven by terms strongly linked to meiosis and oocyte maturation, especially spindle assembly in female meiosis I, regulation of the ubiquitin-proteasome pathway during cell cycle control, and microtubule polymerization. While a few terms touch on broader developmental processes, the dominant signals point to meiotic progression and spindle dynamics in oocytes, justifying a label around oocyte meiosis and spindle assembly regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008285","count":12},{"id":"GO:0051436","count":12},{"id":"GO:0007057","count":10},{"id":"GO:0031146","count":10},{"id":"GO:0006516","count":10}]},{"hash":"1020220266968971237","title":"Amino Acid and Cofactor Transport Across Membranes","description":"This cluster is dominated by transport terms for amino acids and cofactors (glycine, pyridoxal phosphate) and cofactors such as NAD and CoA, alongside mitochondrial-related processes (iron import into mitochondrion, regulation of membrane permeability). The shared theme is membrane transport of nutrients and mitochondrial metabolism, with liver regeneration appearing as a contextual term rather than the core function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034198","count":7},{"id":"GO:0035352","count":5},{"id":"GO:0035349","count":5},{"id":"GO:0097421","count":5},{"id":"GO:0006828","count":5}]},{"hash":"895714639368095883","title":"Flavonoid Biosynthesis and Glycosylation","description":"The cluster's top GO terms are dominated by flavonoid biosynthesis (anthocyanin-containing compounds; kaempferol/quercetin O-glucosides) and related glycosylation/modification steps, pointing to a cohesive plant flavonoid metabolism module. Some obsolete or unrelated terms appear, but the flavonoid-related signals are prominent enough to define the cluster.","confidence":"Medium","size":23,"edges":75,"triangles":91,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009718","count":13},{"id":"GO:0055114","count":11},{"id":"GO:0042619","count":10},{"id":"GO:0046677","count":8},{"id":"GO:0006711","count":8}]},{"hash":"966503922805216441","title":"Neural perception and dopaminergic signaling","description":"This cluster is dominated by neural processes\u2014visual perception and learning, pain perception, dopaminergic synaptic transmission, and cocaine-related behavioral responses with ERK1/2 signaling\u2014suggesting a core theme of neural perception and signaling; a few terms touch inflammation or heart development but are less central.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":7},{"id":"GO:0008542","count":6},{"id":"GO:0007507","count":5},{"id":"GO:0001963","count":5},{"id":"GO:0010759","count":5}]},{"hash":"1048054295163087458","title":"Neuroimmune signaling and vascular modulation","description":"The top GO terms show neural signaling (neuropeptide signaling, dopamine receptor signaling, pain perception, amphetamine response) alongside immune and vascular processes (platelet activation, regulation of inflammation, T cell chemotaxis, CD8+ gamma-delta differentiation, vascular smooth muscle contraction). This pattern suggests cross-talk between nervous, immune, and vascular systems, justifying a label centered on neuroimmune-vascular signaling and modulation. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007218","count":14},{"id":"GO:0030168","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0050728","count":13},{"id":"GO:0007191","count":13}]},{"hash":"1841437171604341215","title":"Eye and neural development signaling","description":"Based on the top GO terms, the cluster centers on developmental and signaling processes, particularly eye/retina development and light absorption (retina development; absorption of visible light). The presence of neuropeptide and dopamine-related signaling (neuropeptide signaling pathway; adenylate cyclase-activating dopamine receptor signaling; response to amphetamine) suggests neural signaling roles, while terms for GTPase activity regulation and cell proliferation point to growth and development. Heart development is present but secondary, so the strongest, cohesive theme is ocular and neural development with associated signaling.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":16},{"id":"GO:0008284","count":15},{"id":"GO:0008283","count":15},{"id":"GO:0060041","count":15},{"id":"GO:0007507","count":14}]},{"hash":"2151582380634483078","title":"Developmental morphogenesis regulators","description":"The top GO terms center on broad embryonic organ morphogenesis (heart, hindlimb, eye, placenta, gonads, prostate) plus regulation of transcription, suggesting proteins that act as transcriptional regulators guiding diverse developmental processes rather than a single tissue-specific function.","confidence":"Medium","size":23,"edges":25,"triangles":0,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0001890","count":5},{"id":"GO:0003148","count":5},{"id":"GO:0021986","count":5},{"id":"GO:0060527","count":5}]},{"hash":"207592043766326510","title":"Oocyte Meiosis, Spindle Assembly, and Ubiquitin-Proteasome Regulation","description":"The top GO terms strongly point to ubiquitin-dependent proteolysis and SCF-mediated degradation, along with meiotic spindle assembly, oocyte maturation, and microtubule dynamics, suggesting a cluster centered on proteostasis during oocyte meiosis and the associated cytoskeletal changes; a few neural development terms are present but less representative of the core function. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":9},{"id":"GO:0042787","count":9},{"id":"GO:0007057","count":7},{"id":"GO:0008285","count":7},{"id":"GO:0006516","count":7}]},{"hash":"1085548432663279441","title":"Meiosis I spindle assembly and oocyte maturation","description":"The cluster is dominated by GO terms for ubiquitin-dependent proteolysis (proteasome and SCF pathways), microtubule polymerization, and spindle assembly in female meiosis I, along with oocyte maturation. These repeatedly point to meiotic progression and spindle dynamics in oocytes, with additional developmental terms (neural tube/ventricle development) that can reflect broader embryonic development linked to oocyte-derived factors. Overall, a cohesive theme around meiosis and oocyte maturation best explains the top terms.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0031146","count":14},{"id":"GO:0006516","count":14},{"id":"GO:0021993","count":14},{"id":"GO:0070544","count":14}]},{"hash":"1944923222298886642","title":"Endothelial Barrier Regulation and Inflammation","description":"The cluster shows a pattern of vascular-related functions, including positive regulation of endothelial barrier establishment, tissue remodeling, and blood coagulation, alongside inflammatory signals (response to lipopolysaccharide and chemokine regulation). While transcriptional regulation by RNA Pol II (both positive and negative) appears, the dominant connected themes center on inflammatory vascular regulation and remodeling, suggesting proteins that coordinate vascular permeability, coagulation, and inflammatory responses.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0007586","count":5},{"id":"GO:1903142","count":5},{"id":"GO:0045944","count":5},{"id":"GO:0032496","count":5}]},{"hash":"259859992594074408","title":"Neural development and ERK/MAPK signaling","description":"The top terms are dominated by nervous system development, hippocampus development, and signaling pathways (ROBO, ERK cascade, MAPKK), suggesting a neural development and signaling module. A few cell-cycle terms appear but do not override the core neural-related theme, so the label reflects the main function with some noise.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0051291","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0007399","count":4}]},{"hash":"49136897197222212","title":"Neural development and synaptic signaling","description":"This cluster is dominated by GO terms tied to nervous system development, hippocampus/CNS development, synaptic plasticity, and glutamatergic transmission, with related signaling and cytoskeletal remodeling (FGF response, Arp2/3 regulation). A few terms such as adaptive immune response and skeletal development are less central but do not override the neural-focused theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":3},{"id":"GO:0031915","count":3},{"id":"GO:0043154","count":2},{"id":"GO:0021766","count":2},{"id":"GO:0007417","count":2}]},{"hash":"843586585055924896","title":"Unknown","description":"The GO terms cover highly diverse biological contexts (pancreatic development, lipoteichoic acid biosynthesis, prostatic bud regulation, innervation, FGFR signaling, CNS development, nephron-related processes, glial signaling, and smooth muscle contraction), with no clear shared pathway or tissue; plus edges are zero, indicating a lack of cohesive interaction among these proteins, so a single representative function cannot be inferred.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":3},{"id":"GO:0070395","count":3},{"id":"GO:0060686","count":3},{"id":"GO:0060384","count":3},{"id":"GO:0040037","count":3}]},{"hash":"1217032338225920437","title":"Growth, Cell Cycle, and Cytoskeleton Regulation","description":"This cluster centers on growth and development (multicellular organism growth), cell division (cell cycle, anaphase-promoting complex), and cytoskeletal dynamics (positive regulation of Arp2/3-mediated actin nucleation), with some signaling and translation initiation links. A subset of terms hints at fertilization and defense responses, but the core theme appears to be growth/development coupled with cell-cycle control and actin remodeling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0035264","count":6},{"id":"GO:0050830","count":6},{"id":"GO:0051301","count":6},{"id":"GO:2000601","count":5},{"id":"GO:0050731","count":5}]},{"hash":"118084458438498507","title":"Intracellular transport and organelle dynamics","description":"This cluster aggregates proteins involved in nuclear import and mRNA transport, regulation of GTPase activity, organelle dynamics (mitochondria and vacuole fusion), cytoskeletal remodeling (cell shape, myofibril assembly), and morphogenesis. The common thread is intracellular trafficking and structural organization rather than a single metabolic pathway, so the label reflects both transport and organelle/cytoskeletal dynamics.","confidence":"Medium","size":23,"edges":35,"triangles":31,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":2},{"id":"GO:0051561","count":2},{"id":"GO:0042144","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0043065","count":2}]},{"hash":"538511702748141365","title":"Bacterial LPS Core and O-Antigen Synthesis","description":"Top GO terms cluster around lipopolysaccharide biosynthesis (core region, O antigen, and dTDP-rhamnose) and a response to antibiotic, which points to enzymes involved in LPS assembly and modification in bacteria. Some other terms like proton transmembrane transport and vacuolar acidification appear as ancillary membrane-related processes, but the dominant signal is LPS biosynthesis.","confidence":"High","size":23,"edges":24,"triangles":5,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0045226","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0009244","count":2},{"id":"GO:0019305","count":2}]},{"hash":"1661164929792608285","title":"Inflammation and vascular regulation","description":"Many top GO terms point to inflammatory processes (inflammatory response, response to lipopolysaccharide, negative regulation of inflammatory response) and vascular functions (blood coagulation, positive regulation of vasoconstriction, signaling pathways linked to vascular tone). A couple of tissue-development terms hint at remodeling processes that can accompany inflammation and vascular changes. Overall, the cluster seems to reflect coordinated inflammatory and vascular regulatory activities rather than a single narrow function.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0060658","count":17},{"id":"GO:0060427","count":17},{"id":"GO:0045986","count":16},{"id":"GO:0007596","count":16},{"id":"GO:0045907","count":16}]},{"hash":"1531626418898363354","title":"Retroviral Integration and Latency","description":"The top GO terms point to stages of a retroviral lifecycle: entry into the host nucleus, reverse transcription (RNA-templated DNA biosynthetic process), DNA integration and recombination, and establishment of proviral latency. Additional terms about host\u2013pathogen interaction (symbiont entry, activation of host apoptosis, and modulation of RNAi) fit a viral infection and latency theme, rather than a purely host cellular process. The combination of entry, integration, latency, and reverse transcription provides a cohesive, specific functional label for this cluster.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0015074","count":5},{"id":"GO:0075713","count":4},{"id":"GO:0075732","count":4},{"id":"GO:0039651","count":4}]},{"hash":"407095824744683169","title":"Unknown","description":"Unknown","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002532","count":1},{"id":"GO:0090197","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0006032","count":1},{"id":"GO:0000387","count":1}]},{"hash":"264959389494151119","title":"Developmental tissue remodeling and coagulation","description":"This cluster\u2019s top GO terms center on development (midbrain development, post-embryonic development) and tissue remodeling (tissue remodeling, elastin catabolic process, smooth muscle cell-matrix adhesion), with accompanying coagulation and immune signaling (blood coagulation, complement activation, negative regulation of chemokine production). Together, they suggest proteins involved in remodeling tissues during development, with linked coagulation and immune regulation. ","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":7},{"id":"GO:2000097","count":4},{"id":"GO:0048771","count":4},{"id":"GO:0045079","count":4},{"id":"GO:0007596","count":4}]},{"hash":"1421358094302694329","title":"Ubiquitination-Circadian Regulation Cluster","description":"The top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process; negative regulation of protein ubiquitination; K33-linked ubiquitination) and circadian rhythm regulation, suggesting a core theme around protein turnover with circadian control. Other terms (renal/renal tubule morphogenesis, skeletal muscle development, B cell receptor signaling) are less directly connected and may reflect broader functional associations or annotation noise. Overall, the cluster seems best characterized by ubiquitin-mediated regulation with circadian timing influence.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0042752","count":6},{"id":"GO:0031397","count":5},{"id":"GO:2000312","count":5},{"id":"GO:0070294","count":5}]},{"hash":"1255729262940068100","title":"Unknown","description":"The top GO terms span xenobiotic response and oxidation-reduction processes, various developmental processes (liver, placenta, erythrocyte-related), host\u2013symbiont interactions, immune regulation, and cell adhesion, with no single cohesive biological process apparent across the cluster. This broad, heterogeneous mix makes it hard to assign a specific, representative function, so the cluster is labeled Unknown with no confidence.","confidence":"","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0042493","count":2},{"id":"GO:0001889","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0042594","count":2}]},{"hash":"1941422826762966319","title":"Synaptic development and plasticity","description":"This cluster's top GO terms cluster around neuronal development and synaptic function: brain development, long-term potentiation, presynapse signaling, synaptic vesicle maturation, and endocytic trafficking. Additional terms (Rho signaling, IP3 biosynthesis, ER membrane organization, VEGF signaling) point to cytoskeletal dynamics, calcium signaling, and membrane organization in neurons, all consistent with synapse formation, maturation and plasticity. While a few terms extend to general endocytosis or vesicle exocytosis, the dominant theme is synaptic development and plasticity in the brain.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":4},{"id":"GO:0007420","count":4},{"id":"GO:0060291","count":4},{"id":"GO:0070086","count":3},{"id":"GO:0090158","count":3}]},{"hash":"1670805500966397855","title":"Meiosis and oocyte maturation with ubiquitin\u2013proteasome degradation","description":"The top GO terms cluster around ubiquitin-proteasome\u2013mediated protein catabolism (SCF-dependent), microtubule polymerization, and spindle assembly in female meiosis I, all pointing to meiotic progression and oocyte maturation. While some terms reference broader developmental processes (neural tube/ventricle development), the dominant signal is proteasome-regulated meiotic machinery and oocyte development, suggesting a cohesive group of proteins involved in meiosis and proteostasis.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":14},{"id":"GO:0006516","count":13},{"id":"GO:0021993","count":13},{"id":"GO:0070544","count":13},{"id":"GO:0008285","count":13}]},{"hash":"297243101118317489","title":"Nervous system development and synaptic signaling","description":"The top GO terms cluster around neuronal development and function: myelination in the peripheral nervous system, axonal fasciculation, synapse assembly, neurotransmitter secretion, and collateral sprouting, with supporting roles in microtubule nucleation and GPCR signaling. While some terms are broader or regulatory (e.g., negative regulation of stress fiber assembly, angiogenesis), the overall theme is neuronal growth, connectivity, and synaptic communication, suggesting a coherent nervous-system-centered function for the protein set.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":3},{"id":"GO:0016525","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0007413","count":2}]},{"hash":"1165873431714084110","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The cluster is dominated by GO terms tied to actin dynamics\u2014actin crosslink formation, cortical patch localization, microspike assembly, and actin cytoskeleton reorganization\u2014as well as regulation of Rho signaling, cell adhesion, and establishment/maintenance of cell polarity. These themes point to coordinated remodeling of the cytoskeleton and cell shape, with supportive links to Wnt signaling and mitotic spindle context. A few outliers (e.g., immune signaling) are present but do not define the core function of the group.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900042","count":3},{"id":"GO:0051764","count":3},{"id":"GO:0090307","count":3},{"id":"GO:0051666","count":3},{"id":"GO:0016055","count":3}]},{"hash":"888507129029166738","title":"Immune system development and signaling","description":"The top GO terms center on lymphoid and hematopoietic development (B cell receptor signaling, thymus development, myeloid progenitor differentiation) and related signaling processes (phosphorylation, death-inducing signaling complex). While a couple terms extend to other tissues (thyroid development, angiogenesis), the dominant signals point to immune system development and associated signaling pathways. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050853","count":9},{"id":"GO:0060079","count":9},{"id":"GO:0045766","count":9},{"id":"GO:0033138","count":8},{"id":"GO:0048538","count":8}]},{"hash":"1171168535867937327","title":"DNA replication and RNA processing cluster","description":"The top GO terms heavily emphasize core DNA replication activities (unwinding, replication, primer synthesis, topological changes) and DNA damage response (SOS). At the same time, several terms point to RNA metabolism and processing (nonsense-mediated decay, mRNA splicing, rRNA maturation) and transcription regulation by RNA polymerase II. This combination suggests proteins in this cluster coordinate genome replication with RNA processing and quality control, possibly linking replication with transcription and ribosomal/RNA maturation pathways.","confidence":"High","size":22,"edges":76,"triangles":78,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006268","count":8},{"id":"GO:0006260","count":8},{"id":"GO:0000184","count":8},{"id":"GO:0045944","count":7},{"id":"GO:0009432","count":7}]},{"hash":"762081800138707733","title":"Endocytic Trafficking and Signaling","description":"Based on the prominent GO terms, the cluster is enriched for endocytic processes (regulation of endosome transport, caveolin-mediated endocytosis) and linked signaling pathways (cellular response to dopamine, IL-1 signaling). Although some terms relate to development or cell cycle, the strongest pattern centers on vesicle trafficking coupled to signal transduction, suggesting proteins that participate in endocytosis-associated signaling complexes.","confidence":"Medium","size":22,"edges":231,"triangles":1540,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000641","count":22},{"id":"GO:0033138","count":22},{"id":"GO:0048538","count":22},{"id":"GO:0010696","count":22},{"id":"GO:1903351","count":22}]},{"hash":"678390993221189079","title":"Organelle trafficking and biogenesis","description":"The top GO terms suggest processes tied to intracellular organization and organelle maintenance, including autophagosome maturation, protein retention in Golgi, ER-associated degradation, and mitochondrial inner membrane insertion, all pointing to protein handling and organelle biogenesis across compartments. A few terms (like transcription and transformation competence) are less connected, but the dominant signal reflects intracellular trafficking and organelle-associated protein processing.","confidence":"Medium","size":22,"edges":22,"triangles":20,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030420","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0097352","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1933050442360056659","title":"Development of muscle, heart, and neural tissues","description":"This cluster is enriched for developmental processes spanning muscle formation (myoblast fusion, heart development), neural growth (axonogenesis, synaptic signaling), and broader organ development (multicellular organism development, visual perception), indicating a cohesive theme of coordinated tissue and organ development across muscle, heart, and nervous systems.","confidence":"High","size":22,"edges":46,"triangles":63,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":17},{"id":"GO:0007507","count":17},{"id":"GO:0010800","count":17},{"id":"GO:0043065","count":17},{"id":"GO:0007601","count":17}]},{"hash":"1467553634679260998","title":"Mitochondrial Translation and Stress Response","description":"The top GO terms cluster around protein synthesis, especially mitochondrial translation and general translation, plus translational fidelity and mRNA decay, with a notable apoptotic process signal. This combination suggests a core theme of mitochondrial protein synthesis coupled to stress responses and RNA turnover, which is further supported by stress-related terms (response to antibiotic/toxic substances). A few outliers (menaquinone biosynthesis, sodium transport) may reflect peripheral annotations rather than the main function of the cluster. ","confidence":"High","size":22,"edges":206,"triangles":1104,"max_degree":21,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0032543","count":2}]},{"hash":"1277037972096099060","title":"Cell Cycle Core with Diverse Signaling","description":"The strongest terms are cell cycle-related (cell cycle, DNA replication, centrosome cycle), pointing to core cell division machinery. Other terms reflect multiple signaling contexts (dopamine response, insulin receptor signaling, T cell receptor signaling) and neuronal/immune development (cerebellar cortex formation, axon regeneration). This suggests a central cell cycle focus with broad signaling associations, rather than a single cohesive pathway, hence the chosen name.","confidence":"Medium","size":22,"edges":37,"triangles":13,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0048240","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0007098","count":2},{"id":"GO:1903351","count":2}]},{"hash":"2207620325155906067","title":"Developmental growth and neural signaling","description":"This cluster centers on developmental processes and growth, with terms for ossification, multicellular growth, and mitotic cell cycle, plus Hedgehog signaling (smoothened pathway) and nervous system development. The presence of synaptic vesicle endocytosis regulation hints at neural function, while Golgi to plasma membrane transport and general proliferation reflect broader cellular processes essential to development. Overall, it represents a developmental program with emphasis on growth and neural signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":4},{"id":"GO:0043931","count":4},{"id":"GO:0002551","count":4},{"id":"GO:0007224","count":3},{"id":"GO:0008283","count":3}]},{"hash":"297307652289992778","title":"RNA processing and mRNA regulation","description":"This cluster is dominated by GO terms tied to RNA metabolism and control of gene expression, including splicing regulation, translation initiation control, mRNA export from the nucleus, RNA modification, and stress-related mRNA stability. Together these point to a cohesive theme of RNA processing and regulation of mRNA fate. A few terms (viral budding via ESCRT, symbiont-induced host apoptosis, blastocyst formation) are more context-specific or developmental and appear as outliers relative to the core RNA-centric pattern. Overall, the label captures the main shared function of the proteins in this group.","confidence":"Medium","size":22,"edges":96,"triangles":144,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0016556","count":3}]},{"hash":"111629514198932283","title":"GPCR Signaling Across Immune, Neural, and Vascular Systems","description":"The GO terms point to various GPCR-mediated processes: dopamine receptor signaling, octopamine/tyramine signaling, photoreception (opsin-like pathways), T cell chemotaxis, regulation of eosinophil extravasation, vascular smooth muscle contraction, and inflammatory response modulation. This suggests a common theme of G-protein coupled receptor signaling operating across immune, neural, and vascular contexts.","confidence":"High","size":22,"edges":4,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":16},{"id":"GO:0007191","count":16},{"id":"GO:0001975","count":16},{"id":"GO:0016038","count":16},{"id":"GO:0014829","count":16}]},{"hash":"735748153665517578","title":"Neuroimmune regulation of inflammation and coagulation","description":"The cluster centers on terms related to dampening inflammatory responses, T cell chemotaxis and differentiation, eosinophil extravasation, and blood coagulation, with added signals tied to dopamine and octopamine/tyramine pathways. This pattern suggests a set of proteins involved in neuroimmune signaling that modulates inflammation and vascular processes, making the theme cohesive though some terms (e.g., light absorption) may be less directly related.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":20},{"id":"GO:0007191","count":20},{"id":"GO:0001975","count":20},{"id":"GO:0016038","count":20},{"id":"GO:0014829","count":20}]},{"hash":"494033589570235875","title":"Dopamine GPCR Signaling and Blood Pressure Regulation","description":"Top GO terms show strong enrichment for GPCR-mediated activation of adenylate cyclase, including dopamine receptor signaling and amphetamine response, together with vascular smooth muscle contraction and positive blood pressure regulation. These points suggest a coherent module of dopaminergic GPCR-cAMP signaling influencing cardiovascular (and related immune) pathways, despite an outlier term like electron transport. Confidence reflects the clear GPCR/cAMP theme anchored by dopamine signaling and cardiovascular terms.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":18},{"id":"GO:0010579","count":18},{"id":"GO:0045777","count":18},{"id":"GO:0007190","count":17},{"id":"GO:0050728","count":16}]},{"hash":"966038184416288587","title":"Chaperone-mediated folding and ER stress response","description":"The GO terms cluster around protein quality control and stress pathways: chaperone/cofactor-dependent refolding, translation initiation regulation under ER stress, redox homeostasis, and regulation of signaling and membrane targeting related to proteostasis. While some terms (DNA replication, conjugation-related) are less directly connected, the dominant theme is proteostasis and stress-response regulation systems. ","confidence":"High","size":22,"edges":70,"triangles":98,"max_degree":16,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0031204","count":5},{"id":"GO:1900035","count":5},{"id":"GO:0090084","count":5},{"id":"GO:0070389","count":5}]},{"hash":"609859912338271998","title":"Ubiquitin-mediated proteolysis","description":"The top GO terms are dominated by ubiquitination and protein catabolic processes (ubiquitin-dependent protein catabolic process, protein K33-linked ubiquitination, and negative regulation of protein ubiquitination), suggesting a core theme of protein turnover and ubiquitin signaling. There are a couple of outlier terms related to DNA replication and RNA-templated DNA biosynthesis, but the ubiquitination-focused terms best capture the cluster\u2019s likely function. Confidence: Medium","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006278","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0031397","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0070294","count":3}]},{"hash":"1280378326263753173","title":"Transmembrane nutrient transporters","description":"The Top Terms are dominated by different transmembrane transport processes: glucose import and D-glucose transmembrane transport, D-xylose transmembrane transport, urate transport, vitamin transmembrane transport, and sodium-dependent organic cation transport, plus sodium ion transmembrane transport. This pattern points to a cluster of membrane proteins specialized in nutrient and solute uptake, rather than a single specific pathway. Some non-transport terms appear but are less representative. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":3},{"id":"GO:0035725","count":3},{"id":"GO:1904728","count":3},{"id":"GO:0052106","count":3},{"id":"GO:1904659","count":3}]},{"hash":"168887952206628327","title":"Retroviral Integration and Proviral Latency","description":"Based on the GO terms, the proteins cluster around retroviral lifecycle processes: entry into the host cell and nucleus, RNA-templated DNA biosynthesis, DNA integration and recombination, and establishment of integrated proviral latency. These points collectively point to a shared function in retroviral provirus integration and latency, with additional signals of host defense modulation (negative regulation of siRNA processing) and host\u2013symbiont interaction that may reflect broader infection-related responses. The absence of interaction edges suggests the annotation-driven association rather than direct protein\u2013protein connectivity, but the strongest common theme is retroviral proviral integration. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0075732","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3},{"id":"GO:1903704","count":3}]},{"hash":"1722283175220155223","title":"Unknown","description":"The GO terms point to diverse areas (DNA replication/cell cycle, immune response to lipopolysaccharide, development of hippocampus and skeletal tissues, mRNA processing, cholesterol biosynthesis, and proteasomal protein turnover), with no single dominant theme linking all proteins.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0034501","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0021766","count":3}]},{"hash":"582339736412755541","title":"Cardiac muscle development and contraction","description":"The top GO terms are dominated by cardiac-related functions: cardiac muscle contraction, heart development, and cardiac myofibril assembly, with supporting signals in regulation of Rho signaling, protein kinase activity, and NF-kappaB pathways. This pattern suggests proteins involved in heart muscle formation and contractile function, with related signaling during cardiomyocyte remodeling. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0060048","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0007507","count":2}]},{"hash":"208660624973227903","title":"Ciliary mechanosensing and innate immunity","description":"The top terms show clear links to ciliary function (intraciliary transport, cilium assembly) and mechanosensation (cellular response to mechanical stimulus), along with innate/inflammatory signaling (innate immune response, inflammatory response, NF-kappaB modulation). This combination points to a theme where ciliary signaling and mechanotransduction intersect with immune-related pathways, with bone development also aligning via ciliopathic signaling. Hence the label focuses on ciliary mechanosensing coupled to immune signaling.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006954","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0042346","count":2}]},{"hash":"1717441945621503800","title":"Unknown","description":"Unknown","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:0015074","count":2},{"id":"GO:0071031","count":2}]},{"hash":"711486353483815999","title":"Transcriptional Regulation in Developmental Tissues","description":"This cluster centers on transcriptional control, with GO terms for RNA Pol II and III participation and negative regulation of transcription, suggesting core regulation of gene expression. The accompanying developmental terms (trachea cartilage, lung smooth muscle, neural crest migration) hint at tissue- and organ-level roles where transcriptional regulation is critical. A few immune-related terms exist but appear peripheral. Overall, a transcription-development theme best fits.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060534","count":1},{"id":"GO:0061145","count":1},{"id":"GO:0090579","count":1}]},{"hash":"1928591565919959406","title":"Cardiovascular Development and Notch Signaling","description":"The top terms cluster around heart morphogenesis (ventricular trabecula morphogenesis, coronary artery morphogenesis, arterial endothelial differentiation) and positive regulation of Notch signaling, pointing to a cardiovascular development theme with Notch pathway involvement. While there are also differentiation terms from other lineages (gamma-delta T cells, crystal cells) and axon guidance terms, the strongest and most coherent signal is heart development and Notch regulation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003222","count":3},{"id":"GO:0060982","count":3},{"id":"GO:0045747","count":3},{"id":"GO:0060842","count":2},{"id":"GO:0042691","count":2}]},{"hash":"245378302465864360","title":"Mitochondrial translation and respiratory metabolism","description":"The top GO terms show a clear tilt toward mitochondrial protein synthesis (mitochondrial translation), assembly of respiratory complexes (respiratory chain complex III), and regulation of aerobic respiration, plus associated metabolic processes like fatty acid catabolism. Despite a few unrelated or obsolete terms, the common theme is mitochondrial gene expression and energy production, suggesting these proteins function together in mitochondrial biogenesis and respiration.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071432","count":3},{"id":"GO:0019876","count":2},{"id":"GO:0070681","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0009062","count":2}]},{"hash":"87428048436393438","title":"Unknown","description":"The GO terms cover inflammatory response, calcium release signaling, light sensing, pain perception, and diverse tissue development; they do not converge on a single clear function for this protein group. Given the lack of shared functional theme and no interactions, Unknown with None","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":6},{"id":"GO:0071502","count":6},{"id":"GO:0060658","count":6},{"id":"GO:0060427","count":6},{"id":"GO:0051209","count":6}]},{"hash":"1479101153856561853","title":"Developmental tissue morphogenesis and remodeling","description":"Proteins here show a mix of developmental processes across tissues: skeletal muscle fiber development, ossification, and imaginal disc-derived leg morphogenesis, plus regulatory aspects of vascular and immune functions (vascular permeability, blood vessel remodeling, neutrophil degranulation, respiratory burst). This pattern suggests a theme of tissue morphogenesis and remodeling rather than a single pathway, though the broad set and absence of interactions imply context-dependent functions. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050917","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0035584","count":2},{"id":"GO:0043931","count":2},{"id":"GO:0002692","count":2}]},{"hash":"1958323342138321299","title":"Nucleotide Salvage and Metabolic Stress","description":"The set is dominated by GO terms for nucleotide salvage (purine ribonucleoside salvage, UMP and AMP salvage) and nucleotide catabolic processes, with related themes of metabolic stress responses (glucose starvation, xenobiotic stimulus). Immune signaling terms appear less prominently, but do not define the cluster. Therefore, the core theme is nucleotide salvage and metabolic adaptation.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042493","count":2},{"id":"GO:0019284","count":1},{"id":"GO:0046638","count":1},{"id":"GO:0006166","count":1},{"id":"GO:0009166","count":1}]},{"hash":"1736320644413469277","title":"Unknown","description":"The top GO terms are very diverse and span neurobehavioral, vascular, immune, renal, developmental, reproductive, and proteolytic processes with no single unifying function. The cluster has no edges, suggesting no cohesive interaction pattern, so there isn\u2019t a clear, representative label beyond Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0090026","count":3},{"id":"GO:0007202","count":3}]},{"hash":"1185680545572942736","title":"PI3K/AKT and JNK Signaling in Development","description":"The top GO terms consistently point to core signal transduction pathways (PI3K/PKB; JNK cascade; serine phosphorylation) and related trafficking (endosome transport), with accompanying developmental contexts such as thymus and neuron development as well as immune signaling (IL-12). This suggests a cluster of proteins involved in PI3K/AKT and JNK signaling networks functioning within developmental and immune contexts.","confidence":"High","size":21,"edges":127,"triangles":333,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":21},{"id":"GO:0070671","count":21},{"id":"GO:0007257","count":21},{"id":"GO:2000641","count":21},{"id":"GO:0033138","count":21}]},{"hash":"1076659764978326182","title":"Neural development and axon guidance signaling","description":"The prominent terms include nervous system development, axon guidance, Roundabout signaling, and ERK/MAPK cascade regulation, which together indicate neural patterning and guidance cues; the EGFR-related and Golgi trafficking terms fit into receptor signaling and vesicle handling supporting such pathways. A few terms about ossification and spermatid development appear incidental to broader development processes rather than core neural functions, but the neural development axis remains the clearest common theme.","confidence":"High","size":21,"edges":62,"triangles":31,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043552","count":10},{"id":"GO:0007411","count":9},{"id":"GO:0043931","count":9},{"id":"GO:0007399","count":9},{"id":"GO:0007286","count":9}]},{"hash":"1657101994190785682","title":"Ion Transport and Membrane Potential Regulation","description":"The cluster is enriched for potassium and chloride transmembrane transport, regulation of membrane potential, and membrane hyperpolarization, pointing to a common role in controlling ionic fluxes and membrane excitability. Some terms like antibiotic response and sperm capacitation may reflect broader or context-specific annotations, but the dominant signal centers on ion transport and membrane potential control.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":3},{"id":"GO:0042391","count":3},{"id":"GO:0046677","count":2},{"id":"GO:0060081","count":2},{"id":"GO:1902476","count":2}]},{"hash":"453680929841872057","title":"Angiogenesis and Heart Development","description":"The cluster is strongly enriched for angiogenesis and heart development terms (GO:0001525, GO:0007507) and broader multicellular development (GO:0007275), with multiple entries for positive regulation of angiogenesis (GO:0045766) and development-related processes. While immune and neuronal terms appear, the dominant signals point to vascular and cardiac organogenesis as the core theme, justifying a label focused on angiogenesis and cardiovascular development.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045766","count":5},{"id":"GO:0071333","count":5},{"id":"GO:0051092","count":4},{"id":"GO:0010800","count":4},{"id":"GO:0001525","count":4}]},{"hash":"995032703503231329","title":"Neuronal signaling and sensory perception","description":"Based on the dominant GO terms, the cluster is enriched for neural signaling and sensory processing, including dopaminergic synaptic transmission, visual perception and learning, pain perception, cocaine-related behavioral response, and ERK signaling with protein phosphorylation. While terms like heart development and macrophage chemotaxis appear, they are less representative of the core theme. Overall, the label reflects the primary function suggested by the majority of terms.","confidence":"Medium","size":21,"edges":5,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":11},{"id":"GO:0001963","count":11},{"id":"GO:0007601","count":11},{"id":"GO:0010759","count":11},{"id":"GO:0008542","count":11}]},{"hash":"1818894430856588829","title":"Membrane transport and transcriptional regulation in development","description":"The top terms include ion transport (potassium and chloride), ER-Golgi vesicle transport, detoxification, and transcriptional regulation with a development signal, suggesting a shared theme of membrane transport coupled with gene expression control during development and stress responses.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001964","count":4},{"id":"GO:0071805","count":4},{"id":"GO:0009636","count":3},{"id":"GO:1902476","count":3},{"id":"GO:0098869","count":3}]},{"hash":"1481622313460940043","title":"Unknown","description":"The GO terms span plant hormone homeostasis (brassinosteroids), mammalian gland development (mammary, prostate), cell division, immune chemotaxis regulation, and various stress responses (ozone, nematode, insecticide metabolism). There is no single coherent theme or shared function tying these terms together, suggesting a mixed or noisy cluster rather than a distinct biological module.","confidence":"","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0010193","count":3},{"id":"GO:0010268","count":3},{"id":"GO:0010760","count":3},{"id":"GO:0010430","count":3}]},{"hash":"2247759609774601443","title":"Arabinogalactan Protein\u2013Mediated Root Hair and Seed Mucilage Development","description":"The terms cluster around plant glycoproteins (arabinogalactan proteins) involved in root hair formation, seed coat mucilage biosynthesis, and related glycosylation processes; infection-structure formation also aligns with AGP roles in plant development and interfaces, suggesting AGP metabolism as the core theme.","confidence":"High","size":21,"edges":58,"triangles":35,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":5},{"id":"GO:0080147","count":4},{"id":"GO:0048354","count":3},{"id":"GO:0042248","count":3},{"id":"GO:0001744","count":3}]},{"hash":"730592351015043207","title":"Thermo-neuroimmune signaling cluster","description":"Top GO terms point to temperature- and pain-related responses, thermogenesis, inflammatory regulation, and immune cell chemotaxis, with added neuromodulatory signaling (dopamine receptor pathways, amphetamine response) and peripheral context (light absorption, vascular contraction). This mix suggests a broad stress-responsive theme linking thermoregulation, nociception, and neuroimmune/metabolic signaling rather than a single cohesive function. ","confidence":"Low","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0002024","count":13},{"id":"GO:0050728","count":12},{"id":"GO:0007191","count":12}]},{"hash":"1571842304070649643","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":27,"triangles":50,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0000463","count":6},{"id":"GO:0000466","count":6},{"id":"GO:1903608","count":5}]},{"hash":"1147915731712626982","title":"Neural development and synaptic function","description":"Based on the prominent GO terms: retina development, synaptic vesicle clustering, learning, and dendritic spine morphogenesis, the proteins seem enriched for nervous system development and synaptic activity. While there are a few non-neural terms (osteoblast development, gonad development), the majority point to neural development and synaptic regulation, including vesicle clustering and spine dynamics, supporting a label focused on neuronal development and synaptic plasticity.","confidence":"High","size":21,"edges":197,"triangles":1117,"max_degree":20,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":11},{"id":"GO:0060041","count":10},{"id":"GO:0002076","count":9},{"id":"GO:0002087","count":9},{"id":"GO:0008584","count":8}]},{"hash":"201903816753442149","title":"Synapse formation and vesicle trafficking","description":"The top GO terms cluster around neuronal synapses and vesicle handling: brain development, synapse assembly, regulation of synaptic vesicle exocytosis, ubiquitin-dependent endocytosis, intracellular protein transport, and membrane repair. This pattern points to a module coordinating synapse formation and vesicle trafficking in neurons (and related secretory processes).","confidence":"High","size":21,"edges":98,"triangles":121,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:0010796","count":7},{"id":"GO:0031384","count":7},{"id":"GO:2000300","count":7},{"id":"GO:0070086","count":5}]},{"hash":"2283546533019811182","title":"Inflammation, coagulation, and tissue remodeling","description":"The cluster centers on innate immune defense (defense response to Gram-positive bacteria, response to yeast, acute-phase response) alongside coagulation and fibrinolysis, plus angiogenesis and growth terms. This combination points to an inflammatory program that also drives vascular remodeling and wound healing, with some growth-related terms likely peripheral annotations. Confidence: High","confidence":"","size":21,"edges":5,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0043547","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0007596","count":3}]},{"hash":"675409174223005134","title":"Embryonic organ morphogenesis","description":"The top GO terms span development of multiple organs (heart, eye, hindlimb, placenta, gonads, prostate) and include general transcriptional regulation during embryogenesis, indicating a cluster of proteins involved in broad organogenesis rather than a single tissue. This broad yet cohesive developmental theme supports labeling as embryonic organ morphogenesis.","confidence":"High","size":21,"edges":114,"triangles":196,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0001890","count":7},{"id":"GO:0003148","count":7},{"id":"GO:0021986","count":7},{"id":"GO:0060527","count":7}]},{"hash":"262586244392478114","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":135,"triangles":385,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0001731","count":2}]},{"hash":"2202959486136284444","title":"Dopaminergic Signaling and Ion Transport","description":"The cluster centers on neural signaling activities, with GO terms such as adenylate cyclase-activating dopamine receptor signaling pathway and response to amphetamine, together with sodium and potassium ion transmembrane transport, suggesting a core theme of dopamine-mediated signaling coupled to membrane ion transport. While there are additional terms like translation, light absorption, and vascular smooth muscle contraction present, the dominant signals point to neuronal signal transduction and ion conductance as the representative function of this group.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0006412","count":2}]},{"hash":"413772392918556500","title":"Unknown","description":"The top GO terms are diverse, covering immune regulation, neural signaling, sensory photoreception, vascular contraction, and coagulation, with no clear shared function across the 21 proteins. The absence of edges and the scattered themes suggest this cluster is a heterogeneous collection rather than a coherent functional module. ","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050728","count":2},{"id":"GO:0007191","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0016038","count":2},{"id":"GO:0014829","count":2}]},{"hash":"864064261270046178","title":"Unknown","description":"The GO terms for this cluster are a scattered mix (acetylation and transcription regulation, unfolded protein response, macrophage differentiation, androgen signaling, viral transcription, prostate development) with several marked obsolete terms, giving no cohesive functional theme to bind the proteins together.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0006990","count":2},{"id":"GO:0010742","count":2},{"id":"GO:0090043","count":2},{"id":"GO:0043923","count":2}]},{"hash":"2031999228699535997","title":"RNA transcription and processing","description":"The top terms are dominated by DNA-templated transcription and RNA polymerase II elongation, plus mRNA export and rRNA maturation, indicating a cluster of proteins involved in transcription and RNA processing. A few terms (ion transport) are less connected and likely incidental. Therefore this label reflects the central RNA metabolism theme of the cluster.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0006368","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0000466","count":1}]},{"hash":"1961832344818618453","title":"Ubiquitin-Dependent Protein Turnover and Circadian Regulation","description":"Top GO terms show strong enrichment for ubiquitin-dependent protein catabolic process and regulation/types of ubiquitination, alongside regulation of circadian rhythm; with additional links to skeletal muscle and kidney development and B cell signaling, suggesting a broad role of ubiquitin-mediated regulation across tissues. This label captures the dominant theme of ubiquitin-related proteostasis with circadian regulation, while acknowledging broader developmental roles.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0042752","count":5},{"id":"GO:0031397","count":5},{"id":"GO:2000312","count":5},{"id":"GO:0070294","count":5}]},{"hash":"774290727484541575","title":"Transcription Regulation and Inflammatory Signaling","description":"The top terms point to regulation of DNA-templated transcription and transcription itself, indicating proteins that control gene expression. The presence of inflammatory mediator production and chemokine production suggests these regulators are tied to inflammatory gene expression. Although there are some metabolic and developmental terms, the core theme appears to be transcriptional regulation linked to inflammatory signaling.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0006351","count":3},{"id":"GO:0002532","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0005975","count":2}]},{"hash":"912628241281196351","title":"Immune modulation and monoaminergic signaling","description":"The terms point to immune-related regulation (negative regulation of inflammatory response; T cell differentiation and chemotaxis) alongside monoaminergic signaling pathways (dopamine receptor signaling, response to amphetamine, octopamine/tyramine signaling). Cardiovascular notions (heart development, vascular smooth muscle contraction, blood coagulation) appear too, suggesting a cluster of proteins involved in signaling that intersects immune, neural/monoaminergic, and cardiovascular contexts. The mixture implies cross-talk between immune responses and monoaminergic signaling affecting cardiovascular physiology, rather than a single narrow function. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0050728","count":2},{"id":"GO:0007191","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0016038","count":2}]},{"hash":"2043318611625525527","title":"Plant defense responses and cell wall remodeling","description":"This cluster\u2019s GO terms are dominated by plant immune-related processes: defense against fungus and bacteria, systemic acquired resistance, and responses to herbivores, plus plant-type cell wall loosening indicative of cell wall remodeling during defense. A couple terms are general biology references, but the overall theme centers on plant defense and cell wall dynamics.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050832","count":1},{"id":"GO:0042742","count":1},{"id":"GO:0009828","count":1},{"id":"GO:0019953","count":1},{"id":"GO:0009627","count":1}]},{"hash":"2265333066395735272","title":"Unknown","description":"The GO terms span neural development and signaling, immune signaling, organ morphogenesis, and miscellaneous regulation (e.g., ubiquitination), with no single cohesive function tying all 21 proteins together. Therefore a reliable, specific label cannot be assigned.","confidence":"","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":3},{"id":"GO:1900242","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0002467","count":3},{"id":"GO:0042748","count":3}]},{"hash":"156473059792744254","title":"Ubiquitin-Proteasome Regulation in Meiosis and Early Development","description":"The cluster is dominated by ubiquitin-dependent protein catabolic processes (including SCF-dependent proteasomal pathways), with strong signals for meiosis-specific functions (spindle assembly in female meiosis I, oocyte maturation) and microtubule dynamics, plus developmental processes such as neural development milestones. Together these terms point to a theme of regulated proteolysis driving meiotic progression and early development, with some circadian-related regulation likely tied to proteostasis. ","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0042752","count":10},{"id":"GO:0007057","count":8},{"id":"GO:0031146","count":8},{"id":"GO:0008285","count":8}]},{"hash":"392994650533029215","title":"Transcription and signaling regulation","description":"Based on the top GO terms, the cluster centers on modulation of transcription (GO:0045944, GO:0006355) and intracellular signaling (GO:0035023, GO:0043547), with additional involvement in apoptosis and immune regulation. The mix of transcriptional control and signaling regulation suggests a broad regulatory role rather than a single pathway, making a label focused on transcription and signaling regulation appropriate.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0035023","count":2}]},{"hash":"739309706862227525","title":"Viral genome replication and host immune response","description":"The top GO terms center on viral DNA replication, DNA biosynthesis, and formation of infection structure, pointing to viral life-cycle processes. Additional terms indicate host responses such as acute inflammatory response and GM-CSF-mediated signaling, suggesting a link to immune or inflammatory reactions to infection. Some terms (reproductive-related) appear as potential outliers or annotation noise, but the viral replication and host response theme is the most coherent signal across the cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090305","count":4},{"id":"GO:0075015","count":3},{"id":"GO:0071897","count":3},{"id":"GO:0039693","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1951442987689014378","title":"Translational Initiation and Preinitiation Complex Regulation","description":"The cluster is driven by translation initiation-related terms: regulation of translational initiation, formation of the translation preinitiation complex, and IRES-dependent viral initiation/termination-reinitiation, suggesting a cohesive role in starting protein synthesis; a few terms on transcription and stress responses (cadmium, hypoxia) appear but are secondary.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1900365","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1583199680750446579","title":"Intestinal brush-border microvilli organization","description":"Top GO terms center on regulation of microvillus length, terminal web assembly, and intestinal glucose absorption, all tied to brush-border architecture and actin cytoskeleton in intestinal epithelial cells. This suggests the cluster represents proteins coordinating microvilli structure, polarity, and related absorptive functions; vascular-related terms may reflect broader cell\u2013ECM interactions but are less defining for this cluster.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032532","count":3},{"id":"GO:1902896","count":3},{"id":"GO:0001951","count":3},{"id":"GO:0003331","count":2},{"id":"GO:0007596","count":2}]},{"hash":"1805642061070456174","title":"Innate immune signaling and inflammatory mediator production","description":"Among the top GO terms, strong signals for inflammatory mediator production and positive regulation of chemokine production, along with a Toll-like receptor signaling pathway, point to innate immune activation. While there are a few non-immune terms (e.g., carbohydrate metabolism, chitin catabolic process) present, the dominant theme appears to be innate immune signaling and inflammatory mediator generation, supporting the proposed label.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002532","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0034130","count":1}]},{"hash":"2026308025725839905","title":"Ubiquitin-Dependent Protein Degradation","description":"This cluster is dominated by GO terms tied to ubiquitination and ubiquitin-mediated protein catabolism (e.g., ubiquitin-dependent protein catabolic process, regulation of protein ubiquitination, and K33-linked ubiquitination), suggesting the proteins function together in ubiquitin tagging and degradation pathways. A few terms about renal sodium absorption or muscle and sexual development appear, but they are less representative of a unifying function compared to the ubiquitin-proteasome axis. Overall, the label reflects the core theme of ubiquitin-regulated protein turnover in this group.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":12},{"id":"GO:0031397","count":9},{"id":"GO:2000312","count":9},{"id":"GO:0070294","count":9},{"id":"GO:0045496","count":9}]},{"hash":"1641845603908233398","title":"Ubiquitin-Proteasome Regulation of Oocyte Meiosis","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, SCF-dependent proteasomal degradation, and meiotic spindle assembly in female meiosis I, alongside oocyte maturation and microtubule polymerization. This points to a coherent theme: proteasome/ubiquitin-mediated turnover tightly regulating components of meiosis and spindle dynamics during oocyte maturation, with some developmental terms reflecting related cell-cycle control.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0007057","count":4},{"id":"GO:0031146","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0006516","count":4}]},{"hash":"518894852241773390","title":"Dopamine and Adrenergic GPCR Signaling","description":"The top GO terms cluster around GPCR-mediated signaling, especially dopamine- and adrenergic-receptor pathways that activate adenylyl cyclase (cAMP) and phospholipase C. The phototransduction term also points to GPCR involvement, while terms like prostaglandin response and morphine indicate broader ligand-driven GPCR signaling. Heart development may reflect GPCR roles in cardiac signaling, supporting a cohesive Dopamine/Adrenergic GPCR signaling module.","confidence":"High","size":20,"edges":78,"triangles":151,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0007191","count":8},{"id":"GO:0060158","count":8},{"id":"GO:0071880","count":8},{"id":"GO:0043547","count":8}]},{"hash":"1134643978706460257","title":"Cell Signaling and Adhesion","description":"The GO terms point to diverse signaling and adhesion-related processes across tissues: ephrin receptor signaling, T cell receptor signaling, dopamine response, axon growth, focal adhesion assembly, calcium-dependent exocytosis, and PI3K regulation. The bone resorption term may reflect signaling in bone-resorbing cells, but overall the cluster centers on receptor- and downstream signaling coupled with cell-adhesion dynamics across systems. This supports a broad, cohesive theme of cell signaling and adhesion, with some multisystem involvement. ","confidence":"Medium","size":20,"edges":19,"triangles":1,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045453","count":6},{"id":"GO:0000186","count":5},{"id":"GO:0033138","count":4},{"id":"GO:1903351","count":4},{"id":"GO:0048013","count":4}]},{"hash":"1712424345872013458","title":"Developmental morphogenesis and cell migration","description":"This cluster centers on embryonic development processes and tissue remodeling, with GO terms for axis elongation and convergent extension (developmental morphogenesis), organogenesis, gastrulation-related cell movement, pancreas development, and muscle cell migration, plus some transcription regulation and inflammatory mediator production that can accompany differentiation programs. The common thread is developmental remodeling and cellular migration rather than a single signaling pathway or function, so the label reflects the core theme without overfitting.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":1},{"id":"GO:0030308","count":1},{"id":"GO:0060215","count":1},{"id":"GO:0060028","count":1},{"id":"GO:0060029","count":1}]},{"hash":"417298768660870718","title":"Cardiac Electrical Activity and Contraction Regulation","description":"The top terms cluster around cardiac muscle electrophysiology\u2014ventricular, SA node, and atrial action potentials, along with calcium-mediated regulation of contraction and response to muscle stretch\u2014suggesting a shared theme of cardiac electrical activity and contraction control. Some outliers mention metabolism and dsRNA/immune-related processes, but the dominant signal is cardiac function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005975","count":2},{"id":"GO:0009103","count":2},{"id":"GO:0071359","count":2},{"id":"GO:0086005","count":2},{"id":"GO:0010881","count":2}]},{"hash":"167408772296866383","title":"Meiosis I spindle assembly and ubiquitin-proteasome degradation","description":"The top GO terms collectively point to proteasomal, ubiquitin-dependent protein catabolism (SCF), oocyte maturation, and spindle assembly in female meiosis I, supported by microtubule polymerization. While there are a few neural development terms, the strongest signal centers on meiosis-related machinery and protein turnover that regulate meiotic progression and spindle dynamics.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0006516","count":7},{"id":"GO:0021993","count":7},{"id":"GO:0070544","count":7},{"id":"GO:0008285","count":7}]},{"hash":"70014347712900667","title":"Angiogenesis and Neural Development Signaling","description":"The top GO terms cluster around positive regulation of angiogenesis and VEGF receptor signaling, plus neuronal development and axon fasciculation, pointing to signaling pathways that coordinate vascular growth and neural development. Peripheral terms like defense response and glucose stimulus are present but less central, so the core theme remains vascular- and neurodevelopmental signaling.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045766","count":12},{"id":"GO:0014068","count":11},{"id":"GO:0050830","count":9},{"id":"GO:0071333","count":9},{"id":"GO:0048010","count":8}]},{"hash":"1567454158153822388","title":"Neurological signaling and drug response","description":"Based on the top GO terms, this cluster centers on nervous system functions such as regulation of synaptic transmission (glutamatergic), sensory perception and pain processing, prepulse inhibition, visual learning, and responses to psychoactive drugs (amphetamine and morphine). These collectively indicate CNS signaling and behavior-related processes, with a couple of outliers (heart development and cell wall macromolecule catabolic process) that may reflect broader or cross-species annotations. Therefore, the label captures the core theme of neural signaling and drug responsiveness.","confidence":"Medium","size":20,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":3},{"id":"GO:0051930","count":3},{"id":"GO:0051967","count":3},{"id":"GO:0008542","count":3},{"id":"GO:0016998","count":3}]},{"hash":"1426608036095026351","title":"ER stress response and proteostasis signaling","description":"This cluster centers on unfolded protein response and ER stress (e.g., response to unfolded protein, translation initiation during ER stress), coupled with proteostasis-related processes such as protein targeting/trafficking and redox homeostasis, and connected signaling via ERK cascade regulation. The convergence of stress-response, translation control, and trafficking suggests a cohesive proteostasis/ER-stress signaling module, with a possible neuronal context indicated by dopamine uptake regulation. ","confidence":"High","size":20,"edges":73,"triangles":138,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0051586","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0010513","count":4},{"id":"GO:0031204","count":4}]},{"hash":"439150264625894494","title":"Unknown","description":"The top terms mix autophagy-related processes (autophagosome maturation; intralumenal vesicle formation) with several sugar catabolic pathways (rhamnose, arabinose, fucose, L-ascorbic acid) and even obsolete GO entries. There is no single coherent function that ties these terms together for this cluster, and with no edges between proteins, the group does not point to a specific, interpretable theme. Therefore I cannot assign a meaningful cluster name beyond Unknown.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":2},{"id":"GO:0070676","count":2},{"id":"GO:0019301","count":2},{"id":"GO:0019324","count":2},{"id":"GO:0019284","count":2}]},{"hash":"549484784822342397","title":"Actin Remodeling and GTPase Signaling","description":"These proteins cluster around actin cytoskeleton processes: polymerization, bundle assembly, nucleation, and lamellipodium morphogenesis, along with regulation of GTPase activity and signal transduction via phosphorylation. The presence of COPII vesicle cargo loading hints at coordination between actin dynamics and trafficking, while calcium release into cytosol supports signaling/events linked to contraction and cytoskeletal remodeling. Heart development and cocaine behavioral response terms suggest tissue-specific contexts where actin remodeling is critical, reinforcing the overall theme of cytoskeletal dynamics and associated signaling. Therefore, the cluster is best described as Actin remodeling and GTPase signaling.","confidence":"High","size":20,"edges":74,"triangles":98,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0030041","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0048148","count":3}]},{"hash":"273720101596977177","title":"Protein quality control and cytoskeletal remodeling","description":"This cluster links protein processing and quality control (glycoprotein catabolic process, protein deglycosylation, misfolded protein handling) with cytoskeletal dynamics and signaling (lamellipodium morphogenesis, muscle development, neurotrophin signaling, calcium entry regulation), suggesting a theme where protein quality control interfaces with cytoskeletal remodeling in muscle and neural contexts.","confidence":"Medium","size":20,"edges":154,"triangles":657,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006516","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0006515","count":2},{"id":"GO:0006517","count":2},{"id":"GO:2001256","count":2}]},{"hash":"2235374363334755290","title":"Unknown","description":"The top GO terms are highly diverse (defense to Gram-positive bacteria, various developmental processes, coagulation, signaling adjustments, and pigmentation) with no clear, shared function or pathway among the 20 proteins, and there are no reported edges. This makes a coherent, specific cluster label inappropriate.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":4},{"id":"GO:0008584","count":3},{"id":"GO:0007596","count":3},{"id":"GO:0060348","count":3},{"id":"GO:0019800","count":3}]},{"hash":"2206732322491337276","title":"Neural signaling and behavioral modulation","description":"The top GO terms are dominated by neural and behavioral functions: responses to psychoactive substances (amphetamine, morphine), visual learning, locomotory behavior, regulation of sensory perception of pain, and modulation of glutamatergic synaptic transmission, plus prepulse inhibition and sodium transport. These collectively point to proteins involved in neural signaling and the modulation of behavior and sensory processing. An outlier term about cell wall macromolecule catabolic process is likely non-representative noise. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":5},{"id":"GO:0008542","count":5},{"id":"GO:0007626","count":5},{"id":"GO:0051930","count":4},{"id":"GO:0051967","count":4}]},{"hash":"981010797690921213","title":"Unknown","description":"The GO terms are highly diverse, including mitochondrial inheritance, actin cytoskeleton assembly/remodeling, circadian rhythm, pollen hydration, starch catabolic process, nail development, signal transduction, sucrose response, and regulation of protein kinase activity. There is no clear shared function or theme tying all proteins together, so a single coherent label cannot be assigned.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000001","count":1},{"id":"GO:0000147","count":1},{"id":"GO:0034314","count":1},{"id":"GO:0007623","count":1},{"id":"GO:0009859","count":1}]},{"hash":"1397109287827541493","title":"Unknown","description":"The terms are mixed between glycosylation/glycosphingolipid biosynthesis and various neural/vascular development processes, with only a single edge linking proteins. There is no clear, cohesive function that unites the majority of terms, so a reliable, representative label cannot be assigned.","confidence":"","size":20,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":2},{"id":"GO:0001576","count":2},{"id":"GO:0036210","count":2},{"id":"GO:0051999","count":2},{"id":"GO:0006486","count":2}]},{"hash":"1041750686817897895","title":"Unknown","description":"The terms span inflammation, metabolism, muscle/vascular development, nervous system development, and even chitin catabolism, with no single dominant function linking the proteins. There are no edges to suggest a cohesive pathway or process, so a specific functional label isn\u2019t justifiable.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":3},{"id":"GO:0002532","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0055114","count":2}]},{"hash":"24972263693562372","title":"Retina and Heart GPCR-Calcium Signaling","description":"The top GO terms point to vision-related signaling (visual perception, opsin signaling) and heart-related processes (heart development, regulation of cardiac contraction). Additional terms reflect GPCR-driven pathways influencing calcium release, adenylate cyclase activation, GTPase activity, and phosphatidylinositol biosynthesis, suggesting a common theme of GPCR-mediated calcium and cAMP signaling in both retinal and cardiac contexts. Thus, the cluster appears to represent retina- and heart-focused GPCR-calcium signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":2},{"id":"GO:0055117","count":2},{"id":"GO:0022400","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0008284","count":2}]},{"hash":"362966009998648738","title":"GTPase-Regulated Neuronal Signaling","description":"The cluster is enriched for terms like positive regulation of GTPase activity and neuropeptide signaling, with additional but weaker signals for small GTPase\u2013mediated signaling, protein transport, and transcription-related processes. Together, these suggest a cohesive theme of neuronal signaling modulated by GTPases, especially via neuropeptide pathways, making this a reasonable label for a GTPase-driven neuronal signaling module. ","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0007218","count":2},{"id":"GO:0006364","count":1},{"id":"GO:0035019","count":1},{"id":"GO:0043486","count":1}]},{"hash":"587558693697324256","title":"Nematode development and molting","description":"The top GO terms point to nematode-specific biology, including pharyngeal pumping, the molting cycle with cuticle formation, and embryonic axis/development processes, plus reproductive controls like polyspermy prevention. This combination suggests a cohesive cluster centered on nematode development and cuticle biology rather than across unrelated systems.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":2},{"id":"GO:2000360","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0043050","count":2},{"id":"GO:0035124","count":2}]},{"hash":"1510168234592069392","title":"Unknown","description":"The top GO terms span muscle development (heart development, sarcomere organization) but also transcription regulation, fear behavior, liver regeneration, and chromatin modification, with no single cohesive theme tying all proteins together. Therefore a confident, specific label is not justifiable.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0001662","count":2},{"id":"GO:0090309","count":1}]},{"hash":"993011692776548556","title":"Unknown","description":"This cluster includes proteins annotated to a wide range of processes\u2014megakaryocyte and seminiferous tubule development, erythrocyte differentiation, mRNA splicing, metabolism, and inflammatory/chemokine signaling\u2014without a single unifying function. The diverse GO terms and lack of a shared pathway or cellular context suggest there isn\u2019t a coherent theme tying these proteins together, so a concise, specific label cannot be confidently assigned.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035855","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0072520","count":2},{"id":"GO:0007141","count":2},{"id":"GO:1990414","count":2}]},{"hash":"624433962066892309","title":"Vascular development and hemostasis","description":"The cluster is driven by GO terms centered on blood coagulation, fibrinolysis, and angiogenesis (e.g., coagulation, fibrinolysis, regulation of fibrinolysis, and positive regulation of angiogenesis), with supporting MAPK/ERK signaling. While some terms touch on differentiation and remodeling in other tissues (trophoblast giant cells, skeletal muscle), the dominant theme ties to blood vessel formation and regulation of hemostasis, suggesting proteins that participate in vascular development and coagulation control.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000312","count":3},{"id":"GO:0007596","count":2},{"id":"GO:0051918","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0070371","count":2}]},{"hash":"1621076225759969898","title":"TORC1-Driven Growth and Translation","description":"Centred around TORC1 signaling, the cluster highlights growth and protein synthesis regulation, with translation initiation and reinitiation, mRNA transport, and vesicle trafficking between the Golgi and ER. Additional terms point to cell division and regulation of GTPase activity, suggesting a coordinated network linking growth signals to translational control and intracellular transport. The defense term is less cohesive but may reflect shared stress-response components; overall, the group seems to represent growth- and translation-centric processes rather than a single function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0002188","count":2}]},{"hash":"2184674068639943819","title":"Immune regulation and T cell signaling","description":"The top GO terms cluster around immune modulation and T cell biology, including negative regulation of inflammatory response, T cell chemotaxis, CD8-positive gamma-delta intraepithelial T cell differentiation, and negative regulation of eosinophil extravasation. While there are a few signaling or sensory terms (dopamine/aminergic signaling, light absorption, vascular contraction) that seem less related, the dominant theme is immune regulation and T cell\u2013related signaling, suggesting the proteins group to immune response modulation more than to a single, cohesive pathway. Confidence: Medium","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":9},{"id":"GO:0007191","count":9},{"id":"GO:0001975","count":9},{"id":"GO:0016038","count":9},{"id":"GO:0014829","count":9}]},{"hash":"1668779430121048205","title":"Cardio-neuro-immune regulators","description":"These terms span coagulation, inflammatory control, immune cell trafficking, neural signaling, and sensory processing, implying proteins that regulate across cardiovascular, immune, and nervous systems. The cluster appears multisystem rather than a single pathway, justifying the name Cardio-neuro-immune regulators.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0050728","count":3},{"id":"GO:0001975","count":3},{"id":"GO:0051930","count":3},{"id":"GO:0002407","count":3}]},{"hash":"1217569666886628937","title":"Immune Activation and Chemokine Signaling","description":"This cluster is dominated by immune-related GO terms: humoral immune response, positive regulation of T cell proliferation, and positive regulation of chemokine production, suggesting a coherent theme of immune activation and inflammatory signaling. Other terms present (such as TGF-beta receptor signaling and some developmental or fertilization-associated terms) appear as broader or pleiotropic functions and are less representative of the core theme. Overall, the immune-focused terms provide the best unifying explanation for the cluster.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1905065","count":2},{"id":"GO:0042102","count":2},{"id":"GO:0002455","count":2},{"id":"GO:0090197","count":2},{"id":"GO:2000360","count":1}]},{"hash":"1232281147851600647","title":"Regulation of Excitatory Synaptic Transmission","description":"The terms show a clear focus on glutamatergic synapses and postsynaptic modulation: positive regulation of AMPA and NMDA receptor activity, regulation of excitatory postsynaptic potentials, and PSD-95 clustering, alongside processes like synapse maturation and memory. This supports a cohesive theme around modulating excitatory synaptic signaling at the postsynaptic site; ancillary terms like amphetamine or pain may reflect broader neuromodulatory contexts but do not redefine the core function.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":3},{"id":"GO:0048265","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007613","count":2},{"id":"GO:0090129","count":2}]},{"hash":"1871249378654803556","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0061158","count":2},{"id":"GO:0006449","count":2},{"id":"GO:0042274","count":1},{"id":"GO:0000447","count":1}]},{"hash":"832538819172179749","title":"Unknown","description":"The top GO terms are mixed: intracellular signal transduction and positive regulation of protein tyrosine kinase activity point to signaling, while viral process, virion attachment to host cell, and symbiont entry into host cell indicate virus-host interactions, and several meiosis/cytokinesis terms suggest unrelated cell division roles. There is no single cohesive function linking these annotations, so a specific, representative label cannot be confidently assigned.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":2},{"id":"GO:0061098","count":2},{"id":"GO:0016032","count":1},{"id":"GO:0046718","count":1},{"id":"GO:0019062","count":1}]},{"hash":"62121663553126155","title":"Ubiquitin-regulated muscle development","description":"This cluster combines skeletal muscle development terms with ubiquitin-related processes (ubiquitination, ubiquitin-dependent proteolytic pathways, including K33-linked ubiquitination), suggesting a theme of how protein turnover influences muscle development. A couple of terms appear as noise, but the ubiquitination and muscle development connection is the strongest signal.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:0031397","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0070294","count":2},{"id":"GO:0045496","count":2}]},{"hash":"766459434851756055","title":"Ubiquitin-Proteasome Regulation of Meiosis and Development","description":"The top GO terms cluster around ubiquitin-dependent protein catabolic processes and SCF-mediated proteolysis, with strong signals for spindle assembly in female meiosis I and oocyte maturation, indicating a core role in meiosis and cell-cycle control. Additional terms on microtubule dynamics and negative regulation of proliferation fit cytoskeletal and growth-regulatory contexts, while neural-development terms suggest broader roles for these ubiquitin-system components in early development. Overall, these proteins appear to coordinate protein turnover during meiosis and initial developmental processes, justifying this label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0042752","count":13},{"id":"GO:0031146","count":12},{"id":"GO:0007057","count":10},{"id":"GO:0008285","count":10}]},{"hash":"1314068838771231407","title":"Tissue-specific development and differentiation","description":"The top GO terms cluster around development and differentiation across multiple tissues\u2014heart, placenta, fat tissue, and vagina\u2014suggesting a shared theme of organ/tissue development. Retinoic acid response also ties into developmental signaling, while other terms like lipopolysaccharide response appear as ancillary signals. Overall, the dominant pattern is tissue-specific development and differentiation, making this a concise and representative label.","confidence":"Medium","size":19,"edges":104,"triangles":233,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043433","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0045444","count":10},{"id":"GO:0071222","count":10},{"id":"GO:0090188","count":10}]},{"hash":"1905282709019369257","title":"Endosome Trafficking and Caveolin-M-mediated Endocytosis","description":"This cluster centers on intracellular trafficking of endosomes and receptor internalization via caveolin pathways, as shown by prominent GO terms for endosome transport and caveolin-mediated endocytosis. The presence of signaling-related terms (e.g., interleukin-1 signaling, dopamine response) fits with endocytic regulation of receptor signaling, although a few terms (like thymus development) are less directly connected. Overall, a cohesive theme around endocytic trafficking and related signaling with moderate confidence.","confidence":"Medium","size":19,"edges":153,"triangles":700,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000641","count":19},{"id":"GO:0033138","count":19},{"id":"GO:0048538","count":19},{"id":"GO:0010696","count":19},{"id":"GO:1903351","count":19}]},{"hash":"679278486704176850","title":"Potassium transport and muscle contraction","description":"The cluster is dominated by GO terms for potassium ion import/export and transmembrane transport, which points to ion handling across membranes and membrane potential changes. Corroborating terms like membrane hyperpolarization, calcium release from the sarcoplasmic reticulum, and smooth/cardiac muscle\u2013related contraction imply a shared theme of excitation-contraction coupling in muscle tissues, including cardiac and smooth muscle. Some terms (CO2 detection, pain perception, general development) appear less directly connected and may reflect broader physiological context, but the core signal centers on ion transport driving muscle function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1990573","count":8},{"id":"GO:0097623","count":8},{"id":"GO:0003031","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0060081","count":8}]},{"hash":"341307874927100931","title":"Glycolysis and TCA Cycle Core Metabolism","description":"This cluster is dominated by central carbon metabolic pathways: glycolysis, the tricarboxylic acid cycle, gluconeogenesis, and related shunts (pentose phosphate, glyoxylate cycle, 2-oxoglutarate metabolism). The co-occurrence of these GO terms suggests a cohesive module focused on energy production and carbon flux rather than a single specialized function, supporting the label of a core metabolic cluster.","confidence":"High","size":19,"edges":139,"triangles":566,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":7},{"id":"GO:0006096","count":6},{"id":"GO:0019878","count":4},{"id":"GO:0006103","count":4},{"id":"GO:0061621","count":3}]},{"hash":"5208250288544970","title":"Developmental processes and cell cycle regulation","description":"The GO terms cluster around developmental events (post-embryonic development, liver development, antennal morphogenesis) and cell-cycle/translation regulation (mitotic cell cycle, regulation of translational fidelity), suggesting a theme of developmental regulation tied to cell-cycle control, despite some more general or unrelated terms present. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0006450","count":2},{"id":"GO:0009791","count":2},{"id":"GO:0001889","count":2},{"id":"GO:0006478","count":2}]},{"hash":"1812797593433344726","title":"Neuroimmune and sensory signaling","description":"The top GO terms mix immune/inflammatory processes (blood coagulation, negative inflammatory regulation, T cell differentiation) with neural/sensory pathways (dopamine receptor signaling, amphetamine response, temperature and pain perception, light absorption) and vascular activity, plus thermogenesis. This points to a cluster where immune modulation intersects neural-sensory and metabolic signals.","confidence":"Medium","size":19,"edges":15,"triangles":0,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":18},{"id":"GO:0071502","count":18},{"id":"GO:0019233","count":18},{"id":"GO:0002024","count":18},{"id":"GO:0050728","count":17}]},{"hash":"2270188123691987287","title":"Viral DNA Integration and Proviral Latency","description":"The cluster is dominated by GO terms relating to viral genome integration and proviral latency (establishment of integrated proviral latency, DNA integration), along with DNA replication, recombination, and RNA-templated DNA biosynthesis (reverse transcription). These point to a viral life cycle theme, including host entry and nuclear penetration, and even host apoptosis modulation, despite a stray phototropism term that likely reflects an unrelated annotation. Thus the central theme is viral DNA integration and latency mechanisms.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0075732","count":2},{"id":"GO:0039651","count":2}]},{"hash":"1878620458700711130","title":"Neural and Angiogenic Development with Immune Signaling","description":"The top GO terms are dominated by neural development (axonogenesis, synapse assembly) and angiogenesis, with supporting immune-related processes (response to LPS, dsRNA, interferon-beta production, xenophagy) and dopamine response, suggesting a multi-function cluster centered on neural/vascular development coupled with immune signaling. Edges are absent, indicating these proteins may participate across related pathways rather than a single cohesive module.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007409","count":11},{"id":"GO:0001525","count":10},{"id":"GO:0014068","count":9},{"id":"GO:1903351","count":9},{"id":"GO:1904417","count":9}]},{"hash":"2285389677982034952","title":"Embryonic organ development","description":"These proteins are enriched for embryonic development and organ morphogenesis across diverse tissues (eye, heart, ovary, placenta, trachea, prostate). The shared theme is morphogenetic processes guiding organ formation during development, suggesting a broad role in embryonic organogenesis rather than a tissue-specific function.","confidence":"High","size":19,"edges":126,"triangles":405,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048048","count":7},{"id":"GO:0055010","count":6},{"id":"GO:0060038","count":6},{"id":"GO:0001547","count":6},{"id":"GO:0001701","count":6}]},{"hash":"564536095496952663","title":"Amino acid biosynthesis and nitrogen metabolism","description":"The top GO terms concentrate on lysine and arginine biosynthesis (including diaminopimelate routes) along with related nitrogen metabolism activities such as peptide turnover, purine metabolism, allantoin/ureide catabolism, and even antibiotic biosynthesis, suggesting a cluster broadly tied to amino acid production and nitrogen-containing metabolism rather than a single specific pathway.","confidence":"Medium","size":19,"edges":23,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":5},{"id":"GO:0019877","count":5},{"id":"GO:0009089","count":5},{"id":"GO:0006508","count":4},{"id":"GO:0043171","count":4}]},{"hash":"1082585255554536101","title":"Calcium signaling and kinase regulation in muscle","description":"This cluster centers on calcium handling (release into cytosol, Ryanodine receptor activity) and kinase activity control (including PKC-related signaling and negative regulation of kinases), with links to muscle development and hypertrophy, plus some broader stress-related and xenobiotic-response terms. These patterns together suggest a cohesive theme of calcium- and kinase-mediated signaling in muscle cells, despite a few outlier terms like axonogenesis.","confidence":"Medium","size":19,"edges":48,"triangles":19,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:1903244","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0042694","count":2},{"id":"GO:0042144","count":2}]},{"hash":"926185303262323495","title":"Nucleic acid metabolism and xenobiotic response","description":"The cluster is enriched in DNA-related processes (DNA recombination, DNA catabolic process) and regulation of mRNA stability, alongside terms for xenobiotic response and redox homeostasis, suggesting a general theme of nucleic acid metabolism coupled with cellular stress/detox pathways. Some terms (infection structure formation, phosphatidylinositol dephosphorylation) point to signaling roles but do not converge on a single precise function, so the grouping appears broad rather than a tightly defined pathway.","confidence":"Medium","size":19,"edges":63,"triangles":167,"max_degree":12,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":6},{"id":"GO:0075015","count":4},{"id":"GO:0043488","count":3},{"id":"GO:0046856","count":3},{"id":"GO:0045454","count":3}]},{"hash":"681338297609727569","title":"T cell chemotaxis and immune signaling","description":"The top GO terms show T cell\u2013related activities (T cell chemotaxis, CD8-positive gamma-delta intraepithelial T cell differentiation) and inflammation regulation (negative regulation of inflammatory response), pointing to immune signaling and cell movement as the core theme. The presence of GPCR signaling and xenobiotic response terms (dopamine receptor signaling, amphetamine response, octopamine/tyramine signaling, response to xenobiotic stimulus) suggests broader signaling processes that can modulate immunity, though these are ancillary to the main immune-focused terms. Overall, the cluster appears best captured by a T cell\u2013driven immune signaling label, acknowledging some non-immune annotations present. ","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":8},{"id":"GO:0042493","count":8},{"id":"GO:0050728","count":7},{"id":"GO:0007191","count":7},{"id":"GO:0001975","count":7}]},{"hash":"1185006346499582736","title":"Thermosensory GPCR signaling and circadian regulation","description":"The top GO terms point to temperature-related responses (cellular response to temperature stimulus, diet-induced thermogenesis) and various sensory processes (pain, vision), along with regulation of circadian rhythm and GPCR signaling pathways (cGMP-linked dopamine receptor signaling). Taken together, these suggest a cluster centered on thermosensory and broader sensory signaling implemented through GPCR cascades, with circadian regulation as a linked theme. ","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":14},{"id":"GO:0019233","count":14},{"id":"GO:0002024","count":14},{"id":"GO:0042752","count":13},{"id":"GO:0042391","count":12}]},{"hash":"517497283919543901","title":"Innate immune defense and interferon response","description":"The top GO terms are dominated by innate immune functions: cellular response to interferon-beta, defense responses to Gram-negative bacteria and protozoa, and general innate immune response. This indicates the proteins likely participate in interferon-mediated defense and pathogen recognition. Ribosome biogenesis and cell cycle terms appear but are secondary to the immune-related themes.","confidence":"High","size":19,"edges":32,"triangles":0,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0035458","count":5},{"id":"GO:0050829","count":5},{"id":"GO:0042832","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0042254","count":4}]},{"hash":"2130821543137463278","title":"Mitochondrial translation and ribosome biogenesis","description":"The most represented GO terms are translation, mitochondrial electron transport steps, and ribosomal large subunit biogenesis, which together point to a cluster of proteins involved in mitochondrial protein synthesis and ribosome assembly. Other metabolic terms appear secondary, not defining the core function.","confidence":"High","size":19,"edges":171,"triangles":969,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006120","count":3},{"id":"GO:0006123","count":3},{"id":"GO:0042273","count":2},{"id":"GO:0071284","count":1}]},{"hash":"481976823227923918","title":"Unknown","description":"The listed GO terms are a scattered mix including metabolism (glycine biosynthesis, dUMP catabolic, oxidation-reduction), DNA replication, and regulatory processes (negative regulation of translation, G1/S transcription regulation), plus tissue-specific terms (intestinal epithelial maturation, liver regeneration) and an organophosphorus response. This lack of a cohesive, single-function theme suggests no clear common function tying the cluster together.","confidence":"","size":19,"edges":32,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0017148","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0060574","count":1},{"id":"GO:0097421","count":1}]},{"hash":"283555123226924868","title":"Unknown","description":"The GO terms show a mix of bone morphogenesis, chromatin/nucleolus organization, signaling, and membrane trafficking with no clear shared function or interaction pattern tying the proteins, so a cohesive cluster label cannot be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060349","count":2},{"id":"GO:0006336","count":1},{"id":"GO:0010923","count":1},{"id":"GO:1902072","count":1},{"id":"GO:1902306","count":1}]},{"hash":"1675119455178420369","title":"Unknown","description":"The top GO terms are diverse, spanning muscle and nervous system development, B cell signaling, cell-cycle/ubiquitin-proteasome processes, circadian regulation, and stress responses. There is no single clear function tying the terms together, suggesting the cluster may reflect mixed roles or annotation noise rather than a cohesive biological theme.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007519","count":7},{"id":"GO:0050853","count":7},{"id":"GO:0051436","count":7},{"id":"GO:0031571","count":7},{"id":"GO:0042787","count":7}]},{"hash":"2008369818835453685","title":"Proviral Integration and Latency","description":"Based on the GO terms, the cluster centers on retroviral infection and proviral maintenance, including DNA integration, DNA recombination, RNA-templated DNA biosynthesis, and establishment of integrated proviral latency, along with entries into host cells and nuclear penetration; together these indicate a retroviral integration/latency program and host\u2013virus interaction rather than generic host DNA processes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075713","count":5},{"id":"GO:0015074","count":5},{"id":"GO:0006310","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0075732","count":4}]},{"hash":"206507255755850764","title":"Unknown","description":"The top GO terms span neuronal signaling, learning, and behavior, plus DNA replication, collagen organization, immune signaling, and ion transport, with no single dominant theme tying them together, so a specific, cohesive label isn\u2019t supported.","confidence":"","size":19,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0035235","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0001967","count":2}]},{"hash":"2031687930130922192","title":"Glycosylation-linked leukocyte migration","description":"The cluster mixes glycosylation and fucosylation processes (N-glycan fucosylation, protein glycosylation, Lewis a epitope biosynthesis, L-fucose catabolic process) with leukocyte trafficking (leukocyte migration). While a few terms touch neural development and tissue remodeling, the dominant signal points to glycan modification guiding immune cell movement.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002522","count":2},{"id":"GO:0036071","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0021799","count":2},{"id":"GO:0006486","count":2}]},{"hash":"1077237441912820088","title":"Cardiac and neural development signaling","description":"The terms point to signaling pathways involved in heart development (GO:0007507) and neural development/neuronal activity (GO:0007409, GO:0060079, GO:0008286), along with modifiers like JNK cascade regulation and actin crosslinking, suggesting a cluster of proteins coordinating development and cytoskeletal dynamics in cardiac and neural contexts. A plant-specific term (abscisic acid-activated signaling) may reflect broad or cross-kingdom annotations but does not overpower the main theme. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":3},{"id":"GO:0046330","count":2},{"id":"GO:1903244","count":2},{"id":"GO:0051764","count":2},{"id":"GO:0007409","count":2}]},{"hash":"1747803955360692400","title":"Leukocyte chemotaxis and inflammation regulation","description":"This cluster is enriched for immune cell\u2013related movement terms (eosinophil chemotaxis, T cell chemotaxis) and for negative regulation of inflammatory responses, suggesting a theme around leukocyte trafficking and modulation of inflammation. There are additional xenobiotic response signals and some dopaminergic signaling terms, but the dominant pattern points to immune cell migration and inflammation control.","confidence":"Medium","size":19,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071407","count":3},{"id":"GO:0048245","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0050728","count":2},{"id":"GO:0007191","count":2}]},{"hash":"1933236892566166612","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0003342","count":2},{"id":"GO:0006351","count":2},{"id":"GO:1903883","count":2},{"id":"GO:1903886","count":2},{"id":"GO:1903265","count":2}]},{"hash":"904839851656008241","title":"Diverse Membrane Transporters","description":"GO terms show transmembrane transport of a wide range of substrates (ions, sugars, vitamins, xenobiotics, neurotransmitter loading into vesicles), indicating these proteins are primarily membrane transporters with broad substrate specificity.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0015707","count":4},{"id":"GO:0015739","count":4},{"id":"GO:0015757","count":4}]},{"hash":"186846916549837970","title":"Vascular and placental morphogenesis","description":"The cluster\u2019s top terms are dominated by morphogenesis and developmental signaling, including coronary artery morphogenesis, epithelial cell morphogenesis involved in placental branching, and hepatocyte growth factor receptor signaling, as well as Hedgehog/Smoothened pathway regulation. These collectively suggest a cohesive theme around tissue development and vascular remodeling, with additional, less central terms (blood coagulation, complement activation, neuronal plasticity) likely reflecting broader context rather than core function. Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0010867","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0048632","count":2},{"id":"GO:0048012","count":2}]},{"hash":"2193225303427050061","title":"Developmental ECM remodeling and vascular-immune processes","description":"The cluster\u2019s top GO terms converge on developmental events (midbrain and post-embryonic development) and tissue remodeling, with strong ties to extracellular matrix interactions (cell-matrix adhesion, elastin catabolic process) and vascular/immune functions (blood coagulation, complement activation, chemokine regulation), suggesting a cohesive theme of developmental tissue remodeling involving ECM dynamics and vascular-immune interplay.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0030901","count":9},{"id":"GO:0045944","count":9},{"id":"GO:2000097","count":8},{"id":"GO:0048771","count":8},{"id":"GO:0045079","count":8}]},{"hash":"1091722306959681873","title":"Monoaminergic signaling in immune-vascular regulation","description":"This cluster centers on monoaminergic signaling (dopamine, octopamine/tyramine) and related responses (e.g., amphetamine response), paired with immune modulation (T cell chemotaxis, CD8+ gamma-delta differentiation, negative regulation of inflammatory response/eosinophil extravasation) and vascular/hematologic processes (blood coagulation, vascular smooth muscle contraction). The common theme is signaling pathways that connect neural neurotransmission to immune and vascular regulation, with a few outliers like light absorption that do not override the overall pattern.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":13},{"id":"GO:0007191","count":13},{"id":"GO:0001975","count":13},{"id":"GO:0016038","count":13},{"id":"GO:0014829","count":13}]},{"hash":"1940387354336879064","title":"Cardiac and craniofacial morphogenesis","description":"These proteins are annotated with developmental GO terms centered on heart formation (endocardial cushion EMT, outflow tract morphogenesis, aorta development) and craniofacial/palate development (roof of mouth). The shared theme is embryonic morphogenesis and tissue remodeling in both cardiac and craniofacial contexts, justifying a label of cardiac and craniofacial morphogenesis.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":2},{"id":"GO:0003198","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0070723","count":1},{"id":"GO:0060394","count":1}]},{"hash":"980483576122116130","title":"Neuropeptide signaling and organ development","description":"This cluster is dominated by neuropeptide signaling and pain-related terms, with several peptide hormone maturation (endothelin, angiotensin) and IGF-related signaling terms, plus heart and kidney development and ERK signaling, suggesting a theme of peptide-mediated signaling influencing organ development and vascular function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0019233","count":7},{"id":"GO:0007218","count":7},{"id":"GO:0001822","count":6},{"id":"GO:0042742","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1108434680491668852","title":"Ribosome biogenesis and translation control","description":"This cluster centers on processes tied to protein synthesis and growth, including ribosomal large subunit biogenesis, mRNA transport, TORC1 signaling, and peptidyl-serine dephosphorylation, which collectively point to regulation of translation. Additional terms related to GTPase activity regulation and amino acid response support a broader signaling context, with a lens fiber differentiation term appearing incidental. Overall, the translation and ribosome biogenesis theme best explains the set.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0042273","count":2},{"id":"GO:2000791","count":2},{"id":"GO:0061087","count":2}]},{"hash":"677804621269623228","title":"Ubiquitin-Dependent Proteolysis in Oocyte Meiosis","description":"This cluster is enriched for ubiquitin-dependent protein catabolic processes and SCF-dependent proteasomal degradation, indicating a core role in regulated protein turnover. It also includes meiosis-related terms such as oocyte maturation and spindle assembly in female meiosis I, along with microtubule polymerization, suggesting coordinated proteolysis and cytoskeletal dynamics during oocyte meiosis. While circadian rhythm regulation appears among the terms, the dominant theme centers on proteolysis guiding meiotic progression in oocytes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0031146","count":7},{"id":"GO:0042752","count":7},{"id":"GO:0006516","count":6},{"id":"GO:0021993","count":6}]},{"hash":"1015679282768607542","title":"Developmental and angiogenic regulators","description":"The top GO terms point to organ development (heart, brain, kidney), angiogenesis, and differentiation processes, with additional signals related to Rho-dependent cytoskeletal regulation. This suggests the proteins collectively participate in developmental signaling and vascular/immune differentiation rather than a single, tightly connected pathway.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0007507","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0014068","count":2}]},{"hash":"1153122932833325388","title":"Unknown","description":"The terms show a scattered mix of immune signaling (B cell receptor pathway), ubiquitination-related processes, muscle development, and some kidney-related terms, with no single cohesive biological theme tying all proteins together. While ubiquitination and muscle development terms appear, the presence of immune signaling and renal absorption terms suggests the cluster lacks a clear, unified function.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0031397","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0070294","count":3},{"id":"GO:0045496","count":3}]},{"hash":"477948626484076210","title":"Transmembrane transport proteins","description":"The top GO terms are dominated by various transmembrane transport activities (sodium, nitrite, sialic acid, galactose, vitamin, and general transmembrane transport), indicating a cohesive theme of membrane transporters. A couple of outliers (hypoxia response and snRNA transcription) are present but contribute little to the overall signal. Thus, naming it Transmembrane transport proteins captures the main function represented by the cluster. ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":2},{"id":"GO:0042795","count":1},{"id":"GO:0042796","count":1},{"id":"GO:1900754","count":1},{"id":"GO:0035725","count":1}]},{"hash":"2211286005673571789","title":"Vertebrate Development and Signaling Pathways","description":"This cluster is enriched for vertebrate development terms (thymus and placenta development, cerebellar cortex formation) alongside multiple signaling pathways (MAPK, insulin receptor, T cell receptor). Additional terms touch on axon regeneration, cell proliferation regulation, kinetochore localization, and cadmium ion response, suggesting a broad assembly of proteins involved in developmental signaling and regulation rather than a single pathway. The dominant theme points to development and signaling networks in vertebrate cells, with some ancillary regulatory processes.","confidence":"Medium","size":18,"edges":101,"triangles":271,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048538","count":16},{"id":"GO:0000187","count":16},{"id":"GO:0001890","count":16},{"id":"GO:0071276","count":16},{"id":"GO:0008286","count":15}]},{"hash":"943908859859524550","title":"Fatty acid biosynthesis and transport","description":"The top GO terms point to fatty acid biosynthesis (GO:0006633), import/transport of fatty acids (GO:0044539, GO:0001579), and lipoteichoic acid biosynthesis (GO:0070395), indicating a cohesive theme of lipid metabolism and cell-envelope lipid assembly. Some terms (e.g., anthocyanin/phenylpropanoid pathways) seem less directly connected and may reflect broader metabolic annotations, but the lipid-related terms dominate. ","confidence":"Medium","size":18,"edges":22,"triangles":13,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902987","count":5},{"id":"GO:0070395","count":4},{"id":"GO:0009718","count":4},{"id":"GO:0044539","count":3},{"id":"GO:0090410","count":3}]},{"hash":"622080795051548979","title":"JNK/MAPK Immune Signaling","description":"This cluster is dominated by kinase signaling terms, including T cell receptor signaling, the JNK cascade, and PI3K/AKT signaling, plus IL-12 response. The convergence on JNK/MAPK pathways and related signaling modules suggests an immune/stress signaling theme that can regulate proliferation and differentiation. A few terms (kinetochore localization, neuron development) are less directly tied to this core pattern and may reflect broader functional pleiotropy, but the primary signal supports an immune signaling cluster.","confidence":"Medium","size":18,"edges":26,"triangles":18,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0050852","count":9},{"id":"GO:0008285","count":9},{"id":"GO:0034501","count":9},{"id":"GO:0043491","count":8},{"id":"GO:0070671","count":8}]},{"hash":"1759487654693640725","title":"Growth control and stress signaling with proteostasis","description":"These proteins show enrichment for growth-related signaling (Hippo, PI3K-Akt), stress responses (ER-stress\u2013induced apoptosis, cadmium response), and proteostasis processes (ubiquitin-proteasome degradation, nuclear export), suggesting a theme of coordinating cell growth with stress signaling and protein homeostasis. DNA replication appears in the top terms but does not define a single pathway here; the overall pattern points to growth control intertwined with stress responses and proteostasis.","confidence":"Medium","size":18,"edges":21,"triangles":7,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":11},{"id":"GO:0043433","count":9},{"id":"GO:0018108","count":9},{"id":"GO:0000902","count":9},{"id":"GO:0070059","count":9}]},{"hash":"1131237741972761862","title":"Neural development and signaling","description":"The top GO terms are strongly about brain and nervous system development, suggesting a neural development focus. Additionally, several signaling pathways relevant to neural connectivity and development appear, including smoothened (Hedgehog) signaling, Roundabout (axonal guidance), regulation of Rho signaling, and regulation of synaptic vesicle exocytosis. While there is also a kidney development term, the prominent neural development and signaling terms dominate, supporting a neural development and signaling label with medium-confidence.","confidence":"Medium","size":18,"edges":137,"triangles":606,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:0010796","count":8},{"id":"GO:0031384","count":8},{"id":"GO:0007399","count":8},{"id":"GO:2000300","count":8}]},{"hash":"1510719762234400414","title":"Unknown","description":"The Top Terms are very heterogeneous, including pain perception, mechanosensation, signaling (Wnt), immune regulation, and general cellular processes (mRNA processing, telomere capping). With no connecting edges and no clear unifying function across the cluster, there isn\u2019t a coherent shared biology to name it after beyond broad, disparate categories.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044707","count":2},{"id":"GO:1904355","count":2},{"id":"GO:0006397","count":2},{"id":"GO:0045083","count":2},{"id":"GO:0048265","count":2}]},{"hash":"2096988424610131169","title":"Mitotic cycle and developmental signaling cluster","description":"The top GO terms center on centrosome cycle and mitotic cell cycle, indicating a core involvement in cell division. Additional terms point to transcriptional regulation, development (including multicellular organism and gonad development), and intracellular signaling (receptor clustering and adrenergic signaling), suggesting these proteins link cell cycle machinery with developmental signaling pathways. Overall, the cluster appears to gather proteins coordinating mitosis with developmental signaling processes.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007098","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0006351","count":3}]},{"hash":"2191126473914742670","title":"Mitotic DNA replication and chromosome segregation","description":"This cluster is dominated by cell cycle and mitosis-related terms (cell cycle, cell division, chromosome segregation, mitotic DNA replication) with supporting signals from DNA-templated transcription and chromatin-associated processes. The strongest and most cohesive theme is mitotic genome copy maintenance and segregation, justifying a label centered on mitosis and chromosome partitioning.","confidence":"Medium","size":18,"edges":10,"triangles":1,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0006351","count":3},{"id":"GO:1902969","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0030512","count":2}]},{"hash":"1261780617785489886","title":"Cell-Cell Adhesion and Polarity Signaling","description":"These proteins cluster around processes of cell adhesion, spreading, and establishing or maintaining cell polarity and junctions (e.g., epithelial polarity, tight junction assembly, podosome formation, cell spreading). The presence of ephrin signaling and T cell receptor signaling suggests intercellular communication and immune-related surface interactions, while engulfment of apoptotic cells points to clearance roles at interfaces. Overall, a coherent theme of adhesion-mediated signaling and polarity maintenance defines this cluster.","confidence":"Medium","size":18,"edges":104,"triangles":265,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:1900026","count":4},{"id":"GO:0043652","count":3},{"id":"GO:0090162","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0033144","count":3}]},{"hash":"1223932026765226332","title":"Bacterial metabolism and redox processes","description":"The GO terms point to redox-related activities (oxidation\u2013reduction, oxidant detoxification) alongside various biosynthetic and replication processes (antibiotic and PHB biosynthesis, DNA replication). The presence of several obsolete terms and the diversity of functions suggest the cluster spans multiple metabolic activities rather than a single cohesive pathway. Thus, the label is a broad umbrella for bacterial metabolism with emphasis on redox balance and biosynthesis, with limited confidence in a precise functional link.","confidence":"Low","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0030433","count":2},{"id":"GO:0034551","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0006260","count":2}]},{"hash":"1004307835533284042","title":"Eph/ephrin signaling and synaptic development","description":"The cluster shows strong links to ephrin receptor signaling, dendritic spine morphogenesis, trans-synaptic signaling, and related adhesion and growth factor responses, indicating a cohesive role in neuronal development and synapse formation/maintenance.","confidence":"High","size":18,"edges":20,"triangles":2,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0033138","count":15},{"id":"GO:2000811","count":15},{"id":"GO:0007275","count":15},{"id":"GO:0060997","count":15},{"id":"GO:0034446","count":15}]},{"hash":"897142250923870342","title":"Unknown","description":"The top GO terms span antioxidant metabolism, cell-matrix interactions, anti-inflammatory regulation, neural lineage development, amino acid and nitrogen metabolism, xenobiotic metabolism, calcium-regulated muscle signaling, and plant hormone signaling. This diverse, cross-domain set lacks a single coherent function linking all proteins, so Unknown with None confidence is appropriate.","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:1901687","count":17},{"id":"GO:0071460","count":17},{"id":"GO:0002674","count":17},{"id":"GO:0032720","count":17},{"id":"GO:0014003","count":17}]},{"hash":"1752941945784066693","title":"Unknown","description":"The top GO terms span prostaglandin biosynthesis, multiple gland and tissue development, plant hormone signaling, environmental response, and detoxification, showing a highly diverse set of functions without a single cohesive theme across proteins. This makes a meaningful, specific cluster label unlikely.","confidence":"","size":18,"edges":60,"triangles":72,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":13},{"id":"GO:0008585","count":12},{"id":"GO:0010193","count":11},{"id":"GO:0010268","count":11},{"id":"GO:0010760","count":11}]},{"hash":"1861839763314296391","title":"Innate Immune Signaling and Antimicrobial Peptide Regulation","description":"The cluster shows GO terms centered on innate immune signaling and antimicrobial peptide production, including Toll signaling pathway, antifungal humoral response, regulation of Toll signaling, and positive regulation of biosynthesis of antibacterial/antifungal peptides. This points to a cohesive theme of immune defense rather than a single developmental process, making the label representative of the predominant functions in the cluster. Some terms relate to neural development, which may reflect annotation noise or pleiotropy, but the core signal is innate immunity. ","confidence":"Medium","size":18,"edges":121,"triangles":465,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0031637","count":1},{"id":"GO:0007310","count":1},{"id":"GO:0008045","count":1},{"id":"GO:0006967","count":1},{"id":"GO:0008063","count":1}]},{"hash":"1010802002471414882","title":"GPCR-cAMP/cGMP signaling","description":"Proteins in this cluster are tied to GPCR signaling and production of cyclic nucleotides (cAMP and cGMP), including adenosine receptor pathways, adenylate cyclase activation, and forskolin response, with mentions of blue light signaling and intracellular signal transduction. This combination suggests a GPCR-driven cyclic nucleotide signaling module.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009785","count":12},{"id":"GO:0052565","count":12},{"id":"GO:0035556","count":12},{"id":"GO:0006182","count":12},{"id":"GO:0030828","count":12}]},{"hash":"2262423356975702928","title":"Angiogenesis and PI3K\u2013AKT Signaling Cluster","description":"Proteins here are enriched for angiogenesis and PI3K signaling terms (angiogenesis, positive regulation of angiogenesis, PI3K/AKT signal transduction), with accompanying hints of transcription regulation and phosphorylation. The presence of estrogen and ethanol response terms suggests broader signaling responsiveness, but the clearest common theme is signaling pathways that drive angiogenesis and related transcriptional control. The lack of observed interactions (edges/triangles) makes this a functional label rather than a tightly connected network module.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0045471","count":4},{"id":"GO:0014068","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0001525","count":4},{"id":"GO:0045766","count":4}]},{"hash":"2022320119870530214","title":"Broad signaling and developmental responses","description":"The proteins map to a mix of signaling pathways (cGMP, GPCR, PI3K), stimulus responses (LPS, GM-CSF), and developmental processes (blastocyst development, synapse formation, smell perception). There isn't a single clean function; rather, a set of diverse cellular signaling and developmental roles.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0001824","count":3},{"id":"GO:0010754","count":3},{"id":"GO:0071321","count":3}]},{"hash":"721867702435782215","title":"Positive Regulation of Signaling and Cell Proliferation","description":"As explained, top GO terms indicate broad upregulation of signaling and growth-related processes: ERK1/ERK2 cascade regulation, positive regulation of GTPase activity, and phosphatidylinositol biosynthesis; alongside effects on neurotransmission (dopamine uptake, amphetamine response), opsin signaling, cardiac muscle contraction, and even viral release. While the specific pathways are diverse, the unifying theme is positive regulation of signaling pathways and cell proliferation, rather than a single, specific process.","confidence":"Medium","size":18,"edges":18,"triangles":7,"max_degree":6,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051586","count":5},{"id":"GO:0010513","count":5},{"id":"GO:0070374","count":5}]},{"hash":"456636650229482518","title":"Bacterial metabolism and antibiotic biosynthesis","description":"The GO terms show a mix of metabolic biosynthesis (galactose metabolism, poly-hydroxybutyrate biosynthesis, tetrahydrobiopterin biosynthesis, nonribosomal peptide biosynthetic activation) along with antibiotic-related processes (antibiotic biosynthetic process, response to antibiotic, response to methotrexate) and even sporulation. This pattern points to a cluster centered on microbial primary and secondary metabolism with a focus on antibiotic production and stress-related responses, rather than a single isolated function. The inclusion of sporulation hints at a Bacillus-like physiology that often coordinates metabolism with survival strategies. ","confidence":"Medium","size":18,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":9},{"id":"GO:0042619","count":5},{"id":"GO:0006012","count":4},{"id":"GO:1902987","count":4},{"id":"GO:0006729","count":3}]},{"hash":"2259209040701546158","title":"Neuroimmune regulation of inflammation","description":"The top GO terms cluster around immune/inflammatory processes (negative regulation of inflammatory response, T cell chemotaxis, eosinophil extravasation, blood coagulation, T cell differentiation), with additional signals of neuromodulation (dopamine receptor signaling, amphetamine response, octopamine/tyramine signaling) and even a photoreception term. This suggests a theme of signaling cross-talk between nervous, immune, and vascular systems, centering on inflammation control with modulatory signaling. ","confidence":"Medium","size":18,"edges":39,"triangles":12,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":16},{"id":"GO:0007191","count":16},{"id":"GO:0001975","count":16},{"id":"GO:0016038","count":16},{"id":"GO:0014829","count":16}]},{"hash":"1052353286326457973","title":"RNA processing and translation regulation","description":"The terms cluster around RNA metabolism and gene expression control\u2014splicing regulation, mRNA export, mRNA modification, and regulation of translational initiation\u2014suggesting post-transcriptional and translational control as the core theme. A few terms reference host-pathogen interactions (viral budding, symbiont-induced host apoptosis), which may reflect broader multifunctionality, but the dominant signal is RNA processing and translation regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009405","count":1},{"id":"GO:0044179","count":1},{"id":"GO:0010226","count":1},{"id":"GO:0000381","count":1},{"id":"GO:0006446","count":1}]},{"hash":"484788121321951710","title":"Nutrient Transport and Wnt Signaling","description":"The top GO terms point to diverse membrane transport activities for nutrients and metabolites\u2014glucose (including glucose import and transmembrane transport), D-xylose, urate, vitamins, and L-ascorbic acid\u2014along with a sodium transmembrane transport term, suggesting a cluster focused on nutrient transport across membranes. The presence of a Wnt signaling pathway term adds a possible signaling role, but the dominant theme appears to be membrane transport of sugars and other nutrients. Confidence: Medium","confidence":"","size":18,"edges":21,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":3},{"id":"GO:0044381","count":3},{"id":"GO:0035725","count":3},{"id":"GO:1904728","count":3},{"id":"GO:0052106","count":3}]},{"hash":"393342764042308975","title":"Unknown","description":"Unknown","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0006446","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0031442","count":2}]},{"hash":"1690686855656774299","title":"Developmental Regulators of Heart and Nervous System","description":"The cluster\u2019s top GO terms are dominated by multicellular development-related processes, including heart development, angiogenesis, CNS neuron development, and dendrite morphogenesis, along with DNA-templated transcription and DNA replication. This suggests a group of transcriptional regulators and signaling components driving organogenesis and neural morphogenesis across tissues. A few terms (like symbiont entry into host cell) may reflect annotation noise rather than core function, but the developmental theme is clear and coherent.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0007275","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0033138","count":3},{"id":"GO:0046718","count":3}]},{"hash":"1631515414681860416","title":"SRP-Dependent Membrane Targeting","description":"This cluster centers on SRP-dependent cotranslational targeting to membranes and related translocation processes (e.g., GO:0006616, GO:0031204), indicating a primary role in directing nascent proteins to membranes and their translocation. The presence of related terms for membrane targeting (post-translational to membrane) and membrane-associated quality control/ER stress responses supports a cohesive theme around membrane targeting and protein trafficking, with additional but less central signals for iron-sulfur cluster assembly and protein quality regulation. Overall, the strongest, shared function links to membrane targeting during translation.","confidence":"High","size":18,"edges":48,"triangles":87,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1902037","count":9},{"id":"GO:0006880","count":9},{"id":"GO:1903751","count":9},{"id":"GO:1903382","count":9},{"id":"GO:0031204","count":9}]},{"hash":"1325053315688017954","title":"Neural sensory signaling and perception","description":"This cluster is dominated by GO terms tied to sensory modalities (touch, pain, taste) and to ionotropic glutamate receptor\u2013mediated signaling, plus sodium ion transport, pointing to neural signaling and sensory processing. Receptor internalization hints at receptor trafficking in neurons, while anterior lateral line development and pons maturation reflect developmental contexts that may accompany these functions. Overall, the common theme is neural sensory perception and ion-channel\u2013driven signaling.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":6},{"id":"GO:0048899","count":4},{"id":"GO:0035725","count":4},{"id":"GO:0001975","count":4},{"id":"GO:0035235","count":4}]},{"hash":"1843108656412193089","title":"Developmental signaling and ECM-immune remodeling","description":"The cluster includes development-related terms (midbrain development, Wnt signaling) together with ECM disassembly and immune/coagulation processes (fibrinogen regulation, blood coagulation, complement activation, LPS response), suggesting a broad tissue-remodeling program linking signaling to extracellular matrix changes and immune responses.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0007596","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0014068","count":4}]},{"hash":"327776455729984800","title":"Developmental growth and morphogenesis","description":"The top GO terms center on regulating growth, limb development, and axis specification, plus regulation of cell shape and neuronal plasticity, pointing to a developmental/morphogenetic program involving signaling and cytoskeletal remodeling that shapes tissues. Some terms appear less related (e.g., chitin catabolism), but the dominant theme is developmental growth and morphogenesis. ","confidence":"Medium","size":18,"edges":22,"triangles":6,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0001558","count":2},{"id":"GO:0051497","count":2},{"id":"GO:0060173","count":2},{"id":"GO:0090281","count":2},{"id":"GO:0019800","count":2}]},{"hash":"880595649928299375","title":"DNA-binding transcription regulators","description":"The GO terms show a clear emphasis on transcription-related processes (DNA-templated transcription, regulation of DNA binding, and RNA polymerase II regulatory region sequence-specific DNA binding), indicating proteins that modulate gene expression by associating with DNA. Other terms (redox homeostasis, ion transport, and stimulus responses) appear ancillary, possibly reflecting multifunctional roles or annotation noise, but do not override the central theme of transcription regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903206","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0001975","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0035725","count":2}]},{"hash":"277554911587969918","title":"Metabolic and Developmental Processes","description":"The cluster's top GO terms cluster around core metabolism (steroid biosynthesis, fatty-acyl-CoA biosynthesis, glycogen biosynthesis, leucine/valine catabolism) and development (heart development, post-embryonic development). A few terms for transcription and apoptosis suggest regulatory roles, but the recurring theme is metabolism in a developmental context, particularly relating to energy/storage pathways and growth. Confidence: Medium","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0006694","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0009791","count":2},{"id":"GO:0018896","count":2}]},{"hash":"980571800018245007","title":"Muscle differentiation and transcriptional regulation","description":"The cluster is dominated by skeletal muscle\u2013related GO terms (skeletal muscle cell differentiation, skeletal muscle fiber development) alongside DNA-templated transcription and negative regulation of transcription by RNA polymerase II, suggesting a cohesive theme of muscle development governed by transcriptional control. A few additional terms (vesicle endocytosis, renal sodium absorption) are present but represent smaller, less central associations to the core muscle-development/transcription theme. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0035914","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0031397","count":1},{"id":"GO:1900242","count":1}]},{"hash":"249690952610950667","title":"Chromatin-Driven Transcription Regulation","description":"This cluster centers on transcription control and chromatin state, including negative regulation of RNA Pol II transcription, transcription termination signals, and transcriptional responses to oxidative stress, plus chromatin-related processes like H3K9 trimethylation, nucleosome density regulation, heterochromatin maintenance, and DNA methylation. Although a couple terms are developmental, the dominant signatures point to nuclear transcriptional regulation governed by chromatin context.","confidence":"High","size":18,"edges":39,"triangles":13,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0021553","count":3},{"id":"GO:0036302","count":3},{"id":"GO:0006363","count":3},{"id":"GO:0036124","count":3}]},{"hash":"1779219579671401259","title":"RNA processing and ribosome biogenesis","description":"The cluster is enriched for GO terms spanning mRNA processing (export, splicing regulation, modification, stability) and ribosome biogenesis/translation initiation, indicating coordinated RNA metabolism and ribosome assembly/translation control rather than a single enzymatic function.","confidence":"High","size":18,"edges":66,"triangles":76,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0000381","count":4},{"id":"GO:0006446","count":4},{"id":"GO:0016556","count":4}]},{"hash":"1818216837126637928","title":"Unknown","description":"The top GO terms are spread across diverse processes (temperature stimulus response, thermogenesis, inflammatory response, several developmental processes, various transport and transcription activities), with no single dominant theme. The cluster also has no edges or triangles, suggesting little cohesive connectivity among members or possible annotation noise. Because there is no clear common function tying the proteins together, a generic Unknown label is most appropriate.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071502","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0002024","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0006954","count":2}]},{"hash":"441106591944119250","title":"Notch-regulated development and patterning","description":"The presence of positive regulation of Notch signaling together with diverse development-related terms (follicle development, intestinal epithelium development, imaginal disc segmentation, compartment pattern specification) suggests a shared theme of developmental patterning influenced by Notch signaling, despite heterogeneity across tissues.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045747","count":2},{"id":"GO:0001541","count":1},{"id":"GO:0002315","count":1},{"id":"GO:0060576","count":1},{"id":"GO:1902367","count":1}]},{"hash":"1116519036912256275","title":"Viral-host interaction and immune signaling","description":"The cluster centers on GO terms related to viral life cycle activities (viral release from host cell, proviral latency) alongside host immune responses (production of inflammatory mediators, chemokine regulation). While a few terms touch on general metabolism or protein folding, the strongest and most representative signals point to viral-host dynamics and immune modulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0033138","count":2},{"id":"GO:0045944","count":2},{"id":"GO:0002532","count":2},{"id":"GO:0090197","count":2}]},{"hash":"1635059978739336999","title":"Neural development and differentiation","description":"The cluster\u2019s top GO terms are dominated by neural-lineage specification and differentiation, including spinal cord motor neuron fate, interneuron differentiation (cerebral cortex GABAergic), oligodendrocyte fate specification, and neural crest cell migration. While a few terms relate to endocrine organ development (pancreas, pituitary, bronchiole), the overarching signal is neural development and neuronal/glial differentiation programs. ","confidence":"Medium","size":18,"edges":140,"triangles":640,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":10},{"id":"GO:0031018","count":9},{"id":"GO:0000122","count":7},{"id":"GO:0060163","count":7},{"id":"GO:0021520","count":7}]},{"hash":"912517645859517730","title":"Retina Development and Visual Perception","description":"The dominant GO terms point to retina and visual system (retina development in camera-type eye, visual perception, absorption of visible light), with related eye vasculature and transport terms. Less central terms involve heart development and dopamine signaling, which appear more peripheral to the core eye/vision theme.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0007601","count":3},{"id":"GO:0007626","count":3},{"id":"GO:0030321","count":3},{"id":"GO:0060041","count":3}]},{"hash":"869028526381192776","title":"Neurovascular angiogenesis signaling","description":"These proteins co-occur with brain development, angiogenesis, and regulation of Rho/GTPase signaling, plus cellular hypoxia response, pointing to neurovascular development and remodeling driven by cytoskeletal and angiogenic signaling. Immune receptor signaling terms are present as well, suggesting broader signaling roles across cell types. ","confidence":"Medium","size":18,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":2},{"id":"GO:1904706","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0010735","count":2},{"id":"GO:0043087","count":2}]},{"hash":"2270625426144914722","title":"Unknown","description":"The GO terms cover a wide range of functions, including negative regulation of various processes (endopeptidase activity, JNK signaling, osteoclast differentiation), protein glycosylation, calcium ion transport, septate junction assembly, and developmental regulation (tracheal tube size). There isn\u2019t a clear, cohesive theme tying these proteins to a single function or pathway, so a specific, representative label isn\u2019t confidently justifiable.","confidence":"","size":18,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010951","count":2},{"id":"GO:0035269","count":1},{"id":"GO:0046329","count":1},{"id":"GO:0060049","count":1},{"id":"GO:0070588","count":1}]},{"hash":"872671284929558869","title":"GPI Anchor Biosynthesis and Dolichol-Linked Glycosylation","description":"The two strongest GO signals are GPI anchor biosynthetic process and dolichol-linked oligosaccharide biosynthetic process, pointing to protein glycosylation pathways in the ER. Other terms appear noisy or incidental (e.g., pollen tube guidance, viral process), but the dominant glycosylation-related functions justify a glycosylation-focused label.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006506","count":3},{"id":"GO:0006488","count":3},{"id":"GO:0010183","count":3},{"id":"GO:1903206","count":1},{"id":"GO:1903026","count":1}]},{"hash":"568360220585404476","title":"Ion and sugar transmembrane transporters","description":"The top GO terms are all transmembrane transport activities for a wide range of substrates (ions such as Na+, K+, nitrite, nitrate, and phosphate; sugars like glucose, galactose, arabinose; plus vitamin and 4-hydroxyphenylacetate). This consistent theme points to membrane transporter proteins, justifying the label \"Ion and sugar transmembrane transporters\" as a concise description of the cluster.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:1904659","count":3},{"id":"GO:0071805","count":3},{"id":"GO:0035461","count":2},{"id":"GO:1900754","count":2}]},{"hash":"574586017430269197","title":"Embryonic development and organogenesis","description":"The top GO terms point to broad developmental and tissue-specific differentiation across multiple organs (pancreatic endocrine development, placental/placenta-related, heart/endocardial cushion EMT, cartilage morphogenesis, ventricular system development, spermatid differentiation, left-right patterning). This suggests a cohesive theme of embryonic development and organ formation rather than a single molecular function. The ribosomal export term is less specific but does not override the overall developmental signal. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0003323","count":2},{"id":"GO:0035270","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0003198","count":2}]},{"hash":"278214423181267501","title":"Unknown","description":"The GO terms span glycosylation, secretion, UV response, viral release, protein folding, development, transcription control, and cuticle/molting processes with no clear unifying function; no interactions are indicated, so a single interpretable cluster label isn't supported.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036066","count":2},{"id":"GO:0050714","count":2},{"id":"GO:0071492","count":2},{"id":"GO:0019076","count":2},{"id":"GO:0000413","count":2}]},{"hash":"1499997148901952829","title":"Oocyte meiosis spindle assembly and proteolysis","description":"The cluster is driven by strong signals for oocyte maturation and spindle assembly in female meiosis I, along with ubiquitin-dependent protein catabolic processes (SCF-dependent and general proteolysis). Microtubule polymerization also supports a role in spindle dynamics, aligning well with meiosis-specific functions. While some terms like neural tube closure and circadian regulation may reflect broader cellular roles or annotations, the dominant theme centers on meiotic spindle machinery and ubiquitin-mediated proteolysis governing oocyte development.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0001556","count":8},{"id":"GO:0006516","count":7},{"id":"GO:0021993","count":7}]},{"hash":"1235696354534222601","title":"Collagen synthesis and ECM organization","description":"The top GO terms center on collagen fibril formation and a key post-translational step (peptidyl-proline hydroxylation) essential for collagen stability, suggesting the proteins share a collagen/ECM-related function. While there are some unrelated developmental and signaling terms, the dominant theme is collagen processing and extracellular matrix organization.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0018401","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0003345","count":2},{"id":"GO:0002730","count":2}]},{"hash":"284848304648172704","title":"Chromatin Regulation and Transcription Machinery","description":"The top GO terms cluster around nuclear gene expression processes: DNA-templated transcription, SAGA complex localization to transcription regulatory regions, histone deubiquitination, and mRNA export, with supporting signals for proteasome assembly and DNA repair. This suggests a cohesive theme of chromatin remodeling, transcription initiation/processing, and genome maintenance, despite an outlier term for chloroplast stroma protein import and a few development-related terms. Overall, the proteins appear to be involved in transcription regulation and chromatin dynamics, rather than a single, narrow pathway.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0040025","count":1},{"id":"GO:0030447","count":1},{"id":"GO:0043248","count":1},{"id":"GO:0072742","count":1}]},{"hash":"94659231270414874","title":"Cyclic nucleotide signaling (cAMP/cGMP)","description":"The cluster is dominated by GO terms tied to second messenger signaling: cGMP and cAMP biosynthesis, adenylate cyclase-activating pathways, forskolin response, and blue light signaling, all reflecting intracellular signal transduction via cyclic nucleotides. The inclusion of oocyte maturation regulation aligns with cAMP\u2019s role in meiotic arrest, supporting a cohesive theme of cyclic nucleotide\u2013mediated signaling.","confidence":"High","size":17,"edges":52,"triangles":27,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009785","count":14},{"id":"GO:0052565","count":14},{"id":"GO:0035556","count":14},{"id":"GO:0006182","count":14},{"id":"GO:0030828","count":14}]},{"hash":"198332620660382626","title":"PI3K-AKT and JNK signaling in development and immunity","description":"The top GO terms point to core signaling pathways (PI3K/AKT and JNK) with links to immune responses (interleukin-12) and developmental processes (thymus and neuron development). There is also a note on endosome transport, which can intersect signaling. Taken together, these proteins likely participate in coordinated signaling cascades that govern cell growth, differentiation, and immune signaling, with particular emphasis on PI3K-AKT and JNK pathways.","confidence":"High","size":17,"edges":102,"triangles":286,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":17},{"id":"GO:0070671","count":17},{"id":"GO:0007257","count":17},{"id":"GO:2000641","count":17},{"id":"GO:0033138","count":17}]},{"hash":"613272521889924809","title":"Muscle and heart development with stress responses","description":"Top terms show clear muscle/heart development signals (heart development, skeletal muscle tissue development) along with several cellular stress/immune response terms (response to lipopolysaccharide, virus, arsenite), suggesting a theme of tissue development tied to stress signaling. Confidence: Medium","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0007118","count":6},{"id":"GO:0090314","count":6},{"id":"GO:2000810","count":6},{"id":"GO:0033138","count":6}]},{"hash":"2272382603952231644","title":"Heart valve development and cardiovascular differentiation","description":"The top terms cluster around heart valve morphogenesis, endocardial cushion EMT, and arterial endothelial differentiation, with supporting links to heart rate regulation, indicating a cardiovascular development and function theme; some terms touch on muscle or circadian processes, but the dominant pattern is cardiac-related.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003184","count":16},{"id":"GO:0045668","count":16},{"id":"GO:0032922","count":16},{"id":"GO:0060766","count":16},{"id":"GO:0003062","count":15}]},{"hash":"2226929474634460074","title":"Retinoid and Prostaglandin Metabolism in Kidney and Retina","description":"The cluster\u2019s top GO terms center on retinoid metabolism (retinol/retinal), retinal metabolic processes, and prostaglandin biosynthesis, alongside vitamin C biosynthesis and redox-related response, all pointing to vitamin A\u2013 and lipid mediator\u2013related metabolism. Several terms also reflect kidney/urinary development (renal system and inner medullary collecting duct development), suggesting tissue-specific regulatory roles in kidney and eye structures. This combination supports a focused theme on retinoid and prostaglandin pathways in kidney and retinal development, with redox signaling as a contributing context.","confidence":"High","size":17,"edges":94,"triangles":249,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0008584","count":8},{"id":"GO:0070301","count":8},{"id":"GO:0042574","count":7},{"id":"GO:0042572","count":7}]},{"hash":"1901081848707093110","title":"Cadmium Stress Response and AKT Signaling Regulation","description":"The cluster shows strong enrichment for cellular response to cadmium ion and positive regulation of PI3K/AKT signaling, indicating proteins involved in metal stress responses and survival signaling via the AKT pathway. While other terms touch on development and metabolism, the dominant themes are cadmium response and AKT pathway regulation.","confidence":"High","size":17,"edges":75,"triangles":227,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071276","count":14},{"id":"GO:0051897","count":14},{"id":"GO:0072061","count":9},{"id":"GO:0042574","count":9},{"id":"GO:0097066","count":9}]},{"hash":"330959416447179852","title":"Gland development and xenobiotic metabolism","description":"The cluster\u2019s top GO terms center on gland development (mammary gland development, prostate gland growth, female gonad development), pointing to hormone-regulated tissue development. It also features several detoxification/metabolism terms (carbazole catabolic process, insecticide metabolic process, omega-oxidation), suggesting involvement in xenobiotic processing. Together, these indicate proteins linked to gland development with associated metabolic/detox functions, though a few terms are peripheral or cross-kingdom. ","confidence":"Medium","size":17,"edges":23,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046232","count":13},{"id":"GO:0008585","count":13},{"id":"GO:0010193","count":12},{"id":"GO:0010268","count":12},{"id":"GO:0010760","count":12}]},{"hash":"2059796054122869162","title":"Neural methylation and drug response","description":"The cluster is dominated by methylation-related GO terms (rRNA methylation; peptidyl-lysine dimethylation; N-terminal peptidyl-glycine methylation; peptidyl-arginine dimethylation) suggesting methyltransferase activity, with additional hints from neural context terms (substantia nigra development) and chemical/drug response terms (response to cocaine, response to amine, cellular response to xenobiotic stimulus). This combination points to a set of methylation enzymes potentially involved in neural development or function and in responses to psychoactive compounds.","confidence":"Medium","size":17,"edges":7,"triangles":0,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031167","count":4},{"id":"GO:0042220","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0014075","count":3},{"id":"GO:0018027","count":3}]},{"hash":"1140341400833899765","title":"Dopaminergic Synaptic Signaling","description":"The top GO terms cluster around dopaminergic synaptic transmission, response to amphetamine, and adrenergic receptor signaling, suggesting a dopamine-related neural signaling theme. While terms like heart development and visual perception are also present, they likely reflect broader pleiotropy or annotation overlap rather than a separate functional module. Endosome transport and phosphorylation terms may relate to receptor trafficking and signaling modulation within this pathway.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0051436","count":4},{"id":"GO:0001975","count":4}]},{"hash":"2152954205543480062","title":"Ribosome Biogenesis and Translation","description":"Dominant terms are centered on protein synthesis and ribosome assembly, including translation, cytoplasmic translation, ribosome biogenesis, ribosomal subunit biogenesis, and translational termination, indicating a cluster of ribosome-related machinery. Some antiviral/antibiotic response terms appear as peripheral associations but do not define the core function.","confidence":"High","size":17,"edges":114,"triangles":429,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0042254","count":5},{"id":"GO:0000027","count":5},{"id":"GO:0002181","count":4},{"id":"GO:0046677","count":3}]},{"hash":"200683802166376346","title":"Ubiquitin-Dependent Proteolysis and Regulation","description":"The cluster is dominated by GO terms for ubiquitination and proteasome-mediated protein catabolism (e.g., ubiquitin-dependent degradation, polyubiquitination, SCF-dependent proteolysis), with additional links to circadian rhythm and transcription regulation. This points to a core theme of protein turnover and signaling control via the ubiquitin\u2013proteasome system, potentially affecting clock proteins and transcription factors, and extended by cues like cadmium response and synaptic/glycoprotein turnover.","confidence":"High","size":17,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0000209","count":5},{"id":"GO:0042752","count":4},{"id":"GO:0000083","count":4},{"id":"GO:0071276","count":4}]},{"hash":"1493792698431193659","title":"Nuclear gene expression and proteostasis","description":"This cluster centers on core nuclear processes: DNA-templated transcription, DNA replication, RNA methylation, rRNA maturation, ribosome biogenesis, and ubiquitin-proteasome\u2013dependent protein degradation, plus regulation of cell proliferation. Together, these suggest a theme of gene expression and protein turnover; some stress- or reproduction-related terms are present but do not define the dominant function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0006260","count":2},{"id":"GO:0042220","count":2},{"id":"GO:0036265","count":2}]},{"hash":"2267373727171659001","title":"RNA processing and translation machinery","description":"The strongest signals are RNA-related: rRNA methylation, tRNA wobble modification, and translation, pointing to ribosome-associated RNA maturation and protein synthesis functions. Other terms reflect broader cellular activities but do not define a single cohesive pathway. ","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0006744","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0070476","count":1},{"id":"GO:0002098","count":1}]},{"hash":"836984420330098964","title":"Nematode Development and Reproduction","description":"The GO terms cluster around nematode developmental and reproductive processes, including maternal axis specification, polyspermy prevention, embryonic morphogenesis, and molting, with additional nematode-specific physiology (pharyngeal pumping) and neural signaling/behavior (GABA signaling, conditioned taste aversion). This pattern points to a cohesive theme of nematode life-cycle progression from embryo development through reproduction, making the label fitting and distinctive.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":3},{"id":"GO:2000360","count":3},{"id":"GO:0006508","count":3},{"id":"GO:0043050","count":3},{"id":"GO:0035124","count":3}]},{"hash":"732319624541332690","title":"Meiotic spindle assembly and oocyte maturation","description":"The top GO terms point strongly to meiosis-specific processes, especially spindle assembly in female meiosis I and oocyte maturation, complemented by microtubule polymerization and SCF-dependent ubiquitin-proteasome\u2013mediated protein degradation that regulate cell cycle progression. These themes suggest proteins involved in meiotic spindle dynamics and oocyte development, with some ancillary development terms likely reflecting broader roles in growth. Overall, the dominant signal is meiosis-related spindle formation and oocyte maturation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007057","count":12},{"id":"GO:0031146","count":12},{"id":"GO:0008285","count":12},{"id":"GO:0006516","count":12},{"id":"GO:0001556","count":12}]},{"hash":"1071799702908060449","title":"Ubiquitin-Dependent Proteolysis in Oocyte Meiosis","description":"GO terms point to ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal ubiquitin tagging, indicating proteasome-mediated turnover. Several terms relate to female meiosis (spindle assembly in female meiosis I) and oocyte maturation, suggesting proteolysis regulates meiotic progression. Microtubule polymerization aligns with spindle dynamics during meiosis. Overall, the cluster centers on proteasome-driven regulation of meiosis/oocyte maturation.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0007057","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0006516","count":4}]},{"hash":"1810596363189695164","title":"Leukocyte recruitment and activation","description":"This cluster is strongly enriched for GO terms tied to immune cell recruitment and activation, including leukocyte tethering/rolling, lymph vessel morphogenesis, basophil activation, phagocytosis recognition, complement activation, and NK cell chemotaxis, with additional vascular/lymphatic development signals that support immune cell trafficking. Together, these terms suggest a module involved in initiating and coordinating immune responses, rather than a single metabolic or structural function.","confidence":"High","size":17,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0072287","count":6},{"id":"GO:0050901","count":6},{"id":"GO:0036303","count":6},{"id":"GO:0010572","count":6},{"id":"GO:0071226","count":6}]},{"hash":"233565054300681057","title":"CENP-A Chromatin Assembly and Transcription Regulation","description":"The dominant signals are chromatin-related: CENP-A containing chromatin assembly, negative regulation of transcription by RNA polymerase II, and histone methylation regulation terms, plus other centromere/chromosome\u2013associated processes. A few terms touch on immunity and reproduction, which may reflect pleiotropy or broader regulatory roles of the proteins, but the core theme appears to be chromatin organization and transcription control.","confidence":"Medium","size":17,"edges":27,"triangles":16,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:1904815","count":8},{"id":"GO:0061641","count":8},{"id":"GO:0051572","count":8},{"id":"GO:0019731","count":8}]},{"hash":"636906612515081790","title":"Sprouting angiogenesis and vascular development","description":"This cluster is dominated by terms related to vascular biology and development, especially endothelial proliferation in sprouting angiogenesis and ephrin signaling, which point to signaling and processes guiding blood vessel growth; additional terms touch on broader development (kidney, notochord) and transcriptional regulation, with some cytoskeletal regulation relevant to sprouting. Overall, the theme centers on angiogenesis and vascular development with supporting developmental signals.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051497","count":2},{"id":"GO:0048671","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0006351","count":2}]},{"hash":"220377123548980527","title":"Microtubule assembly and proteostasis","description":"The cluster is enriched for cytoskeletal organization terms (tubulin complex assembly, cortical microtubule organization) and protein homeostasis terms (protein folding, chaperone-mediated assembly, ubiquitin-proteasome\u2013based quality control). This combination suggests a group of proteins involved in microtubule formation and maintenance that are supported by proteostasis machinery, with ancillary transport-related roles. ","confidence":"Medium","size":17,"edges":12,"triangles":6,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032968","count":1},{"id":"GO:0071629","count":1},{"id":"GO:0007021","count":1},{"id":"GO:0006457","count":1},{"id":"GO:0043622","count":1}]},{"hash":"2164379281966882715","title":"Calcium signaling and limb development","description":"The top GO terms center on calcium ion dynamics (release of sequestered calcium, calcium import) and limb development, with BMP signaling regulation and cell growth\u2014points to a calcium-driven developmental signaling theme. Additional terms about cytoskeletal regulation, neutrophil chemotaxis, and locomotory behavior fit downstream effects of Ca2+-related signaling and developmental pathways. While there is a hint of coagulation via calcium dependence, the common thread most strongly aligns with calcium-mediated signaling influencing development and cell movement. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":3},{"id":"GO:0051209","count":2},{"id":"GO:0098703","count":2},{"id":"GO:0030514","count":2},{"id":"GO:0001558","count":2}]},{"hash":"1788935433450951383","title":"Muscle fiber type switching and sarcomere organization","description":"The top terms cluster around sarcomere structure (sarcomere organization, muscle filament sliding speed) and regulation of striated muscle contraction, plus transitions between fast and slow muscle fibers, pointing to a muscle contractile machinery theme. A few chromatin-related terms appear but don\u2019t fit the dominant muscle-function pattern, so the core label emphasizes muscle contraction and fiber-type regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006334","count":1},{"id":"GO:0010847","count":1},{"id":"GO:0043486","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0001980","count":1}]},{"hash":"1972335111258468722","title":"Bacterial cell wall polysaccharide biosynthesis and glycosylation","description":"The cluster\u2019s top GO terms center on glycosylation (O-linked via serine/threonine and N-acetyl-galactosamine), multiple UDP-sugar metabolic processes, and polysaccharide biosynthesis, including capsule and mycolate layer assembly and arabinopyranosyl undecaprenyl phosphate\u2013dependent pathways. This pattern points to enzymes that build and decorate the bacterial cell envelope with glycans, notably in capsule formation and mycobacterial-type cell walls.","confidence":"High","size":17,"edges":21,"triangles":9,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0018242","count":1},{"id":"GO:0045227","count":1},{"id":"GO:0018243","count":1},{"id":"GO:0052573","count":1},{"id":"GO:0016266","count":1}]},{"hash":"2035760747910484334","title":"Plant lipid and vitamin biosynthesis","description":"The cluster shows strong signals for lipid metabolism (fatty acid elongation, sphingolipid biosynthesis) and vitamin/retinoid pathways (retinal and retinoic acid biosynthesis, phylloquinone catabolic), with plant-specific secondary metabolism (tropane alkaloid biosynthesis). This points to a cohesive theme around lipid and vitamin biosynthesis in plants, with broader metabolic breadth (antibiotic response, PHB) that doesn\u2019t contradict the main signal. ","confidence":"Medium","size":17,"edges":27,"triangles":26,"max_degree":8,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":15},{"id":"GO:0042619","count":14},{"id":"GO:0042574","count":12},{"id":"GO:0002138","count":12},{"id":"GO:0030497","count":12}]},{"hash":"129828021479997459","title":"Unknown","description":"The GO terms cover neural development/plasticity, signaling, development, viral processes, metal ion response, and metabolism, with no single shared function across all members; there is no coherent theme to label more specifically.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":3},{"id":"GO:0031623","count":3},{"id":"GO:0001822","count":2},{"id":"GO:0008355","count":2},{"id":"GO:0016032","count":2}]},{"hash":"639811553718571355","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042574","count":1},{"id":"GO:0097171","count":1},{"id":"GO:0042351","count":1},{"id":"GO:0019306","count":1}]},{"hash":"776419087065245060","title":"Plant lipid and steroid metabolism","description":"The top GO terms center on lipid biosynthesis and catabolism (fatty acid elongation, sphingolipid biosynthesis, phylloquinone catabolic, steroid and androgen catabolic), with supporting retinoid metabolism (retinal and retinoic acid biosynthesis) and plant-specific secondary metabolite pathways (tropane alkaloid biosynthesis). This suggests a cohesive module focused on lipid/hormone metabolism in plants, with some peripheral processes (sporulation, antibiotic response) likely noise rather than core features.","confidence":"Medium","size":17,"edges":38,"triangles":85,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042574","count":9},{"id":"GO:0002138","count":9},{"id":"GO:0030497","count":9},{"id":"GO:0046677","count":9},{"id":"GO:0006710","count":9}]},{"hash":"790740763303564082","title":"Junctional Complexes and Cytoskeleton Dynamics","description":"The top GO terms cluster around bicellular tight junction assembly, epithelial polarity maintenance, and actin cytoskeleton organization, with Rho signaling linking these processes. Additional terms for synapse organization and paranodal junction maintenance suggest a broader theme of membrane junctions and cytoskeletal remodeling across epithelial and neural contexts. A few terms (like carnitine transport and exploration behavior) appear peripheral to the core junction/cytoskeleton theme, but overall the proteins seem tied to junctional integrity and cytoskeletal dynamics. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":3},{"id":"GO:0050808","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0015879","count":2},{"id":"GO:0030036","count":2}]},{"hash":"1350242932633101196","title":"Oogenesis and Meiotic Spindle Assembly","description":"This cluster is best named for the strong presence of oocyte maturation and spindle assembly in female meiosis I, supported by microtubule polymerization, with ubiquitin-dependent proteolysis suggesting meiotic regulation; neural development terms are present but less central.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":8},{"id":"GO:0006516","count":8},{"id":"GO:0021993","count":8},{"id":"GO:0042787","count":8},{"id":"GO:0070544","count":8}]},{"hash":"505091333515422880","title":"Multisubstrate transmembrane transporter cluster","description":"The cluster is strongly enriched for transmembrane transport functions across various substrates, notably vitamin and xenobiotic transport, as well as sugar (glucose/xylose) and urate transport. This pattern indicates a group of membrane transport proteins capable of moving diverse small molecules, with a few outlier terms (replicative senescence, host-related quorum sensing) likely reflecting annotation noise rather than core function.","confidence":"High","size":17,"edges":45,"triangles":40,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":17},{"id":"GO:0006855","count":17},{"id":"GO:0042891","count":16},{"id":"GO:0044381","count":13},{"id":"GO:0035725","count":13}]},{"hash":"116678049597376957","title":"Ubiquitin-regulated skeletal muscle development","description":"The cluster's top GO terms are dominated by ubiquitin-related processes (ubiquitin-dependent protein catabolic process; negative regulation of protein ubiquitination; K33-linked ubiquitination), along with skeletal muscle development terms (skeletal muscle fiber development; skeletal muscle tissue development). This suggests proteins involved in the ubiquitin-proteasome system that modulate muscle development and protein turnover. Some terms like renal sodium ion absorption and mast cell cytokine production appear less central and may reflect annotation noise. Overall, the common theme is ubiquitin signaling affecting skeletal muscle development, hence the label.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0031397","count":6},{"id":"GO:2000312","count":6},{"id":"GO:0070294","count":6},{"id":"GO:0045496","count":6}]},{"hash":"227402934323729068","title":"Lymphocyte Development and PI3K Signaling","description":"The top GO terms point to immune system development and function, including NK T cell differentiation, B cell affinity maturation, hemopoiesis, and cytokine-related processes (IL-4 production, IL-7 response). A shared PI3K signaling theme links these immune processes to proliferation and differentiation, with angiogenesis often observed in inflammatory contexts. Together these terms suggest proteins involved in lymphocyte development and PI3K pathway signaling.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0043491","count":2},{"id":"GO:0001865","count":2},{"id":"GO:0010765","count":2}]},{"hash":"1389173747126306831","title":"Ubiquitin-Dependent Proteolysis in Muscle","description":"The top GO terms center on ubiquitin-mediated protein catabolism and regulation, including ubiquitination and specific linkage types, paired with skeletal muscle development and muscle-related functions (fiber development, swimming). This suggests a cluster focused on how ubiquitin-dependent protein turnover influences muscle-related processes. Some terms (circadian rhythm regulation, wybutosine biosynthesis) are less directly tied, indicating some noise, but the core theme remains ubiquitin-driven proteolysis impacting muscle biology.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0042752","count":9},{"id":"GO:0031397","count":8},{"id":"GO:2000312","count":8},{"id":"GO:0070294","count":8}]},{"hash":"164784424020409705","title":"Blood Coagulation and Fibrinolysis Regulation","description":"The cluster\u2019s top GO terms cluster around hemostasis: blood coagulation, fibrinolysis, and negative regulation of fibrinolysis, indicating a core theme in coagulation and its regulation. While a few terms touch on placental differentiation and signaling regulation, the strongest and most recurrent signal relates to coagulation/fibrinolysis processes.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":2},{"id":"GO:0071442","count":2},{"id":"GO:2000617","count":2},{"id":"GO:0051918","count":2},{"id":"GO:0007596","count":2}]},{"hash":"2276303255035527741","title":"Ciliary and spindle organization with Wnt signaling regulation","description":"The cluster centers on cytoskeletal/microtubule organization (cytoplasmic microtubules, spindle, basal body) and includes both positive and negative regulation of canonical Wnt signaling, suggesting a link between centrosome/ciliary architecture and Wnt pathway modulation. Additional terms like GPCR desensitization and membrane repair point to membrane-associated regulation, but the dominant theme appears to be structural organization of microtubule networks together with Wnt signaling control.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031122","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0007051","count":2},{"id":"GO:0090263","count":2}]},{"hash":"658343658934332970","title":"Toll-like Receptor Signaling","description":"The top GO terms point to multiple Toll-like receptor pathways (TLR3, TLR7, TLR9) and related innate-immune processes such as response to fungus and dendritic cell cytokine regulation, indicating a cohesive theme around TLR-mediated innate immune signaling. Some neural-related terms appear but likely reflect broader signaling roles rather than core function of the cluster. Overall, the dominant pattern is innate immune sensing via TLRs.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034154","count":2},{"id":"GO:0034162","count":2},{"id":"GO:0034138","count":2},{"id":"GO:0009620","count":1},{"id":"GO:0003345","count":1}]},{"hash":"1971690179661020518","title":"Mitotic Cycle and Transcription Regulation","description":"The Top Terms show a clear emphasis on mitotic cell cycle, cell division, and DNA-templated transcription, including APC-dependent proteolysis, which points to proteins involved in controlling cell division and gene expression during development. While there are additional terms related to ribosome biogenesis and chromatin methylation, the dominant signal centers on cell-cycle progression and transcriptional regulation, suggesting this cluster groups regulators of mitosis and transcription with developmental context.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0031145","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0030154","count":2}]},{"hash":"55662782465187254","title":"Mitochondrial membrane dynamics and transport","description":"The top terms cluster around mitochondrial membrane processes (fission and genome maintenance) and transmembrane transport of metabolites and ions (phosphate, NAD, CoA, manganese), with additional signals related to membrane trafficking and signaling regulation (GPCR internalization, Ras). This suggests a mitochondria-centered theme of membrane dynamics and metabolite transport, with accompanying regulatory roles.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000002","count":2},{"id":"GO:0090149","count":2},{"id":"GO:0035435","count":2},{"id":"GO:0046580","count":2},{"id":"GO:0002031","count":2}]},{"hash":"1389842575966377051","title":"Prostaglandin and fatty acid metabolism","description":"This cluster centers on lipid-derived signaling and metabolism, with strong representation of prostaglandin biosynthesis and fatty acid omega-oxidation, complemented by hormone-related development terms and environmental/detoxification responses, suggesting a cohesive theme around lipid signaling and metabolic pathways driving development and stress responses.","confidence":"Medium","size":16,"edges":52,"triangles":88,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":14},{"id":"GO:0010193","count":8},{"id":"GO:0010268","count":8},{"id":"GO:0010760","count":8},{"id":"GO:0010430","count":8}]},{"hash":"1476360831001555005","title":"Guanylyl cyclase-cGMP signaling","description":"The top terms strongly point to a shared function in cGMP production and receptor guanylyl cyclase signaling (cGMP biosynthesis, receptor guanylyl cyclase signaling, cellular responses to forskolin, and hypoxia detection). While some terms are broader (embryonic development, transcription regulation), the dominant theme is NO/cGMP-related signal transduction, supporting a cohesive label around guanylyl cyclase and cGMP pathways.","confidence":"Medium","size":16,"edges":87,"triangles":236,"max_degree":14,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":5},{"id":"GO:0071880","count":5},{"id":"GO:0052565","count":5},{"id":"GO:0006182","count":5},{"id":"GO:0006355","count":5}]},{"hash":"1239697808429797428","title":"Cerebellar Development and Synaptic Formation","description":"The top terms are dominated by cerebellum-specific development: cerebellar cortex formation, Bergmann glial cell differentiation, and dendritic spine morphogenesis, alongside axon regeneration. While there are broader signaling terms (insulin and T cell receptor pathways) these appear ancillary, and the strongest cohesive signal points to cerebellar neuron maturation and synapse formation.","confidence":"High","size":16,"edges":34,"triangles":70,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0034501","count":14},{"id":"GO:0045736","count":14},{"id":"GO:0008286","count":13},{"id":"GO:0048679","count":13},{"id":"GO:0050852","count":13}]},{"hash":"443792658007417063","title":"Neural development and transcriptional regulation","description":"The top GO terms are centered on nervous system and neuron development (neuron development, nervous system development) with supporting signals for angiogenesis and chemotaxis, suggesting roles in neural development and cell migration. Additional terms point to transcriptional control (DNA-templated transcription, regulation of transcription factor activity) and DNA-related processes, plus post-translational acetylation and polyamine metabolism, which commonly accompany neural differentiation and growth. Taken together, the cluster most likely represents proteins involved in neural development with transcriptional regulatory functions.","confidence":"Medium","size":16,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0048666","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0006935","count":2}]},{"hash":"318015615638418174","title":"mRNA Splicing and Translational Regulation","description":"These proteins show strong enrichment for spliceosome-mediated mRNA splicing (including regulation of alternative splicing and general splicing) as well as elements of translation initiation and reinitiation, export, and mRNA modification. This pattern points to a coordinated set of factors governing post-transcriptional gene expression from RNA processing to translation, hence the chosen label.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:0045292","count":7}]},{"hash":"404181449322829026","title":"Ubiquitin-Proteasome\u2013Mediated Proteolysis in Meiosis and Oocyte Maturation","description":"These proteins are strongly linked by ubiquitin-dependent protein catabolic processes, especially SCF-dependent proteasomal degradation, and by meiosis/oocyte maturation terms (spindle assembly in female meiosis I; oocyte maturation). This points to a cluster of proteins involved in regulated proteolysis during meiotic progression, with additional, less-central associations to broader development. Overall, the dominant theme is proteolysis tied to meiosis and oocyte maturation.","confidence":"High","size":16,"edges":27,"triangles":13,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0042787","count":3},{"id":"GO:1902564","count":3},{"id":"GO:0071276","count":3},{"id":"GO:0007057","count":3}]},{"hash":"1161950546329634815","title":"Unknown","description":"The GO terms span proteolysis, ER targeting, glycosylation, angiotensin regulation, neural stem cell maintenance, and various stress responses, with no cohesive theme linking the proteins. This makes a single interpretable cluster label unlikely.","confidence":"","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0002002","count":2},{"id":"GO:0006486","count":2},{"id":"GO:0097150","count":2},{"id":"GO:0045047","count":1}]},{"hash":"619054527821430674","title":"Cell Cycle Regulation and Stress Signaling","description":"The proteins are enriched for processes governing cell division (cell division, septum digestion after cytokinesis) and signaling regulation (GTPase activity, protein serine/threonine kinase activity, arginine methylation, heterotrimerization). Additional terms link to stress responses (heat-shock\u2013related mRNA export) and mitochondria-to-nucleus signaling, suggesting a coordinated program of division control intertwined with stress and developmental signaling. The combination supports a single, coherent functional theme: regulation of the cell cycle by signaling pathways under stress conditions.","confidence":"Medium","size":16,"edges":17,"triangles":3,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0070208","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0035246","count":4},{"id":"GO:0071902","count":4},{"id":"GO:0051301","count":4}]},{"hash":"1635264885339954308","title":"Vertebrate organogenesis","description":"These proteins cluster around vertebrate developmental processes, including morphogenesis of the heart outflow tract, embryonic and camera-type eye development, placenta formation, and brain/endocrine structures (habenula, pituitary). The presence of multicellular organism development and transcriptional regulation by RNA polymerase II indicates coordinated gene regulation during organ formation, supporting a label focused on vertebrate organogenesis.","confidence":"High","size":16,"edges":35,"triangles":12,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0003148","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0048048","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0001890","count":5}]},{"hash":"2139059240679358265","title":"RNA splicing and translation regulation","description":"The top GO terms cluster around mRNA processing and translation control, including positive regulation of mRNA splicing via spliceosome, regulation of alternative mRNA splicing, mRNA export, mRNA modification, and initiation/reinitiation of translation. This indicates a cohesive module of post-transcriptional RNA processing linked to translational initiation control, making the label representative. Regulatory ncRNA-mediated gene silencing also fits the broader RNA regulation theme, with a developmental term (blastocyst formation) likely incidental.","confidence":"High","size":16,"edges":46,"triangles":52,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0001731","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0000381","count":7}]},{"hash":"504590633692332362","title":"Ubiquitin-mediated proteolysis in meiosis and oocyte maturation","description":"The top GO terms emphasize ubiquitin-dependent protein degradation, including SCF-dependent ubiquitination, with key meiosis/oocyte maturation processes (spindle assembly in female meiosis I and oocyte maturation). This suggests a shared function in regulated proteolysis governing meiotic progression and oocyte development, even though a couple of terms (circadian rhythm, neural tube initiation) may reflect broader developmental roles. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0021993","count":9},{"id":"GO:0051436","count":9},{"id":"GO:0031146","count":9},{"id":"GO:0070544","count":9}]},{"hash":"1507067991286813424","title":"Membrane Transporters (Varied Substrates)","description":"The cluster is enriched in multiple transmembrane transport terms, including sodium ion, nitrite, sialic acid, galactose, vitamin, and transepithelial chloride transport, pointing to a core theme of membrane transporters handling diverse substrates. There are also a couple of regulatory terms (negative regulation of transcription by RNA Pol II and protein ubiquitination) present, which may reflect broader regulatory roles of some members but are less central to the shared function. Overall, the dominant signal is transporter activity across varied substrates, suggesting the label fits best.","confidence":"Medium","size":16,"edges":19,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0030321","count":2},{"id":"GO:1900754","count":1}]},{"hash":"1777231573721238082","title":"Neuronal RNA Regulation and Stress Response","description":"This cluster centers on RNA metabolism in neural contexts: mRNA catabolic process, regulation of mRNA stability in response to stress, and positive regulation of miRNA catabolic process, plus a term related to neuronal action potential. While a few terms (carotene biosynthesis, isoprenoid pathway, and viral RNA perturbation) are less connected, the dominant signals point to neural RNA processing and stress-responsive regulation of gene expression.","confidence":"Medium","size":16,"edges":63,"triangles":70,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006402","count":1},{"id":"GO:0022013","count":1},{"id":"GO:0010610","count":1},{"id":"GO:2000627","count":1},{"id":"GO:0098908","count":1}]},{"hash":"2265531902877538624","title":"Inflammation and ECM Remodeling","description":"The terms cluster around inflammatory responses (response to LPS, regulation of chemokine production, blood coagulation) and extracellular matrix/tissue remodeling (elastin catabolic process, regulation of smooth muscle cell-matrix adhesion, tissue remodeling), suggesting a theme of inflammation-associated tissue remodeling, despite some development- or transcription-related GO terms which are less central here.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0015074","count":3},{"id":"GO:2000097","count":3}]},{"hash":"599769053609890904","title":"RNA processing and translation initiation regulators","description":"The cluster shows strong enrichment for mRNA processing and expression-control terms: regulation of mRNA polyadenylation, stress-responsive regulation of mRNA stability, alternative splicing via spliceosome, regulation of translational initiation, mRNA export, and mRNA modification, plus eIF4F complex assembly. Together these indicate a cohesive role in RNA maturation/export and in initiating translation, despite a couple obsolete terms. ","confidence":"High","size":16,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":9},{"id":"GO:0010610","count":8},{"id":"GO:0000381","count":7},{"id":"GO:0006446","count":7},{"id":"GO:0006406","count":7}]},{"hash":"1707319838289401180","title":"Unknown","description":"The GO terms cover a broad and disparate set of processes\u2014from developmental events (nipple morphogenesis, lung connective tissue development, parturition) to cell division (chromosome segregation, meiotic spindle midzone assembly), immune regulation, muscle receptor clustering, and even chitin metabolism. There is no single dominant function tying these proteins together, so no coherent cluster label can be assigned beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060658","count":2},{"id":"GO:0060427","count":2},{"id":"GO:0007065","count":1},{"id":"GO:0051257","count":1},{"id":"GO:0001808","count":1}]},{"hash":"353253321362814123","title":"Nematode embryogenesis and reproduction regulation","description":"The top GO terms cluster around reproductive and developmental processes in nematodes: maternal specification of dorsal/ventral axis, prevention of polyspermy, sperm\u2013egg interactions, embryonic morphogenesis, molting/cuticle formation, and regulation of gene expression (splicing, translation initiation). Together these point to a functional theme of nematode development and reproduction, rather than a single enzymatic activity, justifying a label centered on embryogenesis and reproductive regulation.","confidence":"Medium","size":16,"edges":18,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":2},{"id":"GO:2000360","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0043050","count":2},{"id":"GO:0035124","count":2}]},{"hash":"1413105192416262037","title":"Neuronal synapse formation and function","description":"Based on the GO terms enriched in this cluster, the proteins are tied to nervous system development, synapse organization, neuron cell\u2013cell adhesion, synaptic vesicle clustering, and regulation of excitatory postsynaptic potential, as well as trafficking to the synapse. This constellation points to a shared role in establishing and maintaining synaptic connections and excitatory signaling in neurons. Despite the apparent lack of physical interaction data (Edges: 0), the functional themes strongly support a cohesive synapse-focused function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:2000809","count":2},{"id":"GO:0003273","count":2},{"id":"GO:1902474","count":2},{"id":"GO:0007158","count":2}]},{"hash":"1142464626414060808","title":"Mitotic Cell Division Machinery","description":"This cluster is dominated by mitosis-related GO terms, including cell division, mitotic cell cycle, and mitotic sister chromatid segregation, pointing to proteins involved in chromosome segregation and progression through mitosis. A few other terms (ERAD transport, general transport) appear but do not define the main function of the group.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0000070","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0000920","count":2}]},{"hash":"630187851727908660","title":"Plant cell wall dynamics and fungal detection","description":"A set of terms strongly point to plant cell wall remodeling and biogenesis (xyloglucan metabolism, plant-type wall modification, cell wall biogenesis) with defense-related signaling to fungal origin (detection of fungal molecules, fungal-type wall organization). Calcium signaling terms (ER Ca2+ homeostasis, negative regulation of Ca2+ transport) suggest coordination between wall dynamics and intracellular signaling, and the response to L-glutamate provides a broader regulatory context, supporting a cohesive theme of cell wall\u2013associated growth and fungal defense. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006037","count":1},{"id":"GO:0010411","count":1},{"id":"GO:0032491","count":1},{"id":"GO:0009831","count":1},{"id":"GO:0042546","count":1}]},{"hash":"443193831939586568","title":"Epithelial Polarity and Adherens Junctions","description":"Most frequent GO terms describe epithelial polarity (apical/basal), zonula adherens assembly, and receptor clustering\u2014pointing to a module of cell\u2013cell adhesion and tissue polarity. Other terms like heart development and planar polarity extend this to developmental signaling and neural tissue patterning, and a couple immune terms appear as broader contexts, but the core signal is junctional complexes and polarity governing tissue architecture.","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0032720","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0045199","count":2}]},{"hash":"2247521331268235981","title":"Multi-tissue differentiation and morphogenesis","description":"The GO terms point to differentiation and morphogenesis across several tissues (Purkinje cells, lung epithelium, skeletal muscle, and vascular structures) with weaker signals for metabolism and immune regulation. This suggests a cluster of genes involved in developmental differentiation across multiple tissues rather than a single, cohesive pathway.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021702","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0001569","count":1},{"id":"GO:0050728","count":1},{"id":"GO:0005977","count":1}]},{"hash":"185766203003377129","title":"Unknown","description":"The top GO terms are from many unrelated processes (neural signaling, chromatin regulation, vascular and lung development, inflammation, glycogen metabolism, muscle development, apoptosis, and isoprenoid biosynthesis), and there are no edges or clear shared pathways linking the proteins, so there\u2019s no coherent functional theme to name beyond Unknown.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0060079","count":5},{"id":"GO:0035562","count":4},{"id":"GO:0001569","count":3},{"id":"GO:0050728","count":3},{"id":"GO:0005977","count":3}]},{"hash":"621086159227811851","title":"Ubiquitin-regulated muscle development","description":"The cluster\u2019s top GO terms center on ubiquitin-dependent protein catabolic processes and regulation of ubiquitination, including K33-linked ubiquitination, alongside skeletal muscle fiber and tissue development and swimming. This suggests a core theme where ubiquitin signaling modulates muscle formation and function, with other terms (neuronal endocytosis, renal absorption) appearing less central to the main pattern.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0031397","count":3},{"id":"GO:1900242","count":3},{"id":"GO:2000312","count":3},{"id":"GO:0070294","count":3}]},{"hash":"531981215593061012","title":"Heart, liver, and muscle regeneration","description":"This cluster shows enrichment for heart development, liver regeneration, and skeletal muscle satellite cell maintenance, suggesting a tissue regeneration theme across organs; other terms relate to epigenetic regulation but do not override the regeneration signal.","confidence":"Medium","size":16,"edges":17,"triangles":2,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0090309","count":2},{"id":"GO:0097198","count":2},{"id":"GO:0034244","count":2},{"id":"GO:0097421","count":2}]},{"hash":"946901793341224101","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007339","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0030216","count":2},{"id":"GO:1903883","count":1},{"id":"GO:1903886","count":1}]},{"hash":"971678840773917591","title":"Innate antiviral defense and ubiquitin-proteasome degradation","description":"The top terms are dominated by innate immune response and defense against virus, alongside ubiquitin-dependent proteolysis and SCF-dependent proteasomal degradation, pointing to a shared theme of antiviral defense linked to regulated protein turnover. A few developmental and vitamin D-related terms appear, but they are less represented, supporting a core immune-proteolysis cluster impression.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0031146","count":3},{"id":"GO:0032474","count":2}]},{"hash":"1457528886116335319","title":"Cardiac development and heart-rate regulation","description":"This cluster shows strong enrichment for heart-focused terms (heart development; regulation of cardiac conduction; regulation of heart rate), suggesting proteins involved in cardiac structure and electrical function. Some neural and other processes appear among the top terms, but the heart-related terms are the most representative of the cluster\u2019s core function.","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007614","count":3},{"id":"GO:0022011","count":3},{"id":"GO:0001837","count":3}]},{"hash":"968560787435260570","title":"Liver regeneration and coagulation/ECM remodeling","description":"Explanation: The terms point to liver-specific processes such as liver regeneration, hepatocyte proliferation regulation, ECM constituent secretion, proteolysis, and coagulation/fibrinolysis regulation, suggesting a theme of liver tissue remodeling and hemostasis in response to stress or injury.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":1},{"id":"GO:0071333","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0042493","count":1},{"id":"GO:0051918","count":1}]},{"hash":"2194071896387735167","title":"Nematode development, reproduction, and behavior","description":"The GO terms cluster around nematode embryogenesis, molting with cuticle formation, and reproductive processes (e.g., polyspermy prevention, maternal axis specification), plus larval locomotory behavior, indicating a cohesive theme of nematode development and biology.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":2},{"id":"GO:2000360","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0043050","count":2},{"id":"GO:0035124","count":2}]},{"hash":"1002773195291727953","title":"Neural development and synaptic signaling","description":"The enriched GO terms cluster strongly around nervous system development, dendritic spine morphogenesis, and protein localization to synapse, with cortical FGFR signaling linked to orbital/frontal cortex development, supporting a theme of neural development and synaptic connectivity. A few terms (like B cell receptor signaling) are immune-related but appear less central to the dominant neural theme. Overall, the cluster appears to represent neural development and synaptic organization.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":4},{"id":"GO:0050853","count":3},{"id":"GO:0035418","count":3},{"id":"GO:0035023","count":3},{"id":"GO:1903351","count":2}]},{"hash":"204271512220496198","title":"Synaptic Plasticity and Membrane Trafficking","description":"The prevailing terms center on regulation of neuronal synaptic plasticity (long- and short-term) and transcytosis/membrane transport, with membrane organization (lipid rafts) and signaling that can influence endothelial/barrier function. Taken together, the cluster seems to reflect membrane trafficking and signaling linked to synaptic modulation.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048169","count":4},{"id":"GO:0048172","count":3},{"id":"GO:0045056","count":3},{"id":"GO:0035725","count":3},{"id":"GO:0071805","count":3}]},{"hash":"143822285826446640","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071039","count":2},{"id":"GO:0071051","count":2},{"id":"GO:0071035","count":2},{"id":"GO:0071038","count":2},{"id":"GO:0071042","count":2}]},{"hash":"2091812812740658027","title":"Spermatogenesis and testosterone signaling","description":"Most terms cluster around male reproductive biology: Leydig cell differentiation, luteinizing hormone secretion, and positive regulation of testosterone secretion point to steroidogenesis and hormonal control of male fertility. Also, acrosome assembly, flagellated sperm motility, and spermatid nucleus differentiation indicate gamete development and function. A few terms related to skeletal development appear incidental; overall the core theme is spermatogenesis and hormone-regulated male development.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":2},{"id":"GO:0033327","count":1},{"id":"GO:0030317","count":1},{"id":"GO:0032275","count":1},{"id":"GO:0001675","count":1}]},{"hash":"875379222917725766","title":"Unknown","description":"The top terms are highly heterogeneous, spanning gravity response, neuronal development and activity, RNA metabolic processes (mRNA catabolism, mRNA stability, miRNA turnover), and unrelated biosynthetic pathways (carotene and isoprenoid biosynthesis), with no connecting function and no edges among proteins. This lacks a cohesive theme to name a specific function cluster.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048060","count":2},{"id":"GO:0006402","count":1},{"id":"GO:0022013","count":1},{"id":"GO:0010610","count":1},{"id":"GO:2000627","count":1}]},{"hash":"1999243144466572601","title":"Cerebellar neuron development and Purkinje cell migration","description":"Most top GO terms relate to cerebellar development and Purkinje cell biology (radial glia-guided migration of Purkinje cells, cerebellar granule cell precursor proliferation, Purkinje cell layer maturation, and branching morphogenesis of a nerve). Together with a few broader terms like GPCR signaling regulation and inflammatory response, the main signal points to a cerebellar neural development theme, rather than unrelated processes. Confidence: Medium","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021942","count":2},{"id":"GO:0021930","count":2},{"id":"GO:1902499","count":2},{"id":"GO:0048755","count":2},{"id":"GO:0021691","count":2}]},{"hash":"65129698809670323","title":"Nucleocytoplasmic transport and chromatin assembly","description":"GO terms point to nuclear import/export and ribosome biogenesis (NLS-bearing protein import into nucleus, ribosomal protein import into nucleus, mRNA transport) and chromatin assembly during DNA replication, suggesting a nucleus-centered role. Peripheral terms like TORC1 signaling, endosome-to-lysosome transport, ciliogenesis, meiosis regulation, and apoptosis appear less central but indicate broader cellular regulation. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008333","count":2},{"id":"GO:1903538","count":1},{"id":"GO:0097711","count":1},{"id":"GO:0038202","count":1},{"id":"GO:0006607","count":1}]},{"hash":"89226766089560428","title":"Mitotic Cell Cycle and Kinetochore Localization","description":"The top GO terms are dominated by mitotic processes\u2014G1/S and G2/M transitions, spindle pole separation, re-entry into the mitotic cycle, and protein localization to the kinetochore\u2014along with chromosome condensation signals, suggesting a cohesive cluster of proteins involved in mitosis and chromosome management, with supporting proliferation signaling.","confidence":"High","size":15,"edges":60,"triangles":137,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":6},{"id":"GO:0010696","count":5},{"id":"GO:0000320","count":5},{"id":"GO:0033598","count":5},{"id":"GO:0000086","count":5}]},{"hash":"1631133249803764523","title":"Skin Epithelium Growth and Innate Immunity","description":"The cluster combines keratinocyte differentiation, Hippo and Wnt signaling (growth and differentiation control), and apoptotic regulation with innate immune responses and defense against Gram-positive bacteria, suggesting a cohesive theme of skin epithelial growth control, differentiation, and inherent defense mechanisms.","confidence":"High","size":15,"edges":98,"triangles":370,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060044","count":11},{"id":"GO:0030216","count":11},{"id":"GO:0035329","count":11},{"id":"GO:0006915","count":11},{"id":"GO:0090263","count":11}]},{"hash":"2077838460075743243","title":"Sensory Perception and Ion Transport","description":"The terms cluster around multiple sensory modalities (pain, visual, touch) and responses to stimuli (temperature), with ion transport across the plasma membrane (potassium/sodium) suggesting neuronal signaling and membrane excitability. Although there are a few terms related to development and metabolism, the dominant theme ties to sensory processing and ion flux.","confidence":"Medium","size":15,"edges":28,"triangles":13,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019233","count":9},{"id":"GO:0007275","count":7},{"id":"GO:0071502","count":6},{"id":"GO:0097623","count":6},{"id":"GO:0098719","count":6}]},{"hash":"1494967747942826093","title":"Cyclic nucleotide signaling (cAMP/cGMP)","description":"This cluster centers on proteins linked to cyclic nucleotide signaling: cAMP and cGMP biosynthesis (GO:0006171, GO:0006182), intracellular signal transduction (GO:0035556), and related pathways such as forskolin response and adenylate cyclase-activating signaling (GO:1904322, GO:0071880). The presence of blue light signaling and transcription regulation terms suggests a broader signaling role tied to cyclic nucleotides. Overall, the terms point to a coherent theme of cAMP/cGMP\u2013mediated signaling, though some annotations are older or ancillary, resulting in a moderately confident but not overly tight grouping. ","confidence":"Medium","size":15,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009785","count":2},{"id":"GO:0052565","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0006182","count":2},{"id":"GO:0030828","count":2}]},{"hash":"1842107231041671519","title":"Endocytosis and Endosome Trafficking","description":"The top GO terms emphasize membrane trafficking, notably regulation of early to late endosome transport and caveolin-mediated endocytosis, suggesting a core function in vesicle internalization and endosome maturation. Associated terms like dopamine and interleukin-1 signaling, and cell shape/polarity maintenance, can relate to receptor trafficking and signaling modulation, reinforcing a unifying theme around endocytic processes. Overall, the cluster appears to represent endocytosis and endosome trafficking activity.","confidence":"Medium","size":15,"edges":61,"triangles":95,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000641","count":15},{"id":"GO:0033138","count":15},{"id":"GO:0048538","count":15},{"id":"GO:0010696","count":15},{"id":"GO:1903351","count":15}]},{"hash":"1730787020679188676","title":"Embryonic development signaling and morphogenesis","description":"The top GO terms emphasize embryonic development (cranial skeleton morphogenesis, thymus development) and key signaling pathways (PI3K/AKT, MAPK/JNK) with related phosphorylation regulation and endosome transport, suggesting a cluster of proteins involved in developmental signaling and morphogenesis. Some terms like DNA replication are general, but the core theme appears developmental and signaling-centric rather than a single metabolic process. Overall, a plausible but not strongly cohesive group.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0048701","count":15},{"id":"GO:0006260","count":15},{"id":"GO:0043491","count":14},{"id":"GO:0070671","count":14},{"id":"GO:0007257","count":14}]},{"hash":"491313142827915220","title":"Rac-driven cytoskeletal remodeling and cell migration","description":"The GO terms cluster around Rac signaling, lamellipodium and ruffle assembly, stress fiber formation, and processes like wound healing and sprouting angiogenesis, all of which center on actin cytoskeleton remodeling to drive cell movement. While other terms (phospholipid homeostasis, gene expression) provide context, the dominant pattern is coordinated cytoskeletal rearrangement enabling migration and wound responses.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0033138","count":6},{"id":"GO:0016601","count":6},{"id":"GO:0044319","count":6},{"id":"GO:0090051","count":6},{"id":"GO:0045792","count":6}]},{"hash":"711457882380203784","title":"Cross-tissue Developmental Signaling","description":"The top GO terms span development across multiple tissues (skeletal muscle, nervous system, thymus) and include immune signaling (B cell receptor signaling) along with broader signaling and transport processes (endosome transport, phosphorylation, cell shape/polarity). This points to a broad, multi-tissue developmental signaling theme rather than a single tissue-specific function, so a concise label capturing cross-tissue developmental signaling is appropriate. Confidence: Low.","confidence":"","size":15,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007519","count":15},{"id":"GO:0050853","count":15},{"id":"GO:0007399","count":15},{"id":"GO:2000641","count":14},{"id":"GO:0033138","count":14}]},{"hash":"2082344596901300416","title":"JNK/MAPK Signaling","description":"Most terms point to kinase signaling pathways, especially the JNK cascade (GO:0007254) and related phosphorylation events (e.g., PI3K/AKT signaling). A few terms touch on development and immune responses, but the dominant theme is MAPK signaling. Because there are no interactions (edges) to define a tighter module, this label reflects a general JNK/MAPK signaling cluster rather than a specific substrate group.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":1},{"id":"GO:0070671","count":1},{"id":"GO:0007257","count":1},{"id":"GO:2000641","count":1},{"id":"GO:0033138","count":1}]},{"hash":"1600293620948213127","title":"Neuronal signaling and transcriptional regulation","description":"The cluster shows strong signals for DNA-templated transcription regulation and intracellular signaling, with neural-focused terms such as cellular response to dopamine, adenylate cyclase-activating adrenergic receptor signaling, and fasciculation of motor neuron axon. While there are some immune-related responses present (LPS and Gram-positive defense), the core theme points to neural signaling and transcription control, suggesting proteins that coordinate gene regulation with neuronal signaling pathways.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":4},{"id":"GO:0006351","count":4},{"id":"GO:1903351","count":3},{"id":"GO:0071880","count":3},{"id":"GO:0043330","count":3}]},{"hash":"1084727551957914719","title":"cAMP/cGMP GPCR signaling","description":"The proteins are enriched for GO terms involving adenylate cyclase-activating adrenergic receptor signaling, receptor guanylyl cyclase signaling, and both cAMP and cGMP biosynthesis, along with intracellular signal transduction and related responses (e.g., forskolin response, hypoxia detection). The shared theme is cyclic nucleotide signaling mediated by GPCRs and guanylyl cyclases, indicating this cluster centers on cAMP/cGMP signaling pathways.","confidence":"High","size":15,"edges":6,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071880","count":12},{"id":"GO:0052565","count":12},{"id":"GO:0006182","count":12},{"id":"GO:0006355","count":12},{"id":"GO:0070483","count":12}]},{"hash":"1948183991453599409","title":"Dopamine Receptor Signaling and Pain/Thermogenesis","description":"The cluster is enriched for dopaminergic signaling terms (adenylate cyclase-activating dopamine receptor signaling pathway) and the response to amphetamine, alongside sensory/neurological terms such as sensory perception of pain and diet-induced thermogenesis, plus cellular responses to temperature. This pattern suggests a neural signaling module linking dopaminergic pathways to pain perception and energy/thermogenic regulation. Some terms (e.g., retina development) may reflect broader shared signaling roles or secondary associations rather than core cluster function, but the dominant theme centers on dopamine-mediated signaling and sensory/thermogenic responses.","confidence":"Medium","size":15,"edges":12,"triangles":1,"max_degree":10,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":11},{"id":"GO:0008284","count":11},{"id":"GO:0008283","count":11},{"id":"GO:0060041","count":11},{"id":"GO:0071502","count":10}]},{"hash":"1893219824822019912","title":"Membrane protein targeting and translocation","description":"This cluster is dominated by GO terms related to membrane targeting and translocation, especially SRP-dependent cotranslational targeting to membranes and post-translational targeting to membranes, suggesting a set of proteins involved in directing nascent proteins to membranes and into appropriate compartments. Other terms (iron-sulfur cluster assembly, karyogamy, stress-regulated apoptosis) are present but less central, likely reflecting ancillary roles or annotation overlap. ","confidence":"Medium","size":15,"edges":93,"triangles":321,"max_degree":14,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000742","count":5},{"id":"GO:0006260","count":5},{"id":"GO:1902037","count":4},{"id":"GO:0006880","count":4},{"id":"GO:1903751","count":4}]},{"hash":"1283260761682641146","title":"Neurodevelopment and Synaptic Function","description":"This cluster centers on brain and nervous system development and synaptic processes, including regulation of vesicle exocytosis, glutamatergic transmission, and long-term potentiation, suggesting a cohesive module for forming and modulating synapses during neural development; the presence of myoblast fusion hints at neuromuscular junction aspects, but the dominant theme is neurodevelopment and synaptic signaling.","confidence":"High","size":15,"edges":72,"triangles":178,"max_degree":12,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:2000300","count":6},{"id":"GO:0007399","count":6},{"id":"GO:0090153","count":5},{"id":"GO:0043065","count":5}]},{"hash":"570057946769222066","title":"Neural drug response and pain regulation","description":"This cluster centers on brain-related processes such as responses to morphine and amphetamine, regulation of sensory pain perception, and modulation of synaptic transmission, along with learning and sensorimotor gating (prepulse inhibition). A couple of terms appear noisy (cell wall catabolic process, obsolete protein-chromophore linkage), but the dominant pattern points to neural signaling and drug- and pain-related functions.","confidence":"High","size":15,"edges":30,"triangles":5,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0043278","count":3},{"id":"GO:0001975","count":2},{"id":"GO:0051930","count":2},{"id":"GO:0051967","count":2},{"id":"GO:0008542","count":2}]},{"hash":"1973160562379836067","title":"Angiogenesis and heart development with inflammation","description":"The top GO terms center on vascular/cardiac development (angiogenesis, heart development, stem cell differentiation) and inflammatory processes (inflammatory response, bradykinin catabolic process), with supporting signaling roles (inositol trisphosphate biosynthesis, sphingolipid biosynthesis). A few terms (pseudohyphal growth, insulin processing) are less related and likely noise or cross-species annotations, but the core theme remains vascular/heart development intertwined with inflammation. Confidence: Medium","confidence":"Medium","size":15,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048863","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0006954","count":3},{"id":"GO:0010951","count":3},{"id":"GO:0010815","count":3}]},{"hash":"1864580051830377146","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0000463","count":4},{"id":"GO:0000466","count":4},{"id":"GO:0048568","count":4},{"id":"GO:0000472","count":4}]},{"hash":"84853844577115650","title":"Synapse Formation and Cell Adhesion","description":"The top GO terms center on regulation and organization of synapse assembly, along with heterophilic cell-cell adhesion, pointing to roles in synaptic connectivity and cell-contact signaling. Additional terms indicate broader developmental signaling and differentiation (Hedgehog pathway, myoblast differentiation, mesoderm specification), suggesting these proteins participate in coordinated developmental cell communication. A single outlier term about symbiont entry into host cells is less aligned but does not undermine the core synapse/adhesion theme.","confidence":"Medium","size":15,"edges":11,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051963","count":7},{"id":"GO:0007157","count":6},{"id":"GO:0048378","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0045663","count":6}]},{"hash":"407543293502281866","title":"Neural Sensory Perception and Behavioral Signaling","description":"The top GO terms cluster around neural processing and behavior, including sensory perception (pain, vision), dopaminergic synaptic transmission, visual learning, and behavioral responses (to cocaine). Additional terms involve temperature-responsive regulation and prostaglandin signaling, suggesting a broader neuroendocrine context. Overall, the cluster appears centered on neural sensing, signaling, and behavior rather than a single, narrow pathway.","confidence":"Medium","size":15,"edges":12,"triangles":1,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0071502","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0007507","count":8},{"id":"GO:0001963","count":8}]},{"hash":"995208738166701879","title":"Central Metabolism and Redox Balance","description":"The GO terms show glycolysis and TCA cycle activity, 2-oxoglutarate and glutathione metabolism, and redox/homeostasis processes, plus xenobiotic response. This suggests a cluster centered on energy production and redox balance, with ancillary ties to nucleotide turnover (DNA replication) and beta-alanine synthesis.","confidence":"Medium","size":15,"edges":84,"triangles":241,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006099","count":5},{"id":"GO:0006096","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0045454","count":3}]},{"hash":"308426294839558743","title":"Vascular Redox and Inflammation Signaling","description":"The cluster shows prominent oxidative stress detoxification and glutathione biosynthesis terms, plus inflammatory regulation (TNF signaling, MCP-1, JNK) and vascular/platelet functions (platelet aggregation, vascular smooth muscle proliferation), with calcium-related muscle contraction processes, suggesting a common theme of redox-driven inflammatory and vascular signaling.","confidence":"High","size":15,"edges":97,"triangles":365,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":10},{"id":"GO:0070527","count":10},{"id":"GO:1904706","count":9},{"id":"GO:0014810","count":9},{"id":"GO:0043508","count":9}]},{"hash":"924396897364638695","title":"Ubiquitin-Dependent Proteolysis and Muscle Development","description":"The cluster is dominated by ubiquitin-dependent protein catabolic processes (SCF-dependent proteasomal ubiquitin-dependent degradation) and ubiquitination regulation, with strong links to skeletal muscle fiber and tissue development. The presence of circadian rhythm regulation suggests temporal control of proteolysis. Together, these terms point to a core theme of ubiquitin-proteasome\u2013driven proteostasis influencing muscle development, with secondary associations to nervous system and renal functions. ","confidence":"High","size":15,"edges":16,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0031146","count":9},{"id":"GO:0042752","count":6},{"id":"GO:0007399","count":5},{"id":"GO:0031397","count":4}]},{"hash":"1467016157791122676","title":"Antioxidant defense and DNA repair","description":"The most represented terms emphasize redox balance and detoxification (cellular oxidant detoxification; redox homeostasis) and glutathione biosynthesis, pointing to antioxidant defense. The inclusion of nucleotide-excision repair suggests coordination with DNA repair under oxidative stress. While some terms touch on inflammation and neural development, the core theme appears to be redox management and genome maintenance.","confidence":"Medium","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":11},{"id":"GO:0045454","count":9},{"id":"GO:2000255","count":9},{"id":"GO:0006289","count":9},{"id":"GO:0001516","count":9}]},{"hash":"376160508903363100","title":"Neuronal signaling and drug response","description":"The top GO terms cluster around neural communication and perception (GABAergic and dopaminergic synaptic transmission; visual and pain perception) and behavioral responses to drugs (morphine, cocaine), along with related signaling activities (GTPase regulation, prostaglandin response). A heart development term appears as a broader developmental signal, but the dominant pattern points to neural signaling and drug-induced behaviors.","confidence":"Medium","size":15,"edges":65,"triangles":119,"max_degree":13,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0032228","count":10},{"id":"GO:0071380","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0043278","count":10}]},{"hash":"1274982197340265525","title":"Developmental gene expression and protein turnover","description":"This cluster is enriched for gene expression and protein production/processing (DNA-templated transcription, ribosome biogenesis, ribosomal large subunit biogenesis) alongside protein degradation (SCF-dependent ubiquitin-proteasomal catabolic process) and development-related processes (multicellular organism development, single fertilization, cell division) with signaling regulation (protein serine/threonine kinase activity). The combination suggests a coordinated program of gene expression, ribosome assembly, protein modification, and turnover during development. ","confidence":"Medium","size":15,"edges":7,"triangles":2,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0031146","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0007338","count":3},{"id":"GO:0042273","count":3}]},{"hash":"2218871457719047348","title":"Neurotransmitter Biosynthesis and Vesicle Loading","description":"The cluster\u2019s top GO terms center on production of neurotransmitters (GABA, dopamine) and their packaging into synaptic vesicles, with circadian rhythm as a related regulatory process, suggesting a neural signaling theme; a few outlier terms (phytoalexin/alkaloid metabolism, cell migration) are present but do not override the core neurochemical pattern.","confidence":"High","size":15,"edges":37,"triangles":42,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0009449","count":3},{"id":"GO:0015842","count":3},{"id":"GO:0052314","count":3},{"id":"GO:0007623","count":3},{"id":"GO:0042412","count":3}]},{"hash":"392166033732111111","title":"Unknown","description":"Top terms cover endocytosis and Golgi-ER transport, negative regulation of ubiquitination, developmental processes across multiple tissues, and plant tropisms; this diversity shows no single shared function for the cluster, and the absence of edges supports labeling it Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":3},{"id":"GO:0006890","count":2},{"id":"GO:0031397","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0009638","count":2}]},{"hash":"2100928163977524568","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":43,"triangles":67,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0002047","count":3},{"id":"GO:0019740","count":3},{"id":"GO:0001302","count":3},{"id":"GO:1904524","count":3},{"id":"GO:0006602","count":3}]},{"hash":"1805528772608414004","title":"GPCR-Mediated Sensory Perception and Thermogenesis","description":"This cluster is enriched for G protein-coupled receptor signaling terms (including dopamine receptor signaling and cGMP-mediated pathways) and a variety of sensory processes (visual perception, pain perception, and cellular response to temperature stimulus). The inclusion of diet-induced thermogenesis and temperature-related responses supports a thermoregulatory/metabolic angle, while terms related to neutrophil chemotaxis and inflammatory regulation suggest GPCR-mediated immune signaling. Overall, the proteins likely participate in GPCR-driven sensory signaling with links to metabolic/thermogenic and immune pathways.","confidence":"Medium","size":15,"edges":39,"triangles":22,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0090023","count":8},{"id":"GO:0042391","count":8}]},{"hash":"188836494830741359","title":"Membrane Solute Transporters","description":"The top terms are dominated by transmembrane transport of diverse solutes (sodium, nitrite, nitrate, phosphate ions, galactose, arabinose, vitamin, and 4-hydroxyphenylacetate), pointing to membrane transporter proteins handling nutrient and ion transport. Blood coagulation and negative regulation of inflammatory response are present but much less represented, likely incidental annotations. Overall, the cluster is best described by transporter function across membranes.","confidence":"High","size":15,"edges":30,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0050728","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0035461","count":2},{"id":"GO:1900754","count":2}]},{"hash":"974540627782883822","title":"Developmental tissue remodeling and signaling","description":"The top GO terms cluster around tissue remodeling and morphogenesis across diverse contexts (lung branching, basement membrane disassembly, bone resorption, decidualization) with supporting hormonal and signaling inputs (Wnt, thyroid hormone response, neural proliferation) and immune involvement (T cell cytotoxicity), suggesting a general theme of development-driven tissue remodeling rather than a single pathway. ","confidence":"Medium","size":15,"edges":81,"triangles":243,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0035593","count":10},{"id":"GO:2000179","count":10},{"id":"GO:0046697","count":10},{"id":"GO:0097067","count":10},{"id":"GO:0001913","count":10}]},{"hash":"1906791391560285117","title":"ER Protein Homeostasis and Ribosome Biogenesis","description":"This cluster centers on protein quality control and ER-associated processing (deubiquitination, ubiquitin-dependent ERAD, sumoylation, tail-anchored insertion into the ER, aggresome assembly) along with core ribosome biogenesis activities (translation, ribosomal small subunit assembly, SSU-rRNA maturation). The combination suggests a cohesive theme of maintaining protein homeostasis and coordinating ribosome production, with a few peripheral terms that are less central to this core role.","confidence":"Medium","size":15,"edges":82,"triangles":232,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":8},{"id":"GO:0030433","count":7},{"id":"GO:0016925","count":7},{"id":"GO:0010637","count":6},{"id":"GO:0045648","count":6}]},{"hash":"2093202231847231260","title":"Mitochondrial Metabolite Transport","description":"These proteins share GO terms for transporting a variety of metabolites and cofactors across mitochondrial membranes (pyridoxal phosphate, alpha-ketoglutarate, ornithine, citrate, phosphate, magnesium, NAD, deoxynucleotides) and include a note on mitochondrial membrane fission, underscoring a mitochondrial-centric functional theme. The common thread is transport across the mitochondrial inner membrane with related dynamics.","confidence":"High","size":15,"edges":14,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0031921","count":11},{"id":"GO:0015742","count":11},{"id":"GO:0000066","count":11},{"id":"GO:0090149","count":11},{"id":"GO:0006843","count":11}]},{"hash":"858187032684577578","title":"Transmembrane Ion and Metabolite Transporters","description":"The cluster is dominated by GO terms for transmembrane transport, especially ion transport (potassium and sodium) and metabolite transport (succinate, citrate, malate, monoatomic anions), indicating a coherent set of membrane transport proteins. The presence of a single anticoagulant-related term (blood coagulation) appears incidental and does not undermine the overall transport-focused theme. Confidence reflects the clear transport signature.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0006813","count":4},{"id":"GO:0055085","count":4},{"id":"GO:0015700","count":4},{"id":"GO:0006814","count":4},{"id":"GO:2000185","count":4}]},{"hash":"1860494101660405584","title":"Developmental signaling and cell cycle control","description":"Top GO terms point to central roles in signaling regulation (kinase activity and GTPase regulation) and developmental processes (multicellular development, mitotic cell cycle, autophosphorylation, skin development). The presence of mRNA transport, protein methylation, and hypoxia response suggests a broader regulatory network linking signaling to growth, differentiation, and stress responses. Overall, the cluster appears to center on signaling-driven development and proliferation rather than a single, narrow function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071902","count":8},{"id":"GO:0043547","count":8},{"id":"GO:0007275","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0051028","count":8}]},{"hash":"1618999355575509034","title":"Mitochondrial cofactor and metal transport","description":"The top GO terms point to transport of metabolites and cofactors (NAD, CoA, pyridoxal phosphate, glycine) and metal ions (iron, manganese) into or within mitochondria, plus related amino acid and calcium transport. This suggests a cohesive role in mitochondrial nutrient and cofactor homeostasis, despite a few outliers. ","confidence":"Medium","size":15,"edges":5,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":6},{"id":"GO:0006469","count":4},{"id":"GO:0036444","count":4},{"id":"GO:0035352","count":3},{"id":"GO:0035349","count":3}]},{"hash":"942952313609168343","title":"Nuclear trafficking and genome maintenance","description":"This cluster centers on nucleus-associated processes: mRNA export, import of NLS-bearing and ribosomal proteins into the nucleus, and DNA replication with mitotic chromosome alignment, suggesting a core theme of nuclear transport and genome maintenance. Additional terms point to protein quality control and turnover (proteasome assembly, regulation of proteolysis) and RNA handling (stress granule disassembly), which are functionally related to maintaining nuclear and cellular homeostasis during replication and division. Confidence: Medium.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006406","count":5},{"id":"GO:0070389","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0035617","count":4},{"id":"GO:0006607","count":4}]},{"hash":"2201164177994219363","title":"Mitochondrial import and gene expression","description":"The cluster's top GO terms point to mitochondrial outer membrane organization and translocase complex assembly, suggesting involvement in mitochondrial protein import. In addition, translation and 7-methylguanosine mRNA capping indicate core gene-expression processes, with chromosome segregation hinting at cell-cycle-related roles. Some terms like DNA integration and proviral latency appear more noise than functional linkage, so the label captures the strongest common theme without overreaching.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0007059","count":3},{"id":"GO:0006370","count":2},{"id":"GO:0006626","count":1},{"id":"GO:0070096","count":1}]},{"hash":"1849694567043549478","title":"Post-transcriptional mRNA processing and translation regulation","description":"The top GO terms cluster around regulation of mRNA polyadenylation and tail shortening, alternative splicing, mRNA export, mRNA modification, and regulation of translational initiation, plus mRNA stability under stress. This suggests a cohesive theme of controlling mRNA maturation and translation rather than distinct processes, so a label focused on post-transcriptional regulation best captures the cluster.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0060211","count":4},{"id":"GO:0000381","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0016556","count":3}]},{"hash":"970075396655002915","title":"Endocardial cushion formation and vascular morphogenesis","description":"The top GO terms cluster around heart development and vascular morphogenesis, notably endocardial cushion formation (cell migration and EMT), dorsal aorta morphogenesis, and smooth muscle differentiation, with cell-matrix adhesion supporting morphogenesis. A few terms reference neural paranode components or unrelated metabolism, which appear as noise. Overall, the dominant theme is cardiovascular development and morphogenesis.","confidence":"Medium","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002175","count":3},{"id":"GO:0030913","count":3},{"id":"GO:0003273","count":2},{"id":"GO:1905065","count":2},{"id":"GO:0035912","count":2}]},{"hash":"965115689120507864","title":"Xenobiotic and Vitamin Transporters","description":"The top GO terms emphasize transmembrane transport of xenobiotics and vitamins (GO:0006855 and GO:0035461), with antibiotic-related responses also linked to xenobiotics. Although several biosynthetic terms are labeled obsolete, the strongest signal is membrane transport for foreign compounds and vitamins, suggesting a transporter-focused cluster. The lack of edges does not negate this theme, it simply reflects the current dataset connectivity.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0009086","count":2},{"id":"GO:0045746","count":2},{"id":"GO:0019877","count":2}]},{"hash":"53380619879776184","title":"Vertebrate Embryonic Development and Differentiation","description":"These GO terms point to broad embryonic development and lineage differentiation in vertebrates. The cluster includes neural crest migration, peripheral nervous system development, neuron formation, endocrine gland development (pituitary, pancreas), digestive tract morphogenesis, and blood cell differentiation, all of which are key steps in early tissue patterning and cell fate specification. The presence of negative regulation of transcription by RNA polymerase II suggests regulatory control mechanisms common to developmental programs.","confidence":"High","size":15,"edges":4,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0021983","count":6},{"id":"GO:0045648","count":4},{"id":"GO:0090009","count":4},{"id":"GO:0030851","count":4}]},{"hash":"2283953813803660998","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms are dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, ERAD-related term, and K33-linked ubiquitination), pointing to a cluster of proteins involved in the ubiquitin-proteasome system and regulation of ubiquitination. Some muscle development terms appear, but they are less representative than the strong ubiquitination signal.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051865","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0031397","count":2},{"id":"GO:2000312","count":2}]},{"hash":"1464427299308600840","title":"Neuronal signaling and autonomic regulation","description":"This cluster centers on neural communication and modulation: synaptic transmission (cholinergic), regulation of nerve impulse transmission, conditioned taste aversion, histamine responses, and autonomic heart-rate regulation. Additional terms touch on insecticide/ion-channel-related excitability and amyloid-beta\u2013related processes, which are linked to neural function and neurodegeneration. Together, these suggest a coherent theme of nervous system signaling and autonomic control, with related exocytosis events (acrosome reaction) contributing to broader signaling biology.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017085","count":3},{"id":"GO:0035725","count":2},{"id":"GO:0071420","count":2},{"id":"GO:0007340","count":2},{"id":"GO:1904645","count":2}]},{"hash":"389287380506078876","title":"Unknown","description":"The GO terms span immune responses (immune response, regulation of inflammatory response, cytolysis), neural signaling and sensory modulation (dopamine receptor signaling, glutamatergic synaptic regulation, prepulse inhibition, regulation of pain perception), and even light absorption, with no clear, single biological process linking them. Given 0 edges and no cohesive pathway, there isn\u2019t a distinctive function that represents the cluster as a unit, so a precise label cannot be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006955","count":3},{"id":"GO:0046849","count":3},{"id":"GO:0001975","count":3},{"id":"GO:0051930","count":3},{"id":"GO:0051967","count":3}]},{"hash":"567124498214931862","title":"Stress-Responsive Translational Regulation","description":"The GO terms predominantly describe regulation of cytoplasmic translation and initiation in response to stress and starvation, including glucose, leucine, and UV-induced translation control, pointing to a common role in adapting protein synthesis under stress. Some terms (neuron projection extension, DNA damage checkpoint signaling) are present but less central to the core theme.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990497","count":2},{"id":"GO:0031953","count":2},{"id":"GO:0072755","count":2},{"id":"GO:1990253","count":2},{"id":"GO:1990138","count":2}]},{"hash":"1308523337300502289","title":"Multi-tissue Developmental Differentiation","description":"The top GO terms cover lens and skeletal development, neuron projection formation, immune cell differentiation (dendritic, B and T cell signaling), and cell adhesion, indicating a broad developmental/differentiation program across multiple tissues rather than a single pathway.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":3},{"id":"GO:0001501","count":3},{"id":"GO:2001200","count":3},{"id":"GO:0007275","count":2},{"id":"GO:0031175","count":2}]},{"hash":"2101453278046803156","title":"Unknown","description":"Top terms cover neural development, axis specification, and innate immunity with no clear common function; no dominant shared pathway or process ties the proteins together, so a cohesive label cannot be established.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031637","count":1},{"id":"GO:0007310","count":1},{"id":"GO:0008045","count":1},{"id":"GO:0006967","count":1},{"id":"GO:0008063","count":1}]},{"hash":"526359875327276557","title":"Proteostasis and stress response","description":"The cluster shows strong enrichment for proteostasis-related processes, including ubiquitin-dependent ERAD, ER-associated misfolded protein degradation, stress granule disassembly, chaperone-assisted refolding, autophagosome maturation, and general protein processing, indicating a cohesive theme of maintaining protein homeostasis under stress. Some nuclear processes appear (DNA replication, CENP-A chromatin assembly, mRNA export) but do not outweigh the dominant proteostasis signal.","confidence":"Medium","size":14,"edges":57,"triangles":107,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0035617","count":7},{"id":"GO:0070389","count":7},{"id":"GO:0006260","count":7},{"id":"GO:0061641","count":6}]},{"hash":"1588881521871939419","title":"Inflammatory Immune Signaling and Chemokine Regulation","description":"The GO terms show a clear emphasis on immune activation and chemokine/cytokine regulation (immunoglobulin-mediated immune response, macrophage cytokine production, neutrophil chemotaxis), with a few metabolism and development terms that seem secondary. Overall, the strongest signal is immune-related signaling.","confidence":"Medium","size":14,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016064","count":1},{"id":"GO:2000343","count":1},{"id":"GO:0042104","count":1},{"id":"GO:0042403","count":1},{"id":"GO:0044342","count":1}]},{"hash":"1334181294423589460","title":"Neural development and transcriptional regulation with stress responses","description":"Most terms point to transcriptional regulation during development, especially brain development, with additional signals pointing to cellular stress and immune responses. The presence of cerebellum development and dopamine-related cellular responses supports a neural context, while dsRNA, LPS, and ER-stress\u2013related apoptotic signaling indicate broader stress/immune signaling that can intersect development. Overall, the cluster seems to combine transcriptional control in neural development with associated stress-response pathways.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0021549","count":3},{"id":"GO:0050830","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006355","count":2}]},{"hash":"2046636292798239133","title":"PI3K Signaling with Immune and Neural Regulation","description":"The cluster includes GO terms pointing to PI3K/AKT signaling and related pathways (phosphatidylinositol 3-kinase signaling, PI3K/PKB signal transduction), as well as angiogenesis and immune responses (defense against Gram-positive bacteria, interleukin-12 response), with additional neuronal development and cell-cycle related terms (neuron development, centrosome separation). This pattern suggests a broad signal-transduction/regulatory module that coordinates growth, metabolism (glucose response), development, and defense, rather than a single, tight function. Confidence is moderate due to the diversity of terms; thus a Medium.","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":9},{"id":"GO:0048666","count":8},{"id":"GO:0007100","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0071333","count":8}]},{"hash":"1277842353374749485","title":"Amino acid and related molecule transport","description":"The top GO terms are dominated by transmembrane transport of amino acids and related metabolites (L-lysine, methionine, D-serine, L-arginine), as well as GABA and polyamines, indicating a shared function in membrane transport of amino acids and related compounds. While there are a few other processes, the transport theme is the strongest signal across the cluster.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0051209","count":3},{"id":"GO:0035826","count":2},{"id":"GO:0097639","count":2},{"id":"GO:0015812","count":2}]},{"hash":"1906916915500080308","title":"Cerebellar development and glial differentiation","description":"The strongest, most specific GO terms in this cluster are cerebellar cortex formation (GO:0021697) and Bergmann glial cell differentiation (GO:0060020), both pointing to cerebellar neural development and glial maturation. Additional neural-related terms (e.g., regulation of axon regeneration) support a neural development theme. Some unrelated terms (thymus/placenta development, general signaling pathways) are present but appear less informative for the core function, making cerebellar development and glial differentiation the most representative label.","confidence":"High","size":14,"edges":75,"triangles":214,"max_degree":13,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048538","count":8},{"id":"GO:0000187","count":8},{"id":"GO:0001890","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0008286","count":6}]},{"hash":"1887069452975498219","title":"Immune signaling and endosomal trafficking","description":"Based on the top GO terms, the cluster centers on intracellular signaling pathways (PI3K/AKT, MAPK/JNK) and regulation of phosphorylation, together with endosome-to-endosome transport and immune-related processes (IL-12 response, thymus development). A potassium transport term is present but less central, suggesting a broader signaling/trafficking theme with immune development elements. Therefore, the label reflects the main cohesive pattern of signaling and vesicle trafficking relevant to immune contexts.","confidence":"Medium","size":14,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":11},{"id":"GO:0006813","count":10},{"id":"GO:0043491","count":9},{"id":"GO:0070671","count":9},{"id":"GO:0007257","count":9}]},{"hash":"21755700003335249","title":"Cell fate signaling and apoptosis control","description":"This cluster centers on signaling pathways that govern growth and fate decisions (Hippo, Wnt, and PI3K-Akt), with involvement in apoptosis and differentiation (keratinocyte differentiation), and receptor trafficking and immune signaling that modulate these pathways. The dominant theme is signaling networks that regulate cell growth, differentiation, and survival, with apoptosis as a key outcome.","confidence":"High","size":14,"edges":21,"triangles":10,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046827","count":13},{"id":"GO:0060044","count":13},{"id":"GO:0035329","count":13},{"id":"GO:0006915","count":13},{"id":"GO:0030216","count":13}]},{"hash":"317565993098519830","title":"MAPK/JNK and PI3K/AKT Signaling Cluster","description":"This cluster centers on major signal transduction pathways, notably the JNK/MAPK cascade and PI3K/AKT signaling, with related regulation of serine phosphorylation. It also includes an immune response term (interleukin-12 response) and development-related terms (thymus, neuron development), suggesting roles in signaling that influence immune function and development. The endosome transport term hints at signaling-related trafficking. Taken together, these terms point to a cohesive theme of kinase-driven signaling and its regulation in immune and developmental contexts.","confidence":"Medium","size":14,"edges":43,"triangles":36,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":14},{"id":"GO:0070671","count":14},{"id":"GO:0007257","count":14},{"id":"GO:2000641","count":14},{"id":"GO:0033138","count":14}]},{"hash":"1675227556878910335","title":"Neural differentiation and axon guidance","description":"Several top GO terms point to neural development, notably midbrain dopaminergic neuron differentiation, motor neuron axon guidance, and cell-matrix adhesion, with DNA-templated transcription supporting lineage specification. Some outliers (lipopolysaccharide biosynthetic process, ossification, response to antibiotic) introduce noise, but the core signal suggests neural differentiation and axon guidance.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:1904948","count":3},{"id":"GO:0090334","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0008045","count":3}]},{"hash":"950489755811331310","title":"MAPK/JNK and PI3K signaling in development","description":"Top terms point to two major signaling cascades (PI3K/AKT and JNK/MAPK) and associated developmental processes (neuron and thymus development). Additional terms on endosome trafficking and phosphorylation regulation fit within signaling/trafficking contexts, supporting a coherent theme of developmentally oriented signal transduction.","confidence":"High","size":14,"edges":70,"triangles":164,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":14},{"id":"GO:0070671","count":14},{"id":"GO:0007257","count":14},{"id":"GO:2000641","count":14},{"id":"GO:0033138","count":14}]},{"hash":"2097094735444574674","title":"Protein folding and ER-Golgi trafficking","description":"Dominant GO terms point to protein handling and transport: chaperone-dependent refolding, ribosomal assembly, protein catabolic turnover, and ER-to-Golgi vesicle trafficking. These collectively suggest a focus on protein maturation and intracellular sorting, with a few outlier terms (DNA replication, photosynthesis, cilium movement) unrelated to the core theme. Confidence: Medium","confidence":"","size":14,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":6},{"id":"GO:0000733","count":5},{"id":"GO:0070389","count":5},{"id":"GO:0048219","count":4},{"id":"GO:0006888","count":4}]},{"hash":"1732612580786453638","title":"Unknown","description":"The top GO terms span neural development (lateral motor column neuron migration), immune-related activity (recognition of apoptotic cell, platelet aggregation), broad metabolism (retinol/retinal, testosterone/androgen biosynthesis), and cell adhesion (cell-cell junction organization). This assortment shows no clear single function tying all proteins together, suggesting a heterogeneous cluster without a cohesive theme.","confidence":"","size":14,"edges":76,"triangles":212,"max_degree":13,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0097477","count":5},{"id":"GO:0070527","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0017000","count":5},{"id":"GO:0043654","count":4}]},{"hash":"680800306644333739","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":32,"triangles":39,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0042128","count":4},{"id":"GO:0002098","count":3},{"id":"GO:0042853","count":3},{"id":"GO:0006189","count":3}]},{"hash":"195010749880166265","title":"Neural development and synaptic signaling","description":"The terms cluster around nervous system development, axon guidance, ERK signaling, and synaptic vesicle exocytosis, which together point to neural differentiation and neuronal communication; a few non-neural terms are present but less representative.","confidence":"High","size":14,"edges":8,"triangles":0,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007411","count":6},{"id":"GO:0007286","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0010796","count":6},{"id":"GO:0043552","count":6}]},{"hash":"1273214034850723274","title":"Endocytosis and vesicle trafficking","description":"The top GO terms cluster around endocytic processes and endosome transport (including caveolin-mediated endocytosis) and related membrane trafficking, with supporting themes in cell polarity and signaling; a few nuclear/cycle terms appear as pleiotropic associations, but the dominant theme is vesicle trafficking and membrane dynamics.","confidence":"Medium","size":14,"edges":7,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":14},{"id":"GO:2000641","count":13},{"id":"GO:0033138","count":13},{"id":"GO:0048538","count":13},{"id":"GO:0010696","count":13}]},{"hash":"1884321200505387099","title":"Differentiation and metabolic pathways","description":"This cluster is driven by differentiation-related terms (cardiac muscle cell differentiation; fat cell differentiation) alongside core metabolism terms (glycolytic process; leucine/valine catabolic processes; redox homeostasis), suggesting a link between differentiation programs and energy/metabolic processes. The presence of some ciliogenesis terms is weaker and may reflect additional functions, but the dominant theme appears to be differentiation coupled with metabolism.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055007","count":3},{"id":"GO:0045454","count":2},{"id":"GO:0006552","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0006574","count":2}]},{"hash":"2057073864964519559","title":"Ribosome Biogenesis and Translation Regulation","description":"The top terms cluster around ribosome biology and protein synthesis: translation, translational initiation, ribosome biogenesis, SSU-rRNA maturation, and regulation of translational fidelity. The presence of antibiotic response terms likely reflects responses to ribosome-targeting compounds, reinforcing a translation-centric functional theme for this cluster.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0046677","count":5},{"id":"GO:0006407","count":3},{"id":"GO:0009636","count":3},{"id":"GO:0006413","count":2}]},{"hash":"634710399596852353","title":"Nuclear transcription, repair, and cell cycle proteins","description":"The top GO terms cluster around nuclear processes: transcription by RNA polymerases I/II, nucleotide-excision repair, nuclear localization/import, and mitotic functions such as spindle organization and centrosome separation. Additional terms touch on protein turnover and regulatory activity, but the dominant theme is nuclear regulation related to transcription, DNA repair, and cell division.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006360","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0070816","count":2},{"id":"GO:0036228","count":1},{"id":"GO:0007051","count":1}]},{"hash":"1895597945805964629","title":"Ribosome biogenesis and rRNA processing","description":"The cluster is dominated by GO terms tied to ribosome production and rRNA maturation, including ribosome biogenesis, large subunit biogenesis, and export from the nucleus, plus a specific rRNA processing step. A minority of terms reference unrelated processes, but the core theme points to ribosome assembly and RNA maturation in the nucleolus. Confidence in this label is Medium.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0007080","count":1},{"id":"GO:0000447","count":1},{"id":"GO:0042273","count":1},{"id":"GO:0000055","count":1}]},{"hash":"303829886890064926","title":"GTPase-Regulated Trafficking and Endothelial Junctions","description":"The set centers on endocytosis, regulation of GTPase activity, and tight junctions, plus establishment of the endothelial barrier, suggesting a module of membrane trafficking and cell\u2013cell junction formation pertinent to vascular and neural development. Some terms like mitotic cell cycle and brain development broaden the context but do not override the core membrane-traffic/junction theme.","confidence":"Medium","size":14,"edges":16,"triangles":4,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0034260","count":5},{"id":"GO:0006897","count":5},{"id":"GO:0051301","count":5},{"id":"GO:0000278","count":5},{"id":"GO:0061028","count":5}]},{"hash":"397655412928827410","title":"Embryonic development and organ morphogenesis","description":"This cluster is enriched for GO terms tied to development and morphogenesis across multiple tissues (pancreas, cardiac tissue, eye, ovarian follicles) and embryonic growth, suggesting a shared role in embryogenesis rather than a single pathway. Some non-specific terms appear, but the dominant pattern centers on developmental morphogenesis.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061113","count":3},{"id":"GO:0035264","count":3},{"id":"GO:0055010","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0055114","count":3}]},{"hash":"497225772531890612","title":"ER Stress Proteostasis and ERAD","description":"The cluster centers on endoplasmic reticulum\u2013associated quality control: unfolded protein response, misfolded protein transport, and ubiquitin-dependent degradation (ERAD), with translation upregulation during ER stress and proteolysis. Redox homeostasis appears but is secondary to proteostasis.","confidence":"High","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":2},{"id":"GO:0031204","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0036494","count":1}]},{"hash":"199903729132803568","title":"Differentiation and cell cycle processes","description":"The top GO terms show tissue-specific differentiation (skin development, lens fiber cell differentiation) alongside core cell cycle events (mitotic sister chromatid cohesion, cell division, regulation of proliferation), with an additional splicing term. This suggests a cluster of proteins involved in developmental differentiation linked to cell-cycle control, with splicing as a general expression-related process. Some terms (like viral mRNA export and obsolete pathways) may be annotation noise, but the dominant theme centers on differentiation and proliferation. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043588","count":3},{"id":"GO:0000398","count":3},{"id":"GO:0070306","count":3},{"id":"GO:0007064","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1193199769755425463","title":"Unknown","description":"The top GO terms are highly diverse, spanning immune activation (membrane attack complex), extracellular matrix/basement membrane development and proteoglycan biosynthesis, lipid metabolism, and various stress or growth responses. There is no single cohesive biological function tying these terms together, and the network shows no edges or clustering that would suggest a common mechanism. Given the scattered signals, this cluster does not map to a well-defined, unified function. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001970","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0032836","count":2},{"id":"GO:0010909","count":1},{"id":"GO:0006144","count":1}]},{"hash":"423089600146895024","title":"Retinal phototransduction signaling","description":"Based on the top GO terms, notably visual perception, regulation of opsin-mediated signaling, phototransduction, GPCR signaling, calcium release, cAMP/adenylate cyclase activation, and phosphorylation, the cluster is best described as proteins involved in retinal phototransduction and related signaling pathways. Some terms may reflect broader signaling functions, but the retina/vision theme is strongest.","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":5},{"id":"GO:0022400","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0008284","count":5},{"id":"GO:0007507","count":5}]},{"hash":"574460886081640625","title":"Neural development and synaptic assembly","description":"This cluster centers on neural connectivity processes, with GO terms for synapse assembly and maturation, axon guidance, postsynaptic density organization (gephyrin clustering), and cell adhesion, suggesting a focus on neural circuit formation. A few terms reflect broader developmental roles (retinal/eye regression, gastrulation-related epiboly, tissue regeneration), but the central theme is neuronal synapse formation and connectivity. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990384","count":1},{"id":"GO:0001954","count":1},{"id":"GO:0042246","count":1},{"id":"GO:0007155","count":1},{"id":"GO:0055113","count":1}]},{"hash":"1922273445741088363","title":"Complement Activation and Regulation","description":"This cluster is dominated by GO terms for complement activation (classical and alternative) and positive regulation of membrane attack complex activation, aligning with innate immune defense. Other terms like bradykinin catabolic process and insulin processing appear but are less central; overall, the core theme is complement system activation and regulation.","confidence":"Medium","size":14,"edges":17,"triangles":4,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0001970","count":4},{"id":"GO:0006957","count":4},{"id":"GO:0010815","count":3},{"id":"GO:0030070","count":3}]},{"hash":"343573067578263582","title":"GPCR Signaling in Nervous and Immune Responses","description":"The terms cluster around G protein-coupled receptor signaling: dopamine receptor signaling and amphetamine response, as well as octopamine/tyramine signaling, point to GPCR-mediated neurotransmission and membrane potential regulation. Additional terms touch immune modulation (T cell chemotaxis, gamma-delta T cell differentiation, negative regulation of inflammation) and vascular effects (smooth muscle contraction, blood coagulation), which can be downstream of GPCR signaling. This suggests a coherent theme of GPCR-driven signaling across nervous, immune, and vascular contexts. ","confidence":"Medium","size":14,"edges":19,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":2},{"id":"GO:0050728","count":1},{"id":"GO:0007191","count":1},{"id":"GO:0001975","count":1},{"id":"GO:0016038","count":1}]},{"hash":"2256414587277157236","title":"Transmembrane Transporters","description":"GO terms point to diverse transmembrane transport activities for ions, metabolites, vitamins, xenobiotics, and neurotransmitter loading, indicating the proteins are mainly membrane transporters across substrates; this name captures the shared function.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0015739","count":2},{"id":"GO:0015757","count":2}]},{"hash":"199680959983683702","title":"mRNA processing and translation regulation","description":"The proteins cluster around regulation of splicing, mRNA export, modification, and initiation of translation, with related terms like splice-site recognition and mRNA stability in stress. This pattern points to coordinated post-transcriptional control of gene expression across splicing, export, modification, and translation initiation, justifying a label focused on mRNA processing and translation regulation.","confidence":"High","size":14,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":8},{"id":"GO:0006446","count":8},{"id":"GO:0006406","count":8},{"id":"GO:0016556","count":8},{"id":"GO:0001825","count":8}]},{"hash":"194487275661026634","title":"Fungal cell wall mannoprotein biosynthesis","description":"The cluster\u2019s top GO terms center on cell wall glycoprotein production (cell wall mannoprotein biosynthetic process) and sugar-nucleotide biosynthesis (GDP-mannose, UDP-N-acetylglucosamine), which together indicate a theme of fungal cell wall assembly and glycosylation. A splicing-related term appears but seems secondary or incidental; overall, the dominant signal is cell wall/mannoprotein biosynthesis. Peptidoglycan biosynthesis and morphogenesis terms further support a cell wall/glycan-focused cluster, albeit with some annotation noise.","confidence":"Medium","size":14,"edges":84,"triangles":288,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":3},{"id":"GO:0008360","count":2},{"id":"GO:0000032","count":2},{"id":"GO:0019877","count":2},{"id":"GO:0009089","count":2}]},{"hash":"1739511744243018738","title":"Glycosylation and glycoconjugate biosynthesis","description":"The top GO terms show a clear emphasis on carbohydrate modification and glycan assembly, including O-linked glycosylation via hydroxyproline, poly-N-acetyllactosamine biosynthesis, Lewis a epitope biosynthesis, and mucilage biosynthetic processes in seed coat development. This pattern suggests a shared theme around glycans and glycoconjugates, even though a few terms pertain to unrelated processes (DNA replication or tissue development), which may reflect annotation noise or broader roles. Overall, the cluster appears best described by glycosylation/glycan biosynthesis.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0080147","count":3},{"id":"GO:0075015","count":3},{"id":"GO:0048354","count":3},{"id":"GO:0042248","count":3}]},{"hash":"1700183982027930823","title":"Arabinogalactan proteins and seed coat mucilage","description":"The top GO terms cluster around plant-specific cell wall glycoprotein biology, especially arabinogalactan proteins (AGPs) and their glycosylation pathways (Mucin-like AGP metabolism, hydroxyproline O-linked glycosylation, poly-N-acetyllactosamine, Lewis a epitope biosynthesis) and processes related to seed coat mucilage and root hair development. This points to a coherent theme of AGP-related glycosylation and AGP-mediated cell wall/mucilage functions in plant development, with some related epithelial polarity terms likely reflecting shared glycan regulation. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0048354","count":2},{"id":"GO:0042248","count":2},{"id":"GO:0001744","count":2}]},{"hash":"232848978682031003","title":"Cytoskeleton, Polarity, and Neural Signaling Regulation","description":"The cluster\u2019s top GO terms cluster around actin cytoskeleton organization and epithelial polarity maintenance, plus paranodal junction maintenance and several neural signaling processes (synaptic depression, serotonin uptake regulation, and Wnt signaling). This suggests a shared theme of cytoskeletal dynamics guiding cell polarity and signaling at neural interfaces, with the transport term likely representing a broader metabolic connectivity rather than core clustering. Overall, the proteins appear to coordinate cell architecture with neural communication.","confidence":"Medium","size":14,"edges":15,"triangles":0,"max_degree":12,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0015879","count":6},{"id":"GO:0030036","count":6},{"id":"GO:0045199","count":6},{"id":"GO:0043004","count":6},{"id":"GO:0060292","count":6}]},{"hash":"1354401158426433941","title":"GPCR signaling in cardiovascular and reproductive contexts","description":"The GO terms cluster around GPCR-related processes such as receptor internalization and prostaglandin response, with ties to vascular regulation (permeability, vasoconstriction) and heart development, plus a reproductive angle via the acrosome reaction and downstream Rho signaling; together these suggest a common GPCR-mediated signaling theme across cardiovascular and reproductive contexts, with some sensory/behavioral associations.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007340","count":2},{"id":"GO:0071380","count":2},{"id":"GO:0043114","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0002031","count":2}]},{"hash":"32889390944434584","title":"Receptor signaling and actin remodeling","description":"The GO terms cluster around multiple receptor-driven pathways (ephrin, EGFR, T cell receptor) and actin cytoskeleton dynamics (actin branching, podosome formation, adherens junction organization), with small GTPase signaling linking these processes. This suggests a group of proteins that transduce signals to remodel the cytoskeleton and regulate cell adhesion/motility.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0071803","count":4},{"id":"GO:0090135","count":4}]},{"hash":"1842565720099904011","title":"Organ development and morphogenesis signaling","description":"This cluster is enriched for multicellular development and organ morphogenesis terms (kidney development, ossification, salivary gland branching) and includes hedgehog signaling (smoothened pathway) and axon guidance, indicating a cohesive role in developmental signaling guiding tissue and organ formation. Some immune-regulatory terms appear but appear secondary to the primary developmental theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0048671","count":3},{"id":"GO:0007411","count":2}]},{"hash":"2004593211237862661","title":"Telomere maintenance and chromosome replication","description":"This cluster prominently features GO terms related to telomere maintenance (via telomerase and recombination), along with mitotic DNA replication and chromosome localization, suggesting a core theme of genome stability during cell division. A few terms (pollen development, meiosis) appear ancillary but do not overturn the telomere/chromosome replication signal.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:0007004","count":1},{"id":"GO:0030491","count":1},{"id":"GO:1902969","count":1},{"id":"GO:0032212","count":1}]},{"hash":"116803722070640965","title":"Semaphorin-plexin\u2013mediated axon guidance in neurons","description":"These proteins show a clear focus on neuronal projection development and axon pathfinding, highlighted by terms for branchiomotor and sympathetic neuron guidance, as well as the semaphorin-plexin signaling pathway involved in axon guidance. Supporting cytoskeletal dynamics (lamellipodium assembly, Rho signaling) and broader nervous system development terms reinforce the theme of growth cone navigation and neuronal wiring.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043552","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0035023","count":2}]},{"hash":"145111733033161902","title":"Unknown","description":"The terms span very different biology: mitotic cell cycle and protein import regulation hint at basic cellular processes, visual perception and glutamatergic synaptic transmission point to neuronal roles, while innate immune response and defense against Gram-positive bacteria indicate immune functions. Because there isn\u2019t a clear, unified function tying these proteins together, a single representative label is not justifiable.","confidence":"","size":13,"edges":75,"triangles":255,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0007601","count":10},{"id":"GO:0033160","count":7},{"id":"GO:0043547","count":6},{"id":"GO:0090153","count":6}]},{"hash":"2240287658096049954","title":"Spliceosome and mRNA processing","description":"This cluster is dominated by GO terms related to RNA splicing and RNA processing, including mRNA cis splicing via the spliceosome, spliceosomal snRNP and complex assembly, and import into the nucleus, plus P-body assembly and deadenylation-dependent decapping, indicating a cohesive role in RNA maturation and mRNA turnover.","confidence":"High","size":13,"edges":23,"triangles":24,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":6},{"id":"GO:0042633","count":4},{"id":"GO:0033962","count":4},{"id":"GO:0000387","count":4},{"id":"GO:0070317","count":4}]},{"hash":"1329076766660417377","title":"Mitotic DNA replication and telomere maintenance","description":"The cluster centers on mitotic DNA replication and associated processing: replication fork progression and reversal, RNA primer removal, and DNA strand elongation during mitosis, plus spindle assembly links. Telomere regulation via telomerase and mitochondrial DNA repair also appear, suggesting a broader theme of genome maintenance during cell division with telomere upkeep as a component.","confidence":"High","size":13,"edges":40,"triangles":52,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":2},{"id":"GO:0097046","count":2},{"id":"GO:1902983","count":2},{"id":"GO:0071932","count":2},{"id":"GO:0051974","count":2}]},{"hash":"255257340596378658","title":"Membrane trafficking and signaling regulators","description":"The cluster includes terms for endosomal transport and caveolin-mediated endocytosis, as well as signaling responses (dopamine and IL-1 pathways) and regulatory processes like phosphorylation and cell polarity, suggesting a cohesive theme of proteins coordinating membrane trafficking with signaling outputs. Some terms (thymus development, spindle pole separation) are more peripheral but may reflect broader developmental signaling roles.","confidence":"Medium","size":13,"edges":72,"triangles":225,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:2000641","count":13},{"id":"GO:0033138","count":13},{"id":"GO:0048538","count":13},{"id":"GO:0010696","count":13},{"id":"GO:1903351","count":13}]},{"hash":"1438746071845112184","title":"Cyclic nucleotide signaling (cAMP/cGMP) via GPCRs","description":"The cluster is dominated by GO terms for cGMP and cAMP biosynthesis, receptor guanylyl cyclase signaling, and an adenylyl cyclase-activating GPCR pathway, plus forskolin response and intracellular signal transduction. These together point to a cohesive function in generating and transducing cyclic nucleotide second messengers through GPCR- and receptor-mediated signaling.","confidence":"Medium","size":13,"edges":9,"triangles":0,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006182","count":9},{"id":"GO:0030828","count":9},{"id":"GO:0071880","count":9},{"id":"GO:0006355","count":9},{"id":"GO:0070483","count":9}]},{"hash":"1778129840895711913","title":"Signaling and Development","description":"The cluster centers on core signaling pathways (PI3K/AKT signaling, MAPK-related regulation) and development processes (thymus and neuron development), with additional associations to cell cycle activities (DNA replication, spindle pole separation) and endosome transport. This suggests a cohesive theme of signaling integration with developmental and cell-cycle regulation, despite some broader terms included.","confidence":"Medium","size":13,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":13},{"id":"GO:0043491","count":12},{"id":"GO:0070671","count":12},{"id":"GO:0007257","count":12},{"id":"GO:2000641","count":12}]},{"hash":"759803625732111437","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":56,"triangles":115,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":10},{"id":"GO:0016441","count":6},{"id":"GO:0090394","count":6},{"id":"GO:0071042","count":6}]},{"hash":"783620215110107472","title":"Membrane targeting and protein translocation","description":"The top GO terms point to proteins involved in delivering nascent or newly synthesized proteins to membranes, especially SRP-dependent cotranslational targeting to membranes and post-translational targeting to membranes. This suggests the cluster is enriched for components of the secretory/ER translocation machinery. Some annotations (DNA replication, karyogamy, apoptosis regulation) appear less connected and may reflect multi-functionality or broader context, but the dominant theme is membrane targeting and translocation. ","confidence":"High","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000742","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0055003","count":2},{"id":"GO:1902037","count":2},{"id":"GO:0006880","count":2}]},{"hash":"275700720271858918","title":"Neuronal synapse formation and plasticity","description":"Dominant terms describe synapse assembly/maintenance, synaptic plasticity, motor learning, axonal fasciculation, and peripheral myelination, indicating a cohesive role in establishing and preserving neural connectivity and function. Some terms touch on angiogenesis and kidney development, but the neural-related GO terms are most representative of cluster behavior.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":3},{"id":"GO:0072221","count":3},{"id":"GO:0048168","count":3},{"id":"GO:0016525","count":2},{"id":"GO:0061743","count":2}]},{"hash":"809790504570822767","title":"ERAD and Autophagy Proteostasis","description":"The cluster is dominated by terms tied to proteostasis and quality control, including ubiquitin-dependent ERAD, response to misfolded protein, autophagosome maturation, and related vesicle formation processes, suggesting a coherent theme of managing protein quality via ER-associated degradation and autophagy, with some peripheral terms (e.g., mRNA export, chromatin assembly) appearing less central.","confidence":"High","size":13,"edges":18,"triangles":6,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0061641","count":7},{"id":"GO:0071712","count":7},{"id":"GO:0006406","count":7},{"id":"GO:0071218","count":7}]},{"hash":"1106218635698919770","title":"Developmental signaling and cell cycle regulation","description":"This cluster centers on developmental processes such as axonogenesis, heart development, and angiogenesis, along with cell cycle-related terms (mitotic cell cycle, G2/M transition) and apoptosis regulation, suggesting proteins that coordinate growth, differentiation, and division during development. Some terms (e.g., ABA signaling, neuronal activity) are less cohesive with the core theme, but the overall pattern points to developmental signaling coupled with cell cycle control.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":3},{"id":"GO:0060079","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0043065","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1617668262403183848","title":"Cyclic nucleotide signaling (cAMP and cGMP)","description":"Proteins in this cluster are linked to signaling pathways that regulate cyclic nucleotides, notably cAMP and cGMP. The GO terms point to adenylate cyclase activation, cAMP biosynthesis, receptor guanylyl cyclase signaling, cGMP biosynthesis, and related intracellular signal transduction, suggesting a coherent functional group focused on cyclic nucleotide signaling and GPCR-associated cascades (e.g., forskolin response).","confidence":"High","size":13,"edges":10,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071880","count":1},{"id":"GO:0052565","count":1},{"id":"GO:0006182","count":1},{"id":"GO:0006355","count":1},{"id":"GO:0070483","count":1}]},{"hash":"1939244001985998164","title":"Neuromuscular calcium signaling and development","description":"The terms cluster around calcium handling in muscle (sarcoplasmic reticulum calcium release, ryanodine receptor activity, skeletal muscle fiber development) and neural growth processes (axonogenesis, substantia nigra development, synaptic vesicle endocytosis). This suggests a cohesive role for calcium-dependent signaling in both muscle and neuronal development, possibly at neuromuscular junctions. Some terms are obsolete, but the core theme links calcium regulation with muscle and neural development.","confidence":"Medium","size":13,"edges":10,"triangles":2,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048741","count":3},{"id":"GO:1900242","count":3},{"id":"GO:0001516","count":3},{"id":"GO:0035902","count":3},{"id":"GO:0007409","count":2}]},{"hash":"860803346304668033","title":"Unknown","description":"The top GO terms span ozone response, hormonal and steroid biosynthesis in different kingdoms, immune regulation, detox metabolism, and organ development, with no clear shared function tying the proteins together. This suggests there isn't a single cohesive biological theme for this cluster, so an Unknown label is most appropriate.","confidence":"","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010193","count":12},{"id":"GO:0010268","count":12},{"id":"GO:0010760","count":12},{"id":"GO:0010430","count":12},{"id":"GO:2001037","count":12}]},{"hash":"380609224324018127","title":"Viral Integration and Proviral Latency","description":"Based on the prominence of viral nuclear entry, integrated proviral latency, DNA integration/recombination, and RNA-templated DNA biosynthesis, this cluster appears to center on viral genome integration and maintenance within the host genome, i.e., proviral latency and associated replication steps. Some terms about symbiont entry/apoptosis and siRNA regulation may reflect host-pathogen interactions accompanying these processes.","confidence":"High","size":13,"edges":47,"triangles":68,"max_degree":10,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075732","count":4},{"id":"GO:0075713","count":4},{"id":"GO:0039651","count":4},{"id":"GO:1903704","count":4},{"id":"GO:0015074","count":4}]},{"hash":"1714686769479323645","title":"Male Germ Cell Development and Spermatogenesis","description":"Based on the GO terms, the cluster is enriched for male germ cell proliferation and spermatogenesis, with supporting terms for male gonad development. Although a few terms touch other developmental processes, the dominant theme is male reproductive development and sperm formation, justifying a spermatogenesis\u2013centered label.","confidence":"High","size":13,"edges":64,"triangles":170,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0002176","count":2},{"id":"GO:0051798","count":1},{"id":"GO:0050732","count":1},{"id":"GO:0008584","count":1},{"id":"GO:0002787","count":1}]},{"hash":"325529234314202889","title":"Organic Compound Biosynthesis and Degradation","description":"The top GO terms cover both production and consumption of diverse organic molecules (antibiotic and biotin biosynthesis; uracil, stilbene, prostaglandin, triglyceride catabolism; beta-ketoadipate pathway; phospholipid dephosphorylation; nitrogen utilization), pointing to a cluster of proteins broadly involved in metabolism of small organic compounds rather than a single specific pathway.","confidence":"Medium","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":7},{"id":"GO:0009102","count":6},{"id":"GO:0019740","count":5},{"id":"GO:0006212","count":5},{"id":"GO:0046272","count":4}]},{"hash":"2254183383496597159","title":"Pterin and Queuosine Biosynthesis","description":"The top GO terms point to biosynthesis of pterin-derived cofactors (pteridine, tetrahydrobiopterin) and tRNA queuosine modification, indicating a coherent function in cofactor and tRNA modification biosynthesis rather than unrelated processes. Some other terms are more disparate, possibly noise or broader roles, but the dominant signal supports a biosynthetic/cofactor theme.","confidence":"Medium","size":13,"edges":17,"triangles":7,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0008616","count":2},{"id":"GO:0006729","count":2},{"id":"GO:0006728","count":2},{"id":"GO:0002532","count":1},{"id":"GO:0090197","count":1}]},{"hash":"591409087277868057","title":"Ubiquitin-dependent proteolysis in meiosis and oocyte maturation","description":"The top terms point strongly to ubiquitin-proteasome\u2013dependent catabolic processes (SCF-dependent), which regulate protein turnover, paired with meiotic/oocyte processes (oocyte maturation and spindle assembly in female meiosis I) and microtubule dynamics. Circadian rhythm regulation also appears, suggesting timing control, but the core theme centers on proteolysis guiding meiosis and oocyte maturation. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0042752","count":8},{"id":"GO:0031146","count":7},{"id":"GO:0006516","count":7},{"id":"GO:0021993","count":7}]},{"hash":"1087742036451875477","title":"Cyclic nucleotide signaling (cGMP and cAMP)","description":"The cluster\u2019s top GO terms are dominated by cyclic nucleotide biosynthesis (cGMP and cAMP), receptor guanylyl cyclase signaling, and downstream intracellular signal transduction, plus related transcriptional regulation and responses (e.g., forskolin). This pattern points to a cohesive group involved in cyclic nucleotide signaling pathways rather than unrelated processes. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006182","count":12},{"id":"GO:0030828","count":12},{"id":"GO:0071880","count":12},{"id":"GO:0006355","count":12},{"id":"GO:0070483","count":12}]},{"hash":"210032430939247321","title":"Neuromodulatory signaling and immune regulation","description":"Contains neural signaling terms (dopamine receptor signaling, amphetamine response, octopamine/tyramine signaling) plus immune/inflammatory regulation (negative regulation of inflammatory response, T cell chemotaxis, eosinophil extravasation) and vascular processes (blood coagulation, smooth muscle contraction). This suggests a cluster of proteins involved in neuromodulatory signaling that also modulate immune and vascular responses, i.e., neuroimmune-vascular cross-talk.","confidence":"Medium","size":13,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":8},{"id":"GO:0007191","count":8},{"id":"GO:0001975","count":8},{"id":"GO:0016038","count":8},{"id":"GO:0014829","count":8}]},{"hash":"1050404737726833185","title":"Cardiovascular-immune signaling and neurotransmitter pathways","description":"Based on the top GO terms, the cluster centers on signaling processes across cardiovascular (blood coagulation, heart development, vascular smooth muscle contraction), immune (inflammatory response regulation, T cell differentiation and chemotaxis), and neural/neurotransmitter pathways (dopamine receptor signaling, amphetamine response, octopamine/tyramine signaling). This suggests a multi-system signaling theme rather than a single cohesive pathway. An outlier term related to light absorption may reflect annotation noise. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007596","count":10},{"id":"GO:0007507","count":10},{"id":"GO:0050728","count":8},{"id":"GO:0007191","count":8},{"id":"GO:0001975","count":8}]},{"hash":"1274204887046756876","title":"Embryonic Organogenesis","description":"The cluster centers on embryonic development and organ morphogenesis across multiple tissues (in utero embryonic development; embryonic eye morphogenesis; semicircular canal morphogenesis; cardiac muscle morphogenesis; ovarian follicle growth; neuron maturation; prostate glandular differentiation). This suggests a broad developmental/morphogenetic program rather than a single tissue-specific function.","confidence":"High","size":13,"edges":51,"triangles":87,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":5},{"id":"GO:0048752","count":3},{"id":"GO:0048048","count":3},{"id":"GO:0055010","count":3},{"id":"GO:0060038","count":3}]},{"hash":"145423245498609588","title":"Mitochondrial Translation and Complex I Assembly","description":"The cluster is dominated by terms related to mitochondrial protein synthesis and import (mitochondrial translation, elongation, termination, and import into the mitochondrial matrix) and the assembly of the mitochondrial respiratory chain complex I. Additional terms reflect mitochondrial stress responses (hypoxia, neuronal apoptosis), consistent with a mitochondria-focused functional module. A few outliers (fat cell differentiation, obsolete ubiquinone biosynthesis) appear peripheral to the core theme. Overall, the set most accurately represents mitochondrial translation and complex I assembly processes.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0032981","count":1},{"id":"GO:0045600","count":1},{"id":"GO:0030150","count":1},{"id":"GO:0050821","count":1}]},{"hash":"2278731554800750527","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"The cluster centers on cytoskeletal dynamics and cell polarity: terms like cytoplasmic actin-based contraction for cell motility, podosome regulation, raft polarization, T cell polarity, planar polarity in neural tube closure, and microvillus length all point to coordinated actin remodeling and establishment of directional cues. While other terms (autophagy, developmental morphogenesis) appear, the dominant theme is cytoskeletal regulation linked to cell movement and polarity.","confidence":"Medium","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0030850","count":2},{"id":"GO:0051262","count":2},{"id":"GO:0060327","count":1},{"id":"GO:0016236","count":1},{"id":"GO:0048702","count":1}]},{"hash":"548531372409312233","title":"Tissue Development and Muscle Differentiation","description":"This cluster shows GO terms spanning brain development, cardiac and urinary bladder development, and differentiation of vascular smooth muscle and skeletal/cardiac muscle, all pointing to a broader theme of tissue development and muscle lineage specification, likely coordinated by developmental signaling such as TGF-beta. The combination of multi-organ development terms with muscle differentiation terms supports this interpretation. ","confidence":"High","size":13,"edges":36,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:1904706","count":1},{"id":"GO:0035886","count":1},{"id":"GO:2001015","count":1},{"id":"GO:0060157","count":1}]},{"hash":"693012522946321549","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000463","count":1},{"id":"GO:0000466","count":1},{"id":"GO:1903146","count":1},{"id":"GO:0006412","count":1},{"id":"GO:1903955","count":1}]},{"hash":"411116567685253339","title":"Insect neural signaling and circadian rhythms","description":"The GO terms point to neural communication (sensory perception of pain; cholinergic synaptic regulation), and to sleep and circadian processes (sleep; rhythmic process; circadian sleep/wake cycle). While a couple of terms relate to development (tracheal tube regulation, chitin-based cuticle biosynthesis) or immune signaling (TNF production), the dominant pattern is neural signaling and circadian/sleep regulation in insects, suggesting this cluster centers on nervous system function with circadian regulation.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":2},{"id":"GO:1903818","count":1},{"id":"GO:0035158","count":1},{"id":"GO:0030431","count":1},{"id":"GO:0048511","count":1}]},{"hash":"1329357465810758754","title":"MAPK Signaling and Developmental Cues","description":"The cluster is dominated by GO terms for MAPK pathways (ERK1/ERK2 cascade, p38MAPK cascade) and activators/stimuli such as PMA and GM-CSF, along with terms related to differentiation and development (keratinocyte differentiation, forebrain development) and signaling regulation (Wnt and Hippo pathways, apoptotic processes). This suggests a cohesive group of proteins involved in modulating cell fate and growth through MAPK signaling and interconnected developmental cues.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070371","count":2},{"id":"GO:1904628","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0038066","count":2},{"id":"GO:0060044","count":2}]},{"hash":"153509513426141204","title":"Developmental transcriptional regulation and morphogenesis","description":"Top GO terms point to transcriptional control (DNA-templated transcription, transcriptional regulation) together with developmental differentiation and morphogenesis processes (genitalia morphogenesis, oligodendrocyte and skeletal muscle differentiation, cell migration, epithelial polarity, actin organization), suggesting a cluster of proteins coordinating gene expression during development and tissue morphogenesis.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0010452","count":2},{"id":"GO:0030538","count":2},{"id":"GO:0071560","count":2}]},{"hash":"1400872299299137904","title":"Cardiovascular mechanotransduction and vascular remodeling","description":"The top GO terms cluster around cytoskeletal signaling (Rho), endothelial/migration and angiogenesis, extracellular matrix organization, and heart rate regulation, all pointing to mechanotransduction and vascular remodeling processes in cardiovascular biology. While there are a few terms related to neural plasticity, the dominant theme is how cells sense mechanical cues to drive vascular development and heart function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0014068","count":2},{"id":"GO:0007614","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0001525","count":2}]},{"hash":"1853956257095409934","title":"Developmental gene expression and epigenetic regulation","description":"This cluster combines developmental processes (anterior lateral line development, multicellular organism development, skin development) with core gene expression and epigenetic regulation (DNA-templated transcription, translation initiation/reinitiation, histone methylation), suggesting a theme of development linked to transcriptional and translational control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048899","count":2},{"id":"GO:0051568","count":2},{"id":"GO:0034729","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0048149","count":2}]},{"hash":"455714612527086337","title":"Membrane Ion Transport and Homeostasis","description":"The dominant GO terms describe import/export of potassium and sodium ions across the plasma membrane and stabilization of membrane potential, indicating a core function in ion transport and ionic homeostasis. Metal ion transport appears as a related but secondary theme, while a couple of developmental terms may reflect tissue context rather than the primary role of these proteins.","confidence":"High","size":13,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030007","count":4},{"id":"GO:0097623","count":4},{"id":"GO:1990573","count":3},{"id":"GO:0030322","count":3},{"id":"GO:0098719","count":3}]},{"hash":"2246110336001680434","title":"Developmental signaling and tissue remodeling","description":"This cluster\u2019s top GO terms cluster around developmental processes (Wnt signaling regulation, neural precursor proliferation, decidualization, lung branching) and extracellular matrix/tissue remodeling (bone resorption, basement membrane disassembly). Additional terms related to hormonal signaling (thyroid hormone response, bradykinin catabolic process) and immune involvement (T cell cytotoxicity) fit within a broad theme of developmental signaling and remodeling across tissues. The connection is plausible but not tightly specific, suggesting a general remodeling/developmental role rather than a single pathway.","confidence":"Medium","size":13,"edges":66,"triangles":178,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0035593","count":6},{"id":"GO:2000179","count":6},{"id":"GO:0046697","count":6},{"id":"GO:0097067","count":6},{"id":"GO:0001913","count":6}]},{"hash":"1173841035022443088","title":"Post-transcriptional gene expression regulation","description":"This cluster is dominated by GO terms tied to mRNA metabolism and translation control: regulation of mRNA stability in response to stress, formation of translation preinitiation complex, translation reinitiation, regulation of alternative splicing via spliceosome, regulation of translational initiation, and mRNA export and modification. Together, these suggest a cohesive role in post-transcriptional processing and control of gene expression rather than transcription. A few terms (like blastocyst formation) are less central, but overall the theme is post-transcriptional regulation.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":7},{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0000381","count":5},{"id":"GO:0006446","count":5}]},{"hash":"1097217755081010059","title":"Unknown","description":"The GO terms span highly diverse processes (translation initiation regulation, protein modification, kinase activity regulation, cell division, brain development, ERAD, cytokinesis-related activity, stress-induced mRNA export, and mitochondria-nucleus signaling) with no clear common theme or shared pathway. The network shows no edges, suggesting no cohesive functional cluster, so a specific label cannot be confidently assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0035246","count":1},{"id":"GO:0071902","count":1},{"id":"GO:0051301","count":1}]},{"hash":"1789873175366505333","title":"Signaling and Trafficking Regulators","description":"The GO terms point to involvement in multiple signaling pathways (TLR1, Wnt, CAMKK-AMPK, dopamine-related signaling) along with intracellular trafficking and localization processes (endosome-to-Golgi transport, chromatin localization, ubiquitination regulation). This suggests a general role in modulating signaling cascades and protein transport rather than a single specific function, justifying a broad label of Signaling and Trafficking Regulators.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034130","count":6},{"id":"GO:1903215","count":6},{"id":"GO:1905279","count":6},{"id":"GO:0090394","count":6},{"id":"GO:1904887","count":6}]},{"hash":"2242388467151038019","title":"Unknown","description":"The top GO terms are highly heterogeneous: some relate to RNA polymerase subunit import to the nucleus (obsolete terms), others to midbrain-hindbrain boundary development, hematopoietic progenitor differentiation, photosystem II assembly, vitamin K metabolism, and peptidyl-glutamic acid carboxylation. With no clear shared function or pathway and no interactions indicated, there is no cohesive theme to assign a meaningful label.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044376","count":1},{"id":"GO:1990022","count":1},{"id":"GO:0021552","count":1},{"id":"GO:0002244","count":1},{"id":"GO:0010207","count":1}]},{"hash":"988692456197579279","title":"Coagulation and tissue remodeling with innate immunity","description":"The GO terms cluster around blood coagulation and plasminogen activation, indicating coagulation/fibrinolysis, along with tissue remodeling and cell-matrix adhesion. The accompanying defense responses to Gram-positive bacteria and lipopolysaccharide suggest an innate immune component often tied to vascular remodeling and wound healing, while transcription regulation and post-embryonic development terms may reflect gene expression control during these processes. Overall, the cluster appears to center on coagulation-associated remodeling with immune involvement.","confidence":"Medium","size":13,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0031639","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0050830","count":2}]},{"hash":"185629638268706968","title":"GPCR Signaling in Neural and Cardiovascular Contexts","description":"The top GO terms cluster around G protein-coupled receptor signaling and downstream neural/cardiovascular responses: regulation of membrane potential, vasoconstriction, heart development, GPCR internalization, and sensory/locomotor behaviors (pain, temperature, locomotion). This suggests a cohesive theme where GPCR pathways modulate neural excitability and vascular/heart-related functions. One term (viral release from host cell) is less consistent with this theme and may be incidental. Overall, the cluster seems to group proteins involved in GPCR-driven signaling affecting neural and cardiovascular physiology.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":3},{"id":"GO:0045907","count":3},{"id":"GO:0019076","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0071380","count":2}]},{"hash":"1359111446551552689","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":2},{"id":"GO:0010839","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0042795","count":1},{"id":"GO:0009945","count":1}]},{"hash":"355989224827012852","title":"ER Stress Response and Protein Quality Control","description":"The top GO terms cluster around unfolded protein response, ER stress, and quality-control processes such as misfolded protein transport, ERAD, and regulation of translation under ER stress, plus protein targeting to membranes. These converge on maintaining protein folding homeostasis in the endoplasmic reticulum, with some auxiliary terms like redox homeostasis and DNA replication appearing as broader stress-related signals. Confidence: High","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006986","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0031204","count":2},{"id":"GO:0045454","count":2},{"id":"GO:1900035","count":2}]},{"hash":"1398023435622172556","title":"Membrane Protein Assembly and Oligomerization","description":"The top terms point to membrane-associated processes\u2014protein insertion into membranes, cristae formation, outer membrane/assembly activity, and oligomerization (hetero- and homo-). These collectively suggest proteins that assemble into membrane complexes, likely related to mitochondrial membranes, with a few unrelated terms present as noise.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051291","count":2},{"id":"GO:0043165","count":1},{"id":"GO:0042407","count":1},{"id":"GO:0051205","count":1},{"id":"GO:0051289","count":1}]},{"hash":"2006674646593285915","title":"T cell signaling and chemokine regulation","description":"The cluster\u2019s terms center on immune cell communication, with multiple entries for chemokine production, T cell receptor signaling regulation, T cell selection, and cell adhesion, collectively pointing to T cell activation and chemokine-mediated signaling. Although there are also terms related to angiogenesis and axon guidance, these can reflect shared signaling pathways in development. Overall, the dominant theme is T cell\u2013related signaling and chemokine regulation.","confidence":"Medium","size":13,"edges":50,"triangles":93,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":2},{"id":"GO:0007157","count":1},{"id":"GO:0045058","count":1},{"id":"GO:0048378","count":1},{"id":"GO:0045765","count":1}]},{"hash":"2193988922762636224","title":"Monoamine signaling and pain perception with immune modulation","description":"The terms cluster around monoaminergic signaling (dopamine receptor signaling, amphetamine response, octopamine/tyramine signaling) and sensory pain perception, hinting at a neurotransmitter-driven signaling theme. Additional terms involve immune modulation and coagulation (inflammatory regulation, T cell chemotaxis, blood coagulation), suggesting a broader neuroimmune signaling context rather than a single pathway. Some terms like absorption of visible light are ancillary, possibly reflecting related sensory components in some proteins.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":11},{"id":"GO:0050728","count":10},{"id":"GO:0007191","count":10},{"id":"GO:0001975","count":10},{"id":"GO:0016038","count":10}]},{"hash":"741245256481305381","title":"Extracellular matrix remodeling and coagulation","description":"This cluster centers on processes involved in remodeling the extracellular matrix and vascular/immune responses: tissue remodeling, elastin breakdown, smooth muscle cell-matrix adhesion, blood coagulation, and complement activation, with additional signals hinting at developmental regulation. While transcription regulation appears among the terms, the dominant theme ties to ECM dynamics and coagulation/immune activity in tissue remodeling contexts.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":5},{"id":"GO:2000097","count":4},{"id":"GO:0048771","count":4},{"id":"GO:0045079","count":4},{"id":"GO:0007596","count":4}]},{"hash":"793098231004994424","title":"Actin Cytoskeleton Remodeling via Rho Signaling","description":"The top GO terms center on actin filament organization, crosslinking, and cortical patch assembly, plus regulation of Rho GTPase signaling and related phosphorylation, which together point to actin cytoskeleton dynamics governed by Rho-family signaling. Plasma membrane tubulation fits with actin-driven membrane remodeling, and some terms touch development (heart, bone), suggesting broader developmental roles of these cytoskeletal processes. Overall, the cluster seems to capture proteins involved in actin-based cytoskeleton remodeling regulated by Rho signaling. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0097320","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0000147","count":2}]},{"hash":"850430455771047774","title":"Ubiquitin-Proteasome System","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal degradation and K48-linked ubiquitination, pointing to a cluster centered on ubiquitin-mediated protein degradation. While terms related to development (neural tube initiation, oocyte maturation) appear, the strongest signal is proteolysis via the ubiquitin-proteasome pathway, suggesting the cluster groups proteasome-related proteins. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0031146","count":5},{"id":"GO:0070936","count":4},{"id":"GO:1903378","count":4},{"id":"GO:0006516","count":4}]},{"hash":"2159383652626313682","title":"Neural sensory signaling","description":"This cluster is dominated by GO terms pointing to nervous system functions: sensory perception (pain, vision), dopaminergic synaptic transmission, morphine response, prostaglandin signaling, temperature response, and regulation of membrane potential, all of which align with neural signaling and sensory processing. Additional terms like potassium ion import and GTPase regulation support neuronal excitability and signaling networks, making the neural/SNS theme plausible despite one outlier term (heart development). High confidence that this label reflects the cluster\u2019s core function.","confidence":"High","size":12,"edges":51,"triangles":109,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":4},{"id":"GO:0007601","count":4},{"id":"GO:1990573","count":3},{"id":"GO:0071380","count":3},{"id":"GO:0043547","count":3}]},{"hash":"753874843729231369","title":"Synaptic signaling and spine remodeling","description":"The majority of top GO terms point to neuronal signaling and synaptic structure: Wnt signaling, ephrin receptor signaling, dendritic spine morphogenesis, dopamine response, and glucose-responsive signaling, with focal adhesion regulation tying cytoskeletal dynamics to adhesion. The defense response term appears less related, but the dominant theme is synaptic signaling and spine remodeling.","confidence":"Medium","size":12,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090263","count":10},{"id":"GO:0033138","count":9},{"id":"GO:1903351","count":9},{"id":"GO:0060997","count":9},{"id":"GO:0048013","count":9}]},{"hash":"1556296174394157967","title":"Cerebellar development and glial differentiation","description":"The strongest terms point to cerebellar-specific development, notably cerebellar cortex formation and Bergmann glial cell differentiation, with supporting signals for neural development and axon regeneration. While metabolic and immune signaling terms (insulin/T cell pathways) appear, they are broader and less defining for this cluster, so the core theme centers on cerebellar neural development and glial differentiation.","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":10},{"id":"GO:0046827","count":9},{"id":"GO:0008286","count":9},{"id":"GO:0048679","count":9},{"id":"GO:0050852","count":9}]},{"hash":"1649794080772289729","title":"Guanylyl cyclase signaling and transcription regulation","description":"Based on the GO terms, the cluster centers on cyclic-nucleotide signaling via guanylyl cyclase (receptor guanylyl cyclase signaling, cGMP biosynthesis) and related pathways (adenylate cyclase signaling, forskolin response), with a thread of transcriptional regulation (negative regulation of transcription by Pol II and regulation of DNA-templated transcription). This suggests a cohesive module where cyclic-nucleotide signaling interfaces with transcriptional control.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0071880","count":3},{"id":"GO:0052565","count":3},{"id":"GO:0006182","count":3},{"id":"GO:0006355","count":3}]},{"hash":"545989101440407448","title":"Neuroimmune Thermoregulation and Signaling","description":"The top GO terms point to temperature-related responses and thermogenesis, alongside immune regulation and neuroactive signaling (dopamine pathways, amphetamine response). Additional terms for light absorption and vascular smooth muscle contraction, plus T cell chemotaxis, suggest coordinated neural, vascular, and immune responses to environmental or metabolic cues. This pattern supports a theme of neuroimmune interactions governing thermoregulation and related signaling.","confidence":"Medium","size":12,"edges":9,"triangles":1,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0050728","count":8},{"id":"GO:0007191","count":8}]},{"hash":"571482245107845505","title":"Amino acid and lipid metabolism in plants","description":"Primarily amino acid metabolism (alanine, aspartate, lysine, tryptophan/kynurenine) and fatty acid transport/homeostasis, with cofactor and porphyrin biosynthesis and even a plant context (fruit ripening). The shared theme is amino acid and lipid metabolism with related cofactor pathways.","confidence":"Medium","size":12,"edges":27,"triangles":50,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009102","count":4},{"id":"GO:0006782","count":4},{"id":"GO:0033512","count":4},{"id":"GO:0042853","count":3},{"id":"GO:0034276","count":3}]},{"hash":"1938836336028692826","title":"ERAD and Aggrephagy Protein Quality Control","description":"The top GO terms point to ubiquitin-dependent ERAD, aggrephagy, and related degradation/modulation processes (protein sumoylation, autophagosome maturation), suggesting the cluster centers on protein quality control and turnover via ER-associated degradation and selective autophagy. While there are some signaling and repair-related terms, the dominant theme is protein homeostasis through degradation pathways.","confidence":"Medium","size":12,"edges":37,"triangles":54,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:1903071","count":3},{"id":"GO:0034140","count":3},{"id":"GO:1901340","count":3},{"id":"GO:1904021","count":3}]},{"hash":"544421381114633947","title":"mRNA splicing and export regulation","description":"This cluster is dominated by GO terms related to splicing regulation (positive and alternative splicing via the spliceosome), along with mRNA export, modification, and translational initiation regulation, plus stress granule localization and ncRNA-mediated gene silencing. Together these imply a group of proteins central to post-transcriptional processing and control of mRNA fate, including splicing decisions, mRNA trafficking, and translation readiness, with some links to developmental contexts. ","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":10},{"id":"GO:0031047","count":9},{"id":"GO:1901407","count":7},{"id":"GO:0006378","count":7},{"id":"GO:1903608","count":6}]},{"hash":"995945750548693698","title":"Neural Signaling and Behavioral Responses","description":"Top terms center on neural processes and behavior (visual learning, locomotory behavior, response to amphetamine, regulation of glutamate receptor signaling, pain). While there are also cytokine production and vascular remodeling terms, the predominant pattern points to brain signaling and behavioral regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0008542","count":4},{"id":"GO:0007626","count":4},{"id":"GO:0001975","count":3},{"id":"GO:0042309","count":3}]},{"hash":"243011511791750814","title":"JNK/MAPK and PI3K signaling in development","description":"The terms show strong signaling themes (JNK cascade and PI3K/AKT signaling) alongside development (neuron and thymus) and immune cues (IL-12 response), with hints of endosomal transport, suggesting a cluster of proteins coordinating MAPK/PI3K signaling networks in development and immune-related contexts.","confidence":"Medium","size":12,"edges":24,"triangles":6,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":11},{"id":"GO:0070671","count":11},{"id":"GO:0007257","count":11},{"id":"GO:2000641","count":11},{"id":"GO:0033138","count":11}]},{"hash":"1138602677955729415","title":"Nuclear RNA Export and Processing","description":"This cluster is dominated by GO terms for mRNA export from the nucleus, ribosomal large subunit export, and tRNA processing, plus nuclear transport-related Ran signaling and regulation of nuclear protein export. Together, these indicate a core function in nuclear-cytoplasmic transport and RNA maturation, with some cell-cycle-related terms (centrosome duplication, mitotic chromosome alignment) that may reflect coordination of transport with division.","confidence":"High","size":12,"edges":54,"triangles":129,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0000055","count":3},{"id":"GO:0008033","count":3},{"id":"GO:0034599","count":2},{"id":"GO:0007080","count":2}]},{"hash":"29473677458682024","title":"Translation and ribosome biogenesis","description":"The top GO terms are dominated by translation (GO:0006412), ribosome biogenesis (GO:0042254), and translational termination (GO:0006415), suggesting the cluster centers on protein synthesis machinery. The remaining terms appear as secondary associations, so the core theme is translation-related processes.","confidence":"High","size":12,"edges":39,"triangles":85,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0046677","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006415","count":3},{"id":"GO:0036527","count":2}]},{"hash":"1748016529600833739","title":"Viral entry, proviral integration, and DNA replication","description":"These terms cluster around a viral/proviral lifecycle: entry into the host nucleus, establishment of integrated proviral latency, DNA integration and recombination, RNA-templated DNA biosynthesis, and DNA replication, with hints of host defense suppression (negative regulation of siRNA processing) and symbiont-associated entry. The combination suggests proviral or retroviral-like activity driving genome integration and replication. ","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075732","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3},{"id":"GO:1903704","count":3},{"id":"GO:0015074","count":3}]},{"hash":"365209941338045777","title":"Developmental transcriptional regulation and morphogenesis","description":"These proteins show enrichment for DNA-templated transcription and transcriptional regulation terms, alongside multiple morphogenesis-related terms across various organs (heart, embryonic eye, habenula, trachea cartilage, ureteric bud branching) and a methylation-related term. The common thread appears to be a regulatory program coordinating transcription with organ development. A xenobiotic response term is present but does not define the cluster. Therefore, a label focusing on developmental transcriptional control and morphogenesis is appropriate. ","confidence":"Medium","size":12,"edges":56,"triangles":138,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0035690","count":3},{"id":"GO:0021986","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1634761939457112260","title":"Mammalian reproductive development and fertilization processes","description":"This cluster is enriched in GO terms tied to reproductive biology and fertilization: binding of sperm to zona pellucida, regulation of the acrosome reaction, mammary gland development, and development of secondary sexual characteristics. These collectively point to a coherent theme of reproductive tissue development and gamete interaction. A few terms related to carbohydrate biosynthesis may reflect general metabolic support in reproductive tissues rather than core cluster functions.","confidence":"High","size":12,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0005978","count":2},{"id":"GO:0019252","count":2},{"id":"GO:0005985","count":2}]},{"hash":"285364496866420221","title":"RNA processing and ribosome biogenesis","description":"This cluster is dominated by GO terms tied to post-transcriptional RNA handling (mRNA export, splicing regulation, mRNA modification) and ribosome assembly/biogenesis, plus regulation of translation initiation and protein maturation processes, suggesting a cohesive theme around RNA processing and ribosome production rather than disparate pathways.","confidence":"High","size":12,"edges":18,"triangles":15,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0046677","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0045053","count":3},{"id":"GO:0051260","count":3}]},{"hash":"258866125057464646","title":"Lipid metabolism and glucose transport","description":"This cluster shows enrichment for lipid-related processes (phosphatidylglycerol biosynthesis, sphingosine/sphinganine metabolism, phospholipid catabolic) alongside glucose transport/metabolism (D-glucose transmembrane transport, glucose-6-phosphate transport), suggesting a cohesive theme around lipid biosynthesis/degradation and carbohydrate transport. A few terms (germ cell repulsion, certain Wnt-related entries) are less aligned and may be incidental annotations, but the dominant pattern supports a lipid plus sugar handling cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904659","count":2},{"id":"GO:0044328","count":1},{"id":"GO:0044330","count":1},{"id":"GO:0006655","count":1},{"id":"GO:0006668","count":1}]},{"hash":"615303423298820086","title":"SRP-dependent membrane targeting and cotranslational translocation","description":"The cluster is dominated by GO terms about protein targeting to membranes and translocation, especially SRP-dependent cotranslational targeting to the membrane and related post-translational targeting. This points to a cohesive function in delivering nascent or mature proteins to membranes, i.e., involvement in the secretory/membrane-anchoring pathway. Some other terms (DNA replication, iron-sulfur cluster assembly) appear ancillary and do not redefine the main theme. Overall, the membrane-targeting/translocation theme best explains the shared functions of these proteins.","confidence":"High","size":12,"edges":45,"triangles":89,"max_degree":11,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0032508","count":4},{"id":"GO:1902037","count":4},{"id":"GO:0006880","count":4},{"id":"GO:1903751","count":4}]},{"hash":"893534103929844556","title":"Membrane-targeted protein translocation and Fe-S assembly","description":"Enrichment of SRP-dependent and cotranslational protein targeting to membranes, plus iron-sulfur cluster assembly and iron metabolism terms, suggests a cluster of proteins involved in membrane-associated protein processing and Fe-S biogenesis, with secondary links to stress response regulation.","confidence":"Medium","size":12,"edges":11,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0006260","count":3},{"id":"GO:1902037","count":2},{"id":"GO:0006880","count":2},{"id":"GO:1903751","count":2}]},{"hash":"488780123133377164","title":"Mitochondrial Translation and Complex I Assembly","description":"The cluster strongly centers on mitochondria-related functions: mitochondrial translation, mitochondrial ribosome assembly, and assembly of the mitochondrial respiratory chain complex I. These converging terms indicate a group of proteins involved in mitochondrial protein synthesis and assembly of the electron transport chain. Additional terms related to redox biology and cellular stress (nitric oxide response, redox processes) fit within this mitochondrial context, while a few other metabolic terms may reflect broader cellular metabolism. Overall, the mitochondrial translation and respiratory assembly theme best represents the cluster.","confidence":"High","size":12,"edges":63,"triangles":191,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0032543","count":2},{"id":"GO:0006067","count":1},{"id":"GO:0061668","count":1}]},{"hash":"161523045393817213","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070329","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0006189","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0005978","count":2}]},{"hash":"141634865718570661","title":"Unknown","description":"The GO terms include inflammatory mediator production and chemokine regulation, but also carbohydrate metabolism, chitin catabolic process, and various RNA processing/translation terms, with no clear single function tying them together. This mixture suggests either a heterogeneous cluster or annotation noise, so a concise, representative label cannot be determined.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002532","count":2},{"id":"GO:0090197","count":2},{"id":"GO:0005975","count":2},{"id":"GO:0006032","count":2},{"id":"GO:0000381","count":1}]},{"hash":"647974604277326063","title":"mRNA Splicing and NMD Surveillance","description":"GO terms point to exon-exon junction complex disassembly and nonsense-mediated decay, both central to post-splicing mRNA quality control. The cluster therefore appears enriched for RNA processing and decay pathways, especially EJC- and NMD-related functions.","confidence":"Medium","size":12,"edges":8,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:1903259","count":1},{"id":"GO:0000184","count":1}]},{"hash":"1857584153399693931","title":"Cell Cycle and RNA Processing Regulators","description":"The top GO terms point to cell cycle, mRNA processing, and telomere capping regulation, suggesting roles in cell division and genome maintenance. Immune signaling terms (IL-12 regulation, chemokine production) and a pain response term are present but appear ancillary or due to annotation pleiotropy. Overall, the cluster seems to coalesce around regulation of cell cycle and gene expression, with some immune-related signals.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0044707","count":1},{"id":"GO:1904355","count":1},{"id":"GO:0006397","count":1}]},{"hash":"2258866115465414463","title":"Amino Acid Membrane Transport","description":"Most of the top GO terms describe transmembrane transport of amino acids and related small molecules: D-serine transport, L-ornithine import across the plasma membrane, and carnitine transmembrane transport, plus generic import/transport terms. This indicates the cluster is best characterized by membrane transport of amino acids and related compounds, with a few outlier metabolic terms (e.g., some catabolic processes) that are less central to the shared function.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007626","count":2},{"id":"GO:0055114","count":1},{"id":"GO:0046306","count":1},{"id":"GO:0009970","count":1},{"id":"GO:0046196","count":1}]},{"hash":"3384408100179568","title":"Unknown","description":"Top GO terms are scattered across diverse areas, including cellular signaling (cAMP response, TGF-beta signaling), metabolism (gluconeogenesis), development (seminiferous tubule), meiosis, apoptosis, chromatin regulation, and cellular senescence. With only one edge and no cohesive process across members, there is no clear common function to define a meaningful label. Therefore Unknown with no confidence.","confidence":"","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071320","count":2},{"id":"GO:0006094","count":2},{"id":"GO:0072520","count":1},{"id":"GO:0031065","count":1},{"id":"GO:2000873","count":1}]},{"hash":"599349147810551537","title":"Brain and neural development","description":"The top GO terms cluster around neural and brain formation (brain development, forebrain development, neural tube closure) with supporting multicellular development terms. Some housekeeping terms (ribosome biogenesis, mitotic cell cycle) are present, but the strongest signal points to neural development, suggesting this cluster reflects neural/brain formation processes.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008584","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0030900","count":3},{"id":"GO:0043113","count":2}]},{"hash":"1461967576280792857","title":"Cofactor and small-molecule transport","description":"This cluster centers on transport of vitamins/cofactors (NAD, CoA, pyridoxal phosphate) and small metabolites/ions (glycine, manganese, iron), suggesting a shared role in nutrient flux and metabolic support; liver regeneration and insulin-stimulated responses contextualize the metabolic theme.","confidence":"Medium","size":12,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007565","count":5},{"id":"GO:0032869","count":5},{"id":"GO:0035352","count":4},{"id":"GO:0035349","count":4},{"id":"GO:0097421","count":4}]},{"hash":"2194034752679864327","title":"Redox-regulated transcription and ER protein folding","description":"The cluster shows transcriptional regulation terms (negative regulation of RNA Pol II, DNA binding) alongside redox/oxidative stress processes (cellular redox homeostasis, deglutathionylation, ER protein folding). This suggests proteins here are involved in controlling gene expression in a redox/ER stress context, linking transcription regulation with cellular redox balance and ER protein processing.","confidence":"Medium","size":12,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:1903206","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0043388","count":1},{"id":"GO:0045454","count":1}]},{"hash":"1362415300764802083","title":"Nematode Development and Reproduction","description":"This cluster is dominated by GO terms tied to developmental and reproductive processes, including maternal axis specification, polyspermy prevention, embryogenesis/morphogenesis, molting and cuticle formation, and nematode-specific activities like pharyngeal pumping. While a few terms are broad or cross-species (e.g., vascular morphogenesis), the overall theme centers on nematode development and reproductive biology, suggesting proteins work together in growth, development, and maturation. ","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":1},{"id":"GO:2000360","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0043050","count":1},{"id":"GO:0035124","count":1}]},{"hash":"636701031197171878","title":"Antennal sensory organ development","description":"Most terms point to antennal sensory organ development, including sensory organ precursor cell division and antennal morphogenesis, suggesting this cluster centers on insect antenna formation. Additional terms like DNA-templated transcription and proteolysis reflect common cellular processes that support developmental programs. The lack of clear functional connectivity among proteins (no edges) reduces certainty, but the shared antennal development theme is still the most plausible explanation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0045035","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0006508","count":2},{"id":"GO:0019373","count":2}]},{"hash":"2035513821737435677","title":"RNA processing and ubiquitin regulation","description":"Dominant GO terms point to RNA processing and spliceosome assembly and to ubiquitin-dependent protein turnover (deubiquitination and depolymerization). This suggests a cluster centered on RNA metabolism coupled with protein homeostasis. Other terms (nitrate assimilation, CNS morphogenesis, feeding behavior, necroptosis) are sporadic and do not define the cluster.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":2},{"id":"GO:0000245","count":1},{"id":"GO:0010606","count":1},{"id":"GO:0010995","count":1},{"id":"GO:0021551","count":1}]},{"hash":"1143284047932580552","title":"Plant metal detoxification via phytochelatins and glutathione","description":"The top GO terms point to detoxification and redox balance, including phytochelatin biosynthesis and metal complex formation, glutathione biosynthesis, cadmium detoxification, and responses to xenobiotics and jasmonic acid\u2014consistent with a plant-focused metal detox/oxidative stress defense theme. Obsolete terms and outlier annotations exist but do not dominate the signal.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":1},{"id":"GO:1902376","count":1},{"id":"GO:0036129","count":1},{"id":"GO:0009410","count":1},{"id":"GO:0046938","count":1}]},{"hash":"656677004469109935","title":"GPCR-Mediated Signaling and Vesicle Exocytosis","description":"The Top Terms include acrosome reaction, synaptic vesicle priming, GPCR signaling, and regulation of degranulation, as well as Rho/Ras signaling and cell migration, with vasoconstriction-related terms. This pattern suggests a cluster of proteins involved in signaling cascades that regulate vesicle trafficking/exocytosis and cytoskeletal/motility processes across different cell types (from neurons to immune cells and vascular tissue), rather than a single highly specific pathway.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007340","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0060313","count":2},{"id":"GO:0016477","count":2},{"id":"GO:0016082","count":2}]},{"hash":"1689538819564418325","title":"Inflammation and B cell signaling","description":"The GO terms point to immune activation, with inflammatory response, cellular response to LPS, defense against Gram-positive bacteria, and B cell\u2013specific processes like B cell receptor signaling and germinal center formation. Lymph vessel morphogenesis supports an immunovascular context, while metanephric tubule morphogenesis appears as an outlier. Overall, this cluster represents innate/adaptive immune responses with B cell\u2013driven activity.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0002467","count":3}]},{"hash":"1285320271624522291","title":"Sugar taste perception and feeding behavior","description":"This cluster centers on detection of sugars (glucose, maltose, sucrose, trehalose), sugar-related taste perception (sweet taste) and feeding responses (proboscis extension reflex, drinking behavior), suggesting a cohesive role in sugar sensing and feeding regulation. A single unrelated term (peptidoglycan catabolic process) may be noise. Overall, a sugar-taste sensing and feeding behavior theme fits best.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009253","count":2},{"id":"GO:0010353","count":2},{"id":"GO:0050916","count":2},{"id":"GO:0051594","count":2},{"id":"GO:0007637","count":2}]},{"hash":"897900306158614209","title":"Embryonic morphogenesis and placental development","description":"GO terms in this cluster cluster around embryogenesis and tissue morphogenesis, especially placenta development (placental morphogenesis, trophoblast differentiation, left/right pattern formation, embryonic placenta morphogenesis) and related endocrine system development. While there are general processes like transcription and ubiquitination included, the dominant theme is developmental regulation during early embryonic and placental formation, justifying this label.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003323","count":4},{"id":"GO:0060972","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4}]},{"hash":"2177262329179821915","title":"Ribosome biogenesis and translation regulation","description":"Most terms describe core steps of protein synthesis (translation, initiation, termination, elongation) and ribosome biogenesis; together with cytoplasmic translation regulation. This pattern suggests the cluster represents proteins involved in assembling and controlling the ribosome and translation process.","confidence":"High","size":11,"edges":43,"triangles":90,"max_degree":10,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":3},{"id":"GO:0045901","count":2},{"id":"GO:1902802","count":2},{"id":"GO:0006449","count":2}]},{"hash":"865259161249912413","title":"GPCR\u2013cAMP/cGMP Signaling","description":"This cluster is dominated by terms related to G protein-coupled receptor signaling and cyclic nucleotide second messengers: adenylate cyclase activation, cAMP biosynthesis, and receptor-mediated signaling pathways. There are also terms for receptor guanylyl cyclase signaling and responses such as cellular responses to forskolin, all pointing to GPCR-driven intracellular signaling through cAMP and/or cGMP. A few terms touch on transcription regulation and hypoxia detection, but they appear ancillary to the core GPCR/cyclic nucleotide signaling theme, making this a cohesive cluster of GPCR-mediated second-messenger signaling functions.","confidence":"High","size":11,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":10},{"id":"GO:0071880","count":6},{"id":"GO:0035556","count":6},{"id":"GO:0007168","count":6},{"id":"GO:1904322","count":6}]},{"hash":"1786254185152391503","title":"MAPK/JNK and PI3K/AKT Signaling","description":"The top GO terms point to two major signaling pathways (JNK cascade and PI3K/AKT signaling) with related phosphorylation regulation, plus associated development (neuron and thymus) and endosome trafficking processes, suggesting a developmentally oriented signaling module. ","confidence":"High","size":11,"edges":6,"triangles":2,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":11},{"id":"GO:0070671","count":11},{"id":"GO:0007257","count":11},{"id":"GO:2000641","count":11},{"id":"GO:0033138","count":11}]},{"hash":"816506806000697908","title":"MAPK/JNK and PI3K signaling in development","description":"This cluster is dominated by JNK/MAPK and PI3K/AKT signaling terms, with broader links to serine phosphorylation and development (neuron, thymus) and immune signaling (IL-12). Endosome transport regulation also ties into signaling routing; together these terms suggest a module of signaling pathways coordinating development and immune responses.","confidence":"Medium","size":11,"edges":8,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":4},{"id":"GO:0070671","count":4},{"id":"GO:0007257","count":4},{"id":"GO:2000641","count":4},{"id":"GO:0033138","count":4}]},{"hash":"1164914695525434710","title":"Developmental signaling and morphogenesis","description":"This cluster centers on developmental processes (heart and thymus development, cell morphogenesis) combined with signaling and transcriptional regulation (PI3K/AKT signaling, DNA-templated transcription, and related phosphorylation events), suggesting proteins that coordinate growth and structural formation through signaling and gene expression. Additional terms on endosome transport and immune signaling support a broad developmental-regulatory theme rather than a single pathway.","confidence":"Medium","size":11,"edges":45,"triangles":94,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0000902","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0043491","count":3}]},{"hash":"1434055897880435687","title":"Developmental Regulation and Protein Processing","description":"Top terms indicate developmental regulation and transcription control (cellular response to transforming growth factor beta stimulus, regulation of DNA-templated transcription, maintenance of meristem identity, imaginal disc growth). Also present are protein-processing processes (proteolysis, protein deglycosylation) and some metabolic cues (amino acid catabolism). The cluster seems to reflect growth-related regulation and protein turnover rather than a single pathway, so this label is a best-fit.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0045571","count":2}]},{"hash":"2099087088974367510","title":"Immune and MAPK/JNK Signaling","description":"The GO terms cluster around signaling pathways central to immune response and kinase cascades, including B cell receptor signaling, PI3K/AKT signaling, JNK cascade, and tyrosine phosphorylation. While a couple of terms appear as outliers (e.g., plant biosynthesis and neuron development), the predominant theme is immune-related and MAPK/JNK signaling. This supports labeling the cluster as relating to immune/kinase signaling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0050853","count":4},{"id":"GO:0009718","count":4},{"id":"GO:0043491","count":3},{"id":"GO:0070671","count":3},{"id":"GO:0007257","count":3}]},{"hash":"107448276819597550","title":"Unknown","description":"The top GO terms cover a broad mix of cellular processes\u2014translation, amino acid homeostasis, various metabolic and transport activities, proteasome granule assembly, bacterial secretion and motility, and even angiogenesis\u2014without a clear shared function. The presence of both bacterial-specific processes (type III secretion, flagellum-dependent motility) and a eukaryotic process (angiogenesis) suggests the proteins do not form a cohesive functional cluster.","confidence":"","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0090465","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0006629","count":1},{"id":"GO:1902906","count":1}]},{"hash":"1999156466543225472","title":"Dopaminergic Neuronal Signaling and Sensory Processing","description":"The top GO terms cluster around neuronal signaling and sensory/behavioral responses, especially dopaminergic synaptic transmission, visual and sensory perception, cocaine-related behavioral response, and ERK signaling. This suggests a theme of neuronal signaling and plasticity with drug and sensory processing, despite a couple of outlier terms that may reflect broader GO annotations.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007507","count":9},{"id":"GO:0001963","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0010759","count":9},{"id":"GO:0008542","count":9}]},{"hash":"1757095842913860784","title":"Cell adhesion and polarity signaling","description":"These proteins link signaling at cell\u2013cell contacts (ephrin and T cell receptor pathways, Wnt signaling) with processes that organize cell polarity and adhesion structures (tight junctions, podosomes, epithelial polarity) and related cytoskeletal remodeling. The common thread is signaling that coordinates adhesion, polarity, and interface dynamics, suggesting a cluster centered on adhesion and polarity signaling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048013","count":6},{"id":"GO:0050852","count":6},{"id":"GO:0043552","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0043652","count":5}]},{"hash":"129475464229738170","title":"Neuronal development and morphogenesis signaling","description":"This cluster is enriched for terms tied to neural development, especially neuron projection morphogenesis and lateral motor column neuron migration, suggesting roles in neuronal differentiation and wiring. Additional GO terms point to cytoskeletal remodeling and signaling\u2014small GTPase pathways, IP3 and nitric oxide responses, and cell adhesion/ junction organization\u2014supporting the idea that these proteins coordinate morphogenesis and migration in neural contexts. Some developmental terms for other tissues appear, but the neural development theme is most prominent and representative of the cluster.","confidence":"High","size":11,"edges":53,"triangles":148,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:2000637","count":3},{"id":"GO:0048812","count":2},{"id":"GO:0045216","count":2},{"id":"GO:0060017","count":2},{"id":"GO:0007264","count":2}]},{"hash":"2170325074209678092","title":"Oocyte Meiosis and Spindle Assembly","description":"These proteins are enriched for GO terms describing SCF-dependent ubiquitin-proteasome\u2013mediated protein degradation, spindle assembly in female meiosis I, oocyte maturation, and microtubule polymerization, indicating a cohesive role in meiosis and early oocyte development, with some brain-development terms likely incidental.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0007057","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0006516","count":4},{"id":"GO:0001556","count":4}]},{"hash":"1985274175490645471","title":"Developmental signaling and morphogenesis","description":"This cluster centers on developmental signaling and tissue morphogenesis, with terms like smoothened signaling, ossification, axon guidance, heart contraction, and exosomal secretion, suggesting roles in developmental signaling and intercellular communication during tissue formation.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007224","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0002551","count":3},{"id":"GO:1903206","count":2}]},{"hash":"1969326182940821112","title":"DNA replication and transcription regulation via post-translational modifications","description":"The top GO terms cluster around deubiquitination, transcription, DNA replication, and DNA damage response signaling, with additional enrichment for serine phosphorylation and lysine methylation. This suggests proteins acting as regulators that modulate genome expression and stability through post-translational modifications. The inclusion of outer dynein arm assembly hints some members may have cytoskeletal/ciliary roles, but the strongest pattern is nuclear regulation of gene expression and genome maintenance via PTMs.","confidence":"Medium","size":11,"edges":51,"triangles":131,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016579","count":6},{"id":"GO:1903715","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0043516","count":4}]},{"hash":"1538968805148200976","title":"Embryogenesis and Organogenesis","description":"These terms collectively point to vertebrate embryogenesis and subsequent organogenesis. The list includes early developmental events (primitive streak formation, neural crest cell migration) and the development of diverse organs and tissues (pituitary gland, endocrine pancreas, osteoblasts, digestive tract, peripheral nervous system), suggesting a coherent theme of embryonic patterning and tissue morphogenesis rather than a single, narrow pathway.","confidence":"High","size":11,"edges":13,"triangles":1,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0060303","count":3},{"id":"GO:0001755","count":3},{"id":"GO:0021983","count":3},{"id":"GO:0090009","count":3}]},{"hash":"729072340504673016","title":"Neuronal signaling and exocytosis","description":"The strongest signals in the cluster are neuronal-related: hippocampus development, ephrin receptor signaling, and positive regulation of calcium ion-dependent exocytosis, pointing to synaptic signaling and neuronal maturation. Immune terms like innate immune response and response to LPS appear but are less cohesive with the core neuronal theme, suggesting they are ancillary to the cluster\u2019s main function. ","confidence":"Medium","size":11,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0051436","count":4},{"id":"GO:0045956","count":4},{"id":"GO:0021766","count":4},{"id":"GO:0033138","count":3}]},{"hash":"2228803690240958361","title":"Oocyte Maturation and Meiotic Spindle Assembly","description":"The top GO terms point to female gamete development and meiosis, especially oocyte maturation (GO:0001556) and spindle assembly in female meiosis I (GO:0007057), plus supporting microtubule polymerization (GO:0046785). Ubiquitin-proteasome\u2013mediated catabolic processes common in cell-cycle regulation accompany these meiotic events. Some development-related terms (neural tube, ventricle) appear but are secondary to the dominant meiosis/oocyte maturation signals, so the cluster is best described as processes governing oocyte maturation and meiotic spindle dynamics.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":7},{"id":"GO:0006516","count":7},{"id":"GO:0021993","count":7},{"id":"GO:0070544","count":7},{"id":"GO:0008285","count":7}]},{"hash":"1723854756640176732","title":"Retroviral entry, integration, and latency","description":"This cluster centers on retroviral-like genome integration: viral entry into the host, DNA integration/recombination, and the proviral latency state reflected by RNA-templated DNA biosynthesis. The GO terms viral penetration into host nucleus and establishment of integrated proviral latency explicitly mark this lifecycle, with supporting signals from DNA replication and host defense pathways such as siRNA processing regulation. Some terms about symbiont interactions reflect broader host-pathogen interactions but do not negate the retroviral theme.","confidence":"High","size":11,"edges":34,"triangles":46,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0048009","count":2},{"id":"GO:0075732","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2}]},{"hash":"1463409384845866778","title":"Unknown","description":"The top GO terms are highly diverse (immune defense and coagulation; metabolic transport; neural learning and drug response) and there are no edges or a shared function linking them, so there is no clear, single theme to name this cluster.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0042742","count":2},{"id":"GO:0032496","count":2},{"id":"GO:0043547","count":2}]},{"hash":"2131941644963816171","title":"Skeletal muscle development and ubiquitin regulation","description":"The top GO terms cluster around skeletal muscle tissue and muscle fiber development, and alongside ubiquitin-related processes (ubiquitin-dependent protein catabolic process, K33-linked ubiquitination). This suggests a group of proteins involved in muscle differentiation with coordinated protein turnover. Some terms (transcriptional regulation, renal absorption, sexual development) appear as noise relative to the core muscle/ubiquitin theme. ","confidence":"High","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007519","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0031397","count":1},{"id":"GO:2000312","count":1},{"id":"GO:0070294","count":1}]},{"hash":"581089798429109969","title":"RNA processing and stress-responsive translation regulation","description":"The terms cluster around mRNA splicing, export, modification, and stability, plus regulation of translation initiation and stress/inflammatory signaling (TNF). This points to a cohesive theme of RNA metabolism and control of protein synthesis, particularly under stress.","confidence":"Medium","size":11,"edges":51,"triangles":133,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0071356","count":2},{"id":"GO:0000381","count":2},{"id":"GO:0006446","count":2},{"id":"GO:0006406","count":2},{"id":"GO:0016556","count":2}]},{"hash":"676353278337652259","title":"ECM remodeling during development and morphogenesis","description":"The top terms cluster around extracellular matrix degradation and remodeling (collagen catabolic process, basement membrane disassembly, epithelial tube branching in lung morphogenesis, bone resorption) and related morphogenetic processes, suggesting a unifying theme of ECM remodeling during organ development and branching. Some terms (e.g., T cell cytotoxicity, thyroid hormone response) are less directly connected, likely reflecting broader regulatory contexts or annotation noise, but the dominant signal supports ECM-driven morphogenesis.","confidence":"Medium","size":11,"edges":35,"triangles":51,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0097067","count":4},{"id":"GO:0001913","count":4},{"id":"GO:0060448","count":4},{"id":"GO:0051603","count":4},{"id":"GO:0045453","count":4}]},{"hash":"1725727059413137814","title":"Deoxyribonucleotide biosynthesis and salvage","description":"GO term enrichment centers on deoxyribonucleotide metabolism and DNA synthesis, including deoxyguanosine salvage, pyrimidine nucleoside salvage, TMP biosynthesis, dGTP metabolism, and deoxyribonucleoside monophosphate biosynthesis, which together point to provisioning precursors for DNA replication and repair. Additional related processes reinforce the nucleotide biosynthetic theme, while NADPH regeneration and mitochondrial electron transport reflect the energy and reducing power needed for these biosynthetic activities. Overall, the cluster likely groups proteins involved in producing and salvaging deoxyribonucleotides to support DNA synthesis.","confidence":"High","size":11,"edges":6,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006740","count":3},{"id":"GO:0006180","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0016310","count":2},{"id":"GO:0043097","count":2}]},{"hash":"67572488929398145","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":27,"triangles":35,"max_degree":9,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":6},{"id":"GO:0031047","count":6},{"id":"GO:0000464","count":5},{"id":"GO:0000398","count":5},{"id":"GO:0000463","count":5}]},{"hash":"1392086567144589441","title":"Muscle development and sarcomere organization","description":"The cluster is dominated by terms tied to tissue and nervous system development and, notably, sarcomere organization, suggesting a muscle-structure and development theme. A couple of unrelated terms (proteolysis, peptidoglycan catabolic process) appear as noise, but do not override the core muscle-development signal.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0009253","count":2},{"id":"GO:0001666","count":2},{"id":"GO:0045214","count":2}]},{"hash":"442315566998236275","title":"Post-transcriptional mRNA processing and regulation","description":"The terms cluster around splicing regulation, mRNA export, stability, translation initiation, and RNA modification, indicating a coherent theme of post-transcriptional control of gene expression rather than transcriptional regulation.","confidence":"High","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":8},{"id":"GO:0031047","count":8},{"id":"GO:1901407","count":6},{"id":"GO:0010610","count":6},{"id":"GO:0000381","count":5}]},{"hash":"610030064855078028","title":"Blood coagulation and inflammatory tissue remodeling","description":"Top GO terms cluster around blood coagulation, acute-phase and innate immune responses, defense against Gram-positive bacteria, and tissue remodeling, suggesting a module where coagulation intersects immune signaling and extracellular matrix remodeling during development or inflammation.","confidence":"Medium","size":11,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0006953","count":2},{"id":"GO:0070208","count":2}]},{"hash":"972171440408779799","title":"Vascular ECM Remodeling and Coagulation","description":"The top GO terms cluster around blood coagulation, fibrinolysis, collagen fibril organization, endothelial cell regulation, and responses to mechanical stimuli, all pointing to remodeling of the vascular extracellular matrix and maintenance of hemostasis. A few terms (like SNARE complex regulation and vitamin D response) are less central but do not override the dominant vascular/ECM coagulation theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033280","count":2},{"id":"GO:0007596","count":2},{"id":"GO:0030199","count":2},{"id":"GO:2001275","count":2},{"id":"GO:1902042","count":2}]},{"hash":"526079930095433800","title":"Carbohydrate and nucleotide-sugar metabolism","description":"The cluster\u2019s top GO terms cluster around carbohydrate metabolism: glycogen biosynthesis, glucose 1-phosphate metabolism, galactose catabolism, and related pathways, plus biosynthesis of nucleotide-sugar donors (GDP-mannose, UDP-N-acetylglucosamine) and O antigen biosynthesis, with some catabolic processes (inosine, guanosine). This suggests a cohesive theme of carbohydrate metabolism and nucleotide-sugar biosynthesis, though an unrelated term (gravity detection) appears as noise. Confidence in this labeling is Medium.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0046115","count":1},{"id":"GO:0019255","count":1},{"id":"GO:0009590","count":1}]},{"hash":"817630929620499367","title":"Collagen fibril organization and inflammatory response","description":"This cluster centers on ECM-related processes, especially collagen fibril organization and tendon development, signaling connective tissue remodeling. It also includes innate immune cues such as inflammatory response and complement activation, suggesting a link between extracellular matrix dynamics and immune activity. Some terms point to protein complex assembly and regulation of cell differentiation, which fit into broader tissue remodeling contexts.","confidence":"Medium","size":11,"edges":25,"triangles":21,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0006954","count":2},{"id":"GO:0070208","count":2},{"id":"GO:1903225","count":2},{"id":"GO:0035989","count":2}]},{"hash":"884048581056030634","title":"Neural signaling and sensory processing","description":"The top GO terms point strongly to neural communication and sensory/behavioral responses, including adenylate cyclase-activating dopamine receptor signaling, response to amphetamine, sensory perception of pain, and cellular responses to temperature stimulus. These converge on neuronal signaling, sensory processing, and behavior, with a few terms like saliva secretion or inflammatory regulation present but less central. Overall, the cluster appears to reflect neural signaling and sensory/behavioral regulation.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042391","count":3},{"id":"GO:0040015","count":3},{"id":"GO:0071502","count":3},{"id":"GO:0019233","count":3},{"id":"GO:0046541","count":3}]},{"hash":"888904963003506742","title":"Neural development and calcium signaling","description":"Based on the top GO terms, the cluster is enriched for neural development-related processes (oligodendrocyte differentiation, enteric nervous system development) and calcium signaling (release of sequestered calcium into cytosol). While there are some generic or immune-related terms, the convergence on neural differentiation and calcium-mediated signaling suggests a cluster focused on neural development and calcium signaling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":2},{"id":"GO:0048709","count":2},{"id":"GO:0048484","count":2},{"id":"GO:0044707","count":1},{"id":"GO:1904355","count":1}]},{"hash":"1126344461592644725","title":"Mitosis and Cell Cycle Regulation","description":"The top terms cluster around mitosis and cell-cycle control (cell division, spindle checkpoint, and regulation of kinase activity), suggesting the proteins participate in mitotic progression and its signaling networks. Some terms (protein methylation and heterotrimerization) reflect general regulatory mechanisms common in these pathways, while a few others (brain development, stress-related mRNA export, ERAD) seem peripheral, likely noise, but do not override the main mitotic theme.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0070208","count":3},{"id":"GO:0035246","count":3},{"id":"GO:0071902","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007420","count":3}]},{"hash":"2164265943614478779","title":"Nuclear transcription regulation and RNA surveillance","description":"The cluster is enriched for GO terms tied to transcription regulation by RNA Pol II, nuclear mRNA surveillance, and post-transcriptional RNA processing, with some protein homeostasis and differentiation signals. Together, they point to a theme of controlling gene expression at the transcriptional and RNA level in the nucleus.","confidence":"Medium","size":11,"edges":19,"triangles":8,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0071033","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0000973","count":3},{"id":"GO:0042176","count":2},{"id":"GO:0006446","count":2}]},{"hash":"786089022761476126","title":"Sarcomere organization and striated muscle contraction regulation","description":"This cluster is dominated by terms about sarcomere organization and regulation of striated muscle contraction, including muscle filament sliding speed and fast/slow fiber transitions; a few transcription-related terms appear but do not define the main theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042795","count":1},{"id":"GO:0009945","count":1},{"id":"GO:0042796","count":1},{"id":"GO:0032781","count":1},{"id":"GO:0001980","count":1}]},{"hash":"2169392653100101002","title":"Chromatin modification and transcription regulation","description":"The dominant non-obsolete terms revolve around histone modifications (H3K9 methylation, H3K14 acetylation), nucleosome density, heterochromatin maintenance, transcription termination of RNA Pol I, and mRNA export\u2014collectively pointing to epigenetic regulation of gene expression. Development-related terms appear as outliers. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021553","count":1},{"id":"GO:0036302","count":1},{"id":"GO:0006363","count":1},{"id":"GO:0036124","count":1},{"id":"GO:0060303","count":1}]},{"hash":"543466547333762255","title":"Vision and neural signaling","description":"Most terms cluster around visual system function and neural communication (visual perception, photoreceptor maintenance, optomotor response, neurotransmitter secretion, synaptic vesicle clustering) with additional signaling (ERK cascade) aspects. A few terms relate to broader development, which appear as outliers. Overall, the cluster seems to group proteins involved in vision-related neural signaling more than unrelated processes.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001662","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0007601","count":2},{"id":"GO:0045494","count":2},{"id":"GO:0070374","count":2}]},{"hash":"449577530266146984","title":"Developmental signaling and ECM regulation","description":"The Top Terms cluster around developmental processes (pharynx development, pyramidal neuron differentiation, regulation of angiogenesis) and extracellular matrix-related activity (proteoglycan biosynthesis), with associated signaling pathways (integrin signaling, NF-kappaB). Although there are a couple of metabolic terms as minor outliers, the dominant theme is signaling in development and ECM interactions, suggesting proteins involved in developmentally regulated signaling and ECM remodeling.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043123","count":1},{"id":"GO:0060465","count":1},{"id":"GO:0006256","count":1},{"id":"GO:0046712","count":1},{"id":"GO:0030166","count":1}]},{"hash":"846264575867614291","title":"Telomere maintenance and chromosome replication","description":"The top terms cluster clearly around telomere biology and DNA replication: telomere maintenance via lengthening, telomere capping, telomere localization to telomeres, chromosome-associated protein localization, and DNA replication (including mitotic replication and telomerase-regulated maintenance). While a few terms (like translation and meiosis) are present, the dominant signal points to telomere maintenance and replication as the core function of this cluster, suggesting a cohesive telomere/chromosome replication theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070200","count":2},{"id":"GO:0010833","count":2},{"id":"GO:0006260","count":2},{"id":"GO:1902969","count":1},{"id":"GO:0007141","count":1}]},{"hash":"1747009666840068581","title":"Unknown","description":"The GO terms are highly diverse, including sperm binding and acrosome regulation (reproductive processes), mammary gland development, inflammatory response, brain development, and glycosphingolipid biosynthesis; there is no clear shared function or pathway connecting the majority of proteins, and no edges suggest a cohesive module, so a single interpretable label cannot be assigned.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":1},{"id":"GO:0045136","count":1},{"id":"GO:0007339","count":1},{"id":"GO:0060046","count":1},{"id":"GO:0002526","count":1}]},{"hash":"1877104697352840041","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0006783","count":1},{"id":"GO:1902001","count":1},{"id":"GO:0070453","count":1},{"id":"GO:0071668","count":1}]},{"hash":"1168230861930889070","title":"Membrane Transport of Ions and Metabolites","description":"Based on the top GO terms, this cluster is dominated by transmembrane transport activities for ions (sodium, potassium), glucose and other sugars, urate, vitamins, and xenobiotics. The convergence on diverse substrate transport implies a group of membrane transporter proteins with broad or multiple-substrate specificities. A couple of terms related to senescence and quorum sensing appear unrelated to transport and may be noise. Overall, the core function suggested is transport across membranes.","confidence":"High","size":11,"edges":35,"triangles":46,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":11},{"id":"GO:0006855","count":11},{"id":"GO:0042908","count":11},{"id":"GO:0071805","count":11},{"id":"GO:0044381","count":10}]},{"hash":"976084600452939157","title":"JNK/MAPK signaling in immune and neural development","description":"Cluster seems centered on kinase-driven signaling pathways, especially JNK/MAPK cascades and PI3K/AKT signaling, with roles in immune cell differentiation (NK T cells) and neural development. The recurring terms for JNK cascade, tyrosine and serine phosphorylation, and PI3K signaling support a cohesive signaling module rather than a single functional category, spanning immune and neural differentiation contexts.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":11},{"id":"GO:0070671","count":11},{"id":"GO:0007257","count":11},{"id":"GO:0033138","count":11},{"id":"GO:0051389","count":11}]},{"hash":"420947185117220702","title":"ECM Remodeling and Vascular Coagulation","description":"The GO terms predominantly point to extracellular matrix interactions (regulation of smooth muscle cell-matrix adhesion, elastin catabolic process), tissue remodeling, and immune/vascular processes (blood coagulation, complement activation). While a few terms are broader (development, glucose response), the core theme fits extracellular matrix dynamics tied to vascular and immune functions. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007270","count":1},{"id":"GO:2000097","count":1},{"id":"GO:0048771","count":1},{"id":"GO:0045079","count":1},{"id":"GO:0007596","count":1}]},{"hash":"633465364464185390","title":"Guanylyl cyclase/cGMP signaling cluster","description":"This cluster is dominated by GO terms tied to producing and signaling through cGMP, especially cGMP biosynthetic process and receptor guanylyl cyclase signaling. The recurrent themes of intracellular signal transduction and transcriptional regulation suggest downstream responses to cGMP signaling. Co-occurring terms like detection of hypoxia and response to forskolin point to broader cyclic nucleotide signaling and its cross-talk with other pathways. Overall, the proteins are plausibly involved in cGMP-mediated signal transduction and its transcriptional consequences.","confidence":"High","size":10,"edges":21,"triangles":16,"max_degree":9,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0071880","count":4},{"id":"GO:0052565","count":4},{"id":"GO:0006182","count":4},{"id":"GO:0006355","count":4}]},{"hash":"209114968093627631","title":"Cell cycle and ubiquitin-mediated regulation","description":"This cluster\u2019s top terms center on mitotic progression (exit from mitosis, spindle assembly in meiosis) and protein degradation via K48-linked ubiquitination, pointing to a cohesive theme of cell cycle control and proteostasis. Some developmental terms appear as outliers, suggesting noise or multifunctionality, but the core signal aligns with cell-cycle regulation and ubiquitin pathways.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048800","count":3},{"id":"GO:0006378","count":2},{"id":"GO:0061469","count":2},{"id":"GO:1990001","count":2},{"id":"GO:0045849","count":2}]},{"hash":"2283085789778188929","title":"Vitamin and cofactor biosynthesis","description":"The top GO terms cluster around the biosynthesis of vitamins and cofactors (phylloquinone, menaquinone, biotin, protoporphyrinogen IX) with related small-molecule metabolism, plus supporting amino acid catabolic processes. This suggests a functional theme focused on vitamin/cofactor production and associated metabolic pathways, even though some terms reflect broader metabolism. Confidence: Medium","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006635","count":4},{"id":"GO:0042372","count":4},{"id":"GO:0006574","count":4},{"id":"GO:0017000","count":4},{"id":"GO:0009234","count":4}]},{"hash":"2117731804025843331","title":"Cytoskeletal Dynamics and Spindle Machinery","description":"The terms point to cytoskeletal remodeling, especially microtubule- and actin-based processes linked to cell division (spindle orientation, kinetochore attachments, metaphase chromosome alignment) and contractile ring formation, with related roles in neuronal/ciliary structure and other cytoskeletal-driven organization. This supports a cohesive label centered on cytoskeletal dynamics and spindle machinery.","confidence":"Medium","size":10,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007080","count":5},{"id":"GO:0021685","count":5},{"id":"GO:0000915","count":5},{"id":"GO:1990535","count":5},{"id":"GO:0060404","count":5}]},{"hash":"1768871564796492727","title":"Transcriptional Regulation and Mitosis","description":"This cluster is enriched for DNA-templated transcription and its regulation, alongside GO terms for mitotic transitions (G1/S, G2/M) and spindle pole separation, plus chromatin-related state like H3 S10 phosphorylation. This suggests proteins here act as transcription regulators connected to cell-cycle control and chromosome condensation.","confidence":"High","size":10,"edges":4,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0046827","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0010696","count":3},{"id":"GO:0000320","count":3}]},{"hash":"781645272318461539","title":"Embryonic and organ morphogenesis","description":"The GO terms cluster around development and morphogenesis across multiple organs and tissues (heart, eye/retina, placenta, prostate, gonads, habenula) and include neuron migration, indicating a shared theme of embryonic organ formation rather than a single pathway.","confidence":"High","size":10,"edges":7,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001764","count":3},{"id":"GO:0060041","count":3},{"id":"GO:0060971","count":3},{"id":"GO:0001890","count":3},{"id":"GO:0003148","count":3}]},{"hash":"2293568374152130051","title":"Nuclear transcription and RNA processing","description":"The top GO terms point to DNA-templated transcription, mitotic cell cycle, mRNA splicing, and maturation of rRNA, indicating a core theme of nuclear gene expression and ribosome biogenesis in proliferating cells. A few terms like brain development and T cell receptor signaling appear more peripheral or broadly mapped, but they don\u2019t override the central nucleus-centric processes. This makes Nuclear transcription and RNA processing a coherent, representative label for the cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0071560","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0051301","count":3}]},{"hash":"1829809682986670054","title":"Ribosome Biogenesis and Translation","description":"Most of the prominent GO terms describe ribosome assembly and translation (translation, ribosome biogenesis, ribosomal small subunit biogenesis/assembly, and related translational regulation). This pattern suggests a cluster of proteins involved in ribosome biogenesis and the protein-synthesis machinery, with a few peripheral terms (e.g., antibiotic response, chromatin regulation) not central to this core function.","confidence":"High","size":10,"edges":44,"triangles":112,"max_degree":9,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0042254","count":3},{"id":"GO:0042274","count":2},{"id":"GO:0046677","count":2},{"id":"GO:0000028","count":2}]},{"hash":"304477298364433363","title":"Developmental signaling and transcription regulators","description":"Most enriched terms point to development and signaling (multicellular growth, brain development, TGF-beta response, kinase activity regulation) with transcriptional control (DNA-templated transcription). A few terms (ERAD, methylation) are more general or housekeeping, but the core theme appears to be developmental signaling and transcription regulation.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0035264","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0071560","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0070208","count":3}]},{"hash":"2238955151289430084","title":"Mitotic Cell Division and ER-Golgi Vesicle Transport","description":"The cluster centers on core cell division and mitotic cell cycle terms (cell division, mitotic cell cycle, mitotic spindle assembly) and strongly on vesicle trafficking between the ER and Golgi (ER-Golgi transport, retrograde transport, COPII budding). This points to a module where mitosis is coordinated with secretory pathway dynamics. Broader developmental terms like brain development and multicellular organism growth likely reflect the proliferative context rather than a distinct pathway.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0008283","count":3},{"id":"GO:0007420","count":2}]},{"hash":"1430642944633144709","title":"Xenobiotic and Immune Stress Responses","description":"The proteins appear to participate in responses to xenobiotics (amphetamine, ethanol, general xenobiotic stimuli) and immune challenges (defense against bacteria, response to LPS), with additional neural-behavioral terms (locomotory behavior, serotonin regulation). This suggests a cohesive theme of external-stress response encompassing chemical exposure, immune defense, and neural signaling, rather than a single narrow function.","confidence":"Medium","size":10,"edges":8,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0007626","count":2},{"id":"GO:0045471","count":2},{"id":"GO:0042742","count":2}]},{"hash":"1824147937672115430","title":"Protein acetylation cluster","description":"The top GO terms are dominated by various protein acetylation events (N-terminal acetylation, peptidyl-Ser/ Lys/ Glu acetylation, propionylation) and related acetylation metabolism (glucosamine/N-acetylglucosamine, putrescine/spermine acetylation). This suggests a cohesive theme around acetyl transfer/modification pathways and their metabolic context, rather than a single isolated function.","confidence":"High","size":10,"edges":16,"triangles":14,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":5},{"id":"GO:0018003","count":5},{"id":"GO:0046208","count":5},{"id":"GO:0006041","count":5},{"id":"GO:0061606","count":5}]},{"hash":"1246442402217829614","title":"Oocyte Maturation and Spindle Assembly","description":"The GO terms strongly point to oocyte maturation and spindle organization in female meiosis I, supported by microtubule polymerization and proteasome/ubiquitin-mediated protein turnover during meiosis. Although a couple of neural development terms are present, the dominant theme is meiosis/oocyte maturation and spindle dynamics.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007057","count":8},{"id":"GO:0031146","count":8},{"id":"GO:0008285","count":8},{"id":"GO:0006516","count":8},{"id":"GO:0001556","count":8}]},{"hash":"1968437733071988163","title":"Ribosome Biogenesis and Cell Cycle","description":"The top terms strongly point to ribosome assembly and translation-related processes (ribosome biogenesis, small subunit biogenesis, tRNA modification) along with cell growth/division (cell division, cell cycle). Other terms hint at broader cellular remodeling and stress responses (mitochondrial fission, vacuole targeting, interferon response, amino acid starvation, necroptosis), but the core pattern centers on protein synthesis capacity supporting cell cycle progression.","confidence":"Medium","size":10,"edges":28,"triangles":31,"max_degree":9,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0042274","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0006623","count":3},{"id":"GO:0006400","count":3},{"id":"GO:0000266","count":3}]},{"hash":"166723276308312598","title":"Cell Cycle and Ribosome Biogenesis","description":"The top GO terms cluster around cell division and the cell cycle, together with ribosome biogenesis and translation-related processes (cytoplasmic translation, ribosome biogenesis, ribosomal subunit biogenesis, tRNA modification). This points to a cohesive role in coordinating cell proliferation with protein synthesis machinery, with ancillary signals like interferon response and necroptosis being less central. ","confidence":"Medium","size":10,"edges":14,"triangles":7,"max_degree":6,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0051301","count":5},{"id":"GO:0007049","count":4},{"id":"GO:0042274","count":3},{"id":"GO:0006400","count":3},{"id":"GO:0035455","count":3}]},{"hash":"489306329261556897","title":"Dopamine/Adrenergic GPCR Signaling","description":"The top GO terms show catecholamine receptor pathways (dopamine and adrenergic) activating adenylate cyclase and phospholipase C, indicating GPCR-mediated signaling. Additional terms like heart development and phototransduction point to GPCR roles in heart and retina, but the core theme remains catecholamine GPCR signaling, supported by amphetamine response and cAMP-related processes.","confidence":"Medium","size":10,"edges":18,"triangles":11,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007191","count":5},{"id":"GO:0060158","count":5},{"id":"GO:0071880","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0007507","count":5}]},{"hash":"1199992279328516701","title":"Cell cycle, nuclear transport, and proteostasis","description":"The terms cluster around cell division (vacuole inheritance, mitotic cytokinesis, DNA replication) and nuclear import (NLS-bearing protein import into nucleus), with trafficking and microtubule regulation, plus chaperone-related refolding and heat-stress regulation, suggesting a cohesive role in cell-cycle progression with intracellular transport and protein quality control.","confidence":"Medium","size":10,"edges":9,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0000011","count":3},{"id":"GO:0000281","count":3},{"id":"GO:0031204","count":2},{"id":"GO:1900035","count":2},{"id":"GO:0090084","count":2}]},{"hash":"2106243168035665163","title":"ER Protein Quality Control and Stress Response","description":"The top terms cluster around ubiquitin-dependent ERAD, ER protein folding and chaperone-assisted refolding, autophagy, and heat response, all pointing to ER-associated protein quality control under stress. While there are some cell cycle-related terms present (DNA replication, cell division) they appear secondary and may reflect broader cellular maintenance rather than a core function of the cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0006914","count":2},{"id":"GO:0009408","count":2},{"id":"GO:0034975","count":2}]},{"hash":"2022211963719813179","title":"Fungal cell wall biosynthesis and glycosylation","description":"This cluster centers on processes for constructing and modifying fungal cell wall components, notably fungal-type cell wall biogenesis and cell wall mannoprotein biosynthesis, along with glycan precursor biosynthesis (GDP-mannose, UDP-N-acetylglucosamine) essential for glycosylation. The amino acid transport and starvation response terms may reflect metabolic support for these biosynthetic activities, but the core signal is cell wall assembly and glycosylation in fungi.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0015824","count":2},{"id":"GO:1903833","count":2},{"id":"GO:0000032","count":1},{"id":"GO:0009089","count":1},{"id":"GO:0006048","count":1}]},{"hash":"1576218340335007406","title":"Viral DNA Integration and Replication","description":"The top GO terms cluster around DNA-level processes (DNA replication, DNA integration, DNA recombination, RNA-templated DNA synthesis, translesion synthesis) and viral-specific steps (viral penetration into host nucleus, establishment of integrated proviral latency). This suggests proteins involved in retroviral life cycle and host DNA synthesis/repair, potentially including reverse transcription and proviral integration activities. The presence of related host-symbiont interaction terms hints at broader host\u2013microbe interfaces, but the strongest common thread is viral DNA synthesis and integration.","confidence":"Medium","size":10,"edges":24,"triangles":18,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":3},{"id":"GO:0075732","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2},{"id":"GO:1903704","count":2}]},{"hash":"2083374775245484105","title":"Ribosome assembly and translation regulation","description":"This cluster is dominated by translation-related terms (GO:0006412) and ribosome biogenesis/assembly (GO:0042273, GO:0042256), indicating proteins involved in the protein synthesis machinery. While a few transcription-related terms appear, the strongest and most frequent signals are ribosome assembly and translation, justifying a label centered on the protein synthesis machinery.","confidence":"High","size":10,"edges":42,"triangles":99,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":9},{"id":"GO:0042273","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0042256","count":2},{"id":"GO:0032784","count":2}]},{"hash":"353130114165509472","title":"Vascular and Muscle Development Signaling","description":"The cluster centers on vascular morphogenesis and VEGF signaling, as well as skeletal and cardiac muscle development and related kinase activity, indicating a shared theme of vascular and muscle differentiation and growth. Some terms reflect broader cellular processes, but the vascular/muscle theme remains the most coherent linkage.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0005980","count":1},{"id":"GO:0001569","count":1},{"id":"GO:0001975","count":1},{"id":"GO:0060487","count":1},{"id":"GO:0048143","count":1}]},{"hash":"754584016555681570","title":"Oocyte Maturation and Meiotic Spindle Assembly","description":"This cluster centers on ubiquitin-proteasome\u2013mediated protein degradation (SCF-dependent and general ubiquitin pathways) together with meiotic processes, including oocyte maturation and spindle assembly in female meiosis I, supported by microtubule polymerization. The dominant theme points to regulation of meiosis and oocyte development via targeted protein turnover, though a couple brain/development terms may reflect broader developmental annotations or noise.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0006516","count":6},{"id":"GO:0021993","count":6},{"id":"GO:0042787","count":6},{"id":"GO:0070544","count":6}]},{"hash":"485515949042299994","title":"Synaptic vesicle trafficking and receptor insertion","description":"This cluster centers on exocytic trafficking and membrane fusion in neurons\u2014the SNARE machinery, ER-to-Golgi transport, Golgi organization, and postsynaptic receptor insertion/recycling linked to synaptic plasticity.","confidence":"High","size":10,"edges":34,"triangles":54,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0098967","count":6},{"id":"GO:0035493","count":6},{"id":"GO:0006891","count":6},{"id":"GO:0090161","count":6},{"id":"GO:0006888","count":6}]},{"hash":"446144265344869370","title":"RNA Methylation and tRNA Modification","description":"The cluster\u2019s top GO terms are dominated by tRNA wobble uridine modification, rRNA methylation, and guanine-N7 methylation, pointing to a core function in RNA modification enzymes. Other terms (peptidyl-hydroxylation, N-terminal trimethylation, and biosynthetic processes) may reflect ancillary activities or multifunctional enzymes, but the strongest signal ties to RNA methylation/modification.","confidence":"Medium","size":10,"edges":22,"triangles":16,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0002098","count":3},{"id":"GO:0031167","count":3},{"id":"GO:0001701","count":2},{"id":"GO:0070476","count":2},{"id":"GO:0009102","count":2}]},{"hash":"1378127738885639784","title":"ER Stress and Protein Quality Control","description":"The terms point to endoplasmic reticulum\u2013focused stress responses, including unfolded protein response, misfolded protein transport, translation initiation regulation under ER stress, and ER-associated degradation themes, along with related redox and heat responses. Together they suggest a coherent cluster centered on detecting and managing misfolded proteins in the ER and adjusting protein handling accordingly. This label captures the central theme without overgeneralizing to unrelated stress pathways.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031204","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900035","count":1},{"id":"GO:0036494","count":1},{"id":"GO:0046825","count":1}]},{"hash":"2262877735799302169","title":"Neuroimmune signaling and vascular regulation","description":"This cluster combines immune-related terms (inflammatory regulation, T cell chemotaxis, eosinophil extravasation), neural signaling (dopamine receptor signaling, amphetamine response, octopamine/tyramine signaling), and vascular functions (blood coagulation, vascular smooth muscle contraction), with an outlier photoreception term. The common thread appears to be broad signal transduction and cross-talk among nervous, immune, and vascular systems, rather than a single, narrow function.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":3},{"id":"GO:0007191","count":3},{"id":"GO:0001975","count":3},{"id":"GO:0016038","count":3},{"id":"GO:0014829","count":3}]},{"hash":"1361757145267537784","title":"Integrin-mediated adhesion and extravasation signaling","description":"The majority of terms point to cell adhesion and integrin-mediated signaling, including cellular extravasation and blood coagulation, suggesting a vascular adhesion/migration theme. A few terms reflect unrelated processes (visual perception, dendrite regeneration, stamen formation, proteasome assembly), but they appear peripheral. Overall, the integrin adhesion/migration label captures the central pattern in this cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":1},{"id":"GO:0034113","count":1},{"id":"GO:0045123","count":1},{"id":"GO:0007596","count":1},{"id":"GO:0007229","count":1}]},{"hash":"748234371018430334","title":"Unknown","description":"The top GO terms are diverse and do not converge on a single coherent function for the cluster (transcription, inflammatory response, metabolism, development, secretion, and tissue remodeling are all present). One term is obsolete, and there is no consistent biological theme tying the proteins together.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010216","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051966","count":1},{"id":"GO:0002438","count":1},{"id":"GO:0045721","count":1}]},{"hash":"2175618315893246591","title":"Epithelial polarity and immune signaling","description":"This cluster combines core epithelial cell polarity and adherens junction components (establishment of epithelial cell polarity, adherens junction organization, cell shape regulation) with immune-related processes (innate and adaptive immune response, engulfment of apoptotic cells) and signaling pathways (JNK cascade regulation, ephrin receptor signaling). The proteins likely participate at epithelial interfaces where tissue architecture intersects with immune signaling and apoptotic cell clearance, justifying a label that reflects both aspects.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":5},{"id":"GO:0002250","count":4},{"id":"GO:0046328","count":4},{"id":"GO:0043652","count":3},{"id":"GO:0043066","count":3}]},{"hash":"1678684247494198554","title":"Immune and Endocrine Signaling Cluster","description":"It centers on signaling rather than a single process, combining immune functions (NK cytotoxicity, thymus/mast cell development) with endocrine cues (insulin response, parathyroid/thymus development, endothelin, NO) and common signaling modules (small GTPases, IP3 biosynthesis, translation initiation). Thus the label captures the broad, mixed signaling themes across immune and endocrine contexts.","confidence":"Medium","size":10,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":4},{"id":"GO:0042267","count":4},{"id":"GO:0060017","count":4},{"id":"GO:0007264","count":4},{"id":"GO:0032959","count":4}]},{"hash":"422955321163257576","title":"Viral genome integration and proviral latency","description":"The top terms cluster around entry into the host nucleus, proviral latency, DNA integration, RNA-templated DNA biosynthesis (reverse transcription), and DNA replication/recombination, all core features of viral genome integration and replication. Additional terms about symbiont entry and manipulation of host apoptosis align with virus\u2013host interaction dynamics, reinforcing a cohesive viral integration/latency theme. Confidence: High","confidence":"","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0075732","count":5},{"id":"GO:0075713","count":5},{"id":"GO:0039651","count":5},{"id":"GO:1903704","count":5},{"id":"GO:0015074","count":5}]},{"hash":"698915807811110376","title":"Neuronal development and synaptic signaling","description":"The terms cluster around neural processes: synaptic vesicle endocytosis, regulation of synaptic transmission (including glutamatergic and dopamine-related signaling), GABAergic interneuron migration, nervous system development, and even visual perception and morphine response. While heart and skeletal muscle development appear, the dominant theme ties to neuronal development and synaptic function.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900242","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0051967","count":2}]},{"hash":"1982328430111216448","title":"Ubiquitin-regulated skeletal muscle development","description":"The list of top GO terms centers on ubiquitination processes (negative regulation of ubiquitination, ubiquitin-dependent protein catabolic process, and K33-linked ubiquitination) and on skeletal muscle development (skeletal muscle tissue and fiber development), suggesting a cluster of proteins involved in muscle formation modulated by ubiquitin signaling.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":1},{"id":"GO:2000312","count":1},{"id":"GO:0070294","count":1},{"id":"GO:0045496","count":1},{"id":"GO:0048741","count":1}]},{"hash":"425664739985064772","title":"Unknown","description":"The top GO terms suggest auditory sensory perception (sound detection and auditory receptor development), but many other terms indicate diverse processes (DNA repair, sumoylation, cellular senescence, mitotic cohesion, cytokinin signaling, and root meristem growth). The lack of a cohesive functional theme across all proteins makes it difficult to assign a single representative biological label.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":2},{"id":"GO:0060117","count":2},{"id":"GO:0016925","count":1},{"id":"GO:1990683","count":1},{"id":"GO:0090398","count":1}]},{"hash":"1345769394029822887","title":"N-terminal and lysine protein acetylation","description":"This cluster\u2019s top GO terms are largely about acetylation: N-terminal peptidyl-acetylation, peptidyl-lysine acetylation, propionylation, and acetylation-related metabolism (N-acetylglucosamine/glucosamine, putrescine, spermine). The shared theme is post-translational modification by acetyl groups. Some outliers like angiogenesis and certain catabolic processes may reflect noise or broader annotations, but the acetylation core dominates. ","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":6},{"id":"GO:0018003","count":6},{"id":"GO:0046208","count":6},{"id":"GO:0006041","count":6},{"id":"GO:0061606","count":6}]},{"hash":"2176878119415547686","title":"Glycosylation and fucosylation in immune and neural development","description":"Top GO terms point to glycosylation and fucosylation (protein glycosylation, fucosylation, Lewis a epitope biosynthesis, L-fucose catabolic process), indicating carbohydrate modification as a core function. Additional terms involve immune processes (leukocyte migration in immune response; CD4-positive regulatory T cell differentiation) and neural development (neuronal stem cell population maintenance; cerebral cortex radially oriented cell migration), suggesting the cluster combines glycosylation/fucosylation pathways with immune and neural contexts.","confidence":"Medium","size":10,"edges":17,"triangles":4,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":2},{"id":"GO:0005975","count":1},{"id":"GO:0036065","count":1},{"id":"GO:0002522","count":1},{"id":"GO:0036071","count":1}]},{"hash":"1648467069928174406","title":"Plant cell wall remodeling and metabolic stress responses","description":"This cluster is dominated by plant-specific processes such as plasmodesma organization and plant-type cell wall modification, pointing to cell wall dynamics in plants. Additional terms related to cellulose biosynthetic regulation, basic metabolism (oxaloacetate, NAD+ biosynthesis) and metal-related stress responses (cadmium, iron transport) suggest a broader theme of plant cell wall biology linked with metabolism and stress adaptation.","confidence":"Medium","size":10,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009663","count":1},{"id":"GO:0009831","count":1},{"id":"GO:2001009","count":1},{"id":"GO:0006596","count":1},{"id":"GO:0042158","count":1}]},{"hash":"468106973174011915","title":"ER protein quality control and autophagy","description":"The top GO terms show ER-related protein folding and ERAD/chaperone-assisted refolding, together with autophagosome maturation, indicating a cluster of proteins involved in ER protein quality control and its connection to autophagy. The other terms (phosphorylation/dephosphorylation, cell division, nucleotide metabolism) appear ancillary to this core theme. ","confidence":"Medium","size":10,"edges":6,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0034975","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0016311","count":1}]},{"hash":"1910684595518482648","title":"Aromatic and lipid catabolism","description":"This cluster centers on catabolic processes across aromatic compounds and lipids (stilbene, beta-ketoadipate, 3-phenylpropionate, triglyceride, prostaglandin), plus a detox-response signal, suggesting a theme of diverse organic compound degradation rather than synthesis.","confidence":"High","size":10,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":2},{"id":"GO:1905344","count":2},{"id":"GO:0009102","count":2},{"id":"GO:0019433","count":2},{"id":"GO:0046839","count":2}]},{"hash":"199074352861209442","title":"Plant Immune Signaling and Mitochondrial Respiration","description":"This cluster combines plant defense terms (defense response to fungus/bacterium, systemic acquired resistance, response to herbivore) with mitochondrial assembly and cytochrome c regulation terms, suggesting proteins linked to immune signaling and mitochondrial function.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090201","count":1},{"id":"GO:0033617","count":1},{"id":"GO:0097250","count":1},{"id":"GO:0050832","count":1},{"id":"GO:0042742","count":1}]},{"hash":"321714718794362703","title":"Immune JNK/MAPK and PI3K signaling","description":"The cluster is dominated by GO terms tied to immune signaling and phosphorylation cascades, including JNK/MAPK cascade, PI3K/AKT pathway, IL-12 response, and NK T cell differentiation, along with phosphorylation events. While a couple terms (neuron development, alkaline pH response) are less connected, the core pattern is kinase-driven signaling in immune contexts.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":4},{"id":"GO:0070671","count":4},{"id":"GO:0007257","count":4},{"id":"GO:0033138","count":4},{"id":"GO:0051389","count":4}]},{"hash":"1474534684253794323","title":"Chromatin organization and histone modification","description":"This cluster is dominated by GO terms related to histone modifications (H3-K27 and H3-K4) and nucleosome assembly, pointing to chromatin regulation as the core theme, with a few development terms likely incidental. Confidence: Medium","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":3},{"id":"GO:1901674","count":2},{"id":"GO:0044648","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0080182","count":2}]},{"hash":"1173885270269200093","title":"Unknown","description":"The set includes terms for molting/cuticle formation, Na+/K+ transport, neuron differentiation, fibrinolysis, bacterial agglutination, angiogenesis regulation, integrin signaling, guanylyl cyclase signaling, and complement activation. These do not point to a single shared function or pathway among the proteins; thus a cohesive label is not supported.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018996","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0021859","count":1},{"id":"GO:0051918","count":1}]},{"hash":"1746223342930540629","title":"Multi-substrate Membrane Transporters","description":"This cluster is dominated by GO terms for transmembrane transport across a wide range of substrates, including ions (sodium, phosphate), sugars (galactose), metabolites (4-hydroxyphenylacetate), nitrite/nitrate, vitamins, xenobiotics, and a vesicular neurotransmitter loading term. The shared function appears to be membrane transport of diverse substrates, suggesting a set of transporter proteins with broad or varied substrate specificities.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900754","count":2},{"id":"GO:0035725","count":2},{"id":"GO:0015707","count":2},{"id":"GO:0015739","count":2},{"id":"GO:0015757","count":2}]},{"hash":"1616045280379834171","title":"Receptor guanylyl cyclase cGMP signaling","description":"The top terms are dominated by cGMP biosynthesis and receptor guanylyl cyclase signaling pathway, plus intracellular signal transduction, indicating the core function is guanylyl cyclase\u2013driven cGMP signaling. The lipid metabolism and differentiation terms appear at low frequency and may be secondary annotations. This name succinctly captures the primary theme of the cluster.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006182","count":2},{"id":"GO:0035556","count":2},{"id":"GO:0007168","count":2},{"id":"GO:1900194","count":2},{"id":"GO:0033490","count":1}]},{"hash":"2148648091322159801","title":"Estrogen Response","description":"Based on GO:0071391 (cellular response to estrogen stimulus) observed once, with no edges or connections among proteins, the proteins appear loosely tied to estrogen response. The evidence is limited, so the label \u201cEstrogen Response\u201d is tentative.","confidence":"Low","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071391","count":1}]},{"hash":"1856263741611922144","title":"Muscle and vascular development and remodeling","description":"Based on the prominent GO terms, the proteins cluster around development and remodeling of muscle and vascular tissues: skeletal muscle fiber development, cardiac muscle hypertrophy regulation, and branching morphogenesis of blood vessels. Additional terms point to tissue differentiation and metabolic processes that typically accompany tissue growth and remodeling, with immune modulation often seen during regeneration. Together these signals point to a shared theme of muscle-vasculature development and remodeling rather than a single narrow function.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001569","count":9},{"id":"GO:0050728","count":9},{"id":"GO:0005977","count":9},{"id":"GO:0060487","count":9},{"id":"GO:1903244","count":9}]},{"hash":"1390016911477475109","title":"Gram-positive defense and peptidoglycan catabolism","description":"The dominant GO terms are defense response to Gram-positive bacteria and peptidoglycan/cell-wall catabolic processes, suggesting proteins involved in antimicrobial defense or remodeling of bacterial cell walls. Some unrelated terms appear in the list but do not define the core function of the cluster.","confidence":"High","size":9,"edges":9,"triangles":1,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0009253","count":2},{"id":"GO:0016998","count":2},{"id":"GO:0060574","count":1},{"id":"GO:0009584","count":1}]},{"hash":"528085415785706847","title":"GPCR- and GC-driven cyclic nucleotide signaling","description":"The top GO terms cluster around cyclic nucleotide signaling: cAMP and cGMP biosynthesis, adenylate cyclase-activating adrenergic receptor signaling, receptor guanylyl cyclase signaling, and forskolin response, all pointing to GPCR- and receptor-mediated regulation of cyclic nucleotide pathways, with intracellular signal transduction as a broader theme. Some terms are obsolete, but the central function is clear: coordinated signaling through cAMP and/or cGMP. ","confidence":"High","size":9,"edges":8,"triangles":3,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071880","count":4},{"id":"GO:0052565","count":4},{"id":"GO:0006182","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0070483","count":4}]},{"hash":"1086119172141082795","title":"DNA replication and cell cycle machinery","description":"The cluster is dominated by functions related to DNA replication, mitotic cell cycle progression, and DNA repair, indicating a core genome maintenance module. While there are ancillary signals of PI3K/AKT signaling, JNK activation, endosome transport, and thymus development, the primary theme centers on replication and cell-cycle control.","confidence":"High","size":9,"edges":26,"triangles":31,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006260","count":9},{"id":"GO:0000278","count":9},{"id":"GO:0006281","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0043491","count":8}]},{"hash":"397605265880568642","title":"Embryonic organ and tissue development","description":"This cluster is dominated by GO terms related to organism development across multiple organs (heart, cerebellum, thyroid, skeletal muscle, cranial skeleton, visual system) and multicellular development, indicating a shared function in organogenesis and tissue morphogenesis during embryogenesis. A couple of terms refer to immune or metabolic responses, but the predominant signal is developmental.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0048701","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0021549","count":4},{"id":"GO:0050830","count":4}]},{"hash":"502631154981612900","title":"PI3K-AKT and JNK Signaling in Development","description":"This cluster centers on intracellular signaling pathways, notably PI3K/AKT and the JNK cascade, with added signals related to phosphorylation regulation, immune response, and development (neuron and thymus) as well as endosomal trafficking. The terms point to a cohesive theme of signaling and developmental processes rather than a single narrow function, though the mix means the label should remain moderately broad.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":9},{"id":"GO:0070671","count":9},{"id":"GO:0007257","count":9},{"id":"GO:2000641","count":9},{"id":"GO:0033138","count":9}]},{"hash":"2113764249658461146","title":"Nuclear DNA Replication and RNA Processing","description":"These proteins show strong representation of nuclear genome maintenance activities (DNA replication, recombination, UV-damage repair) alongside RNA processing and export (mRNA splicing regulation, ncRNA-mediated silencing, translational initiation regulation). This suggests a coordinated role in genome maintenance and regulation of gene expression at the RNA level.","confidence":"Medium","size":9,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":4},{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0019079","count":2}]},{"hash":"50524834969308210","title":"Amino acid and sulfur metabolism","description":"The top GO terms cluster around amino acid catabolism/biosynthesis (cysteine, threonine, 2-oxobutyrate, pyruvate) and sulfur-containing compound pathways (hydrogen sulfide biosynthesis, coenzyme M biosynthesis). This suggests the proteins are coordinated in amino acid metabolism with involvement in sulfur-containing metabolite processing.","confidence":"Medium","size":9,"edges":16,"triangles":10,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0070814","count":2},{"id":"GO:0019499","count":2},{"id":"GO:0009310","count":2},{"id":"GO:0006535","count":2},{"id":"GO:0019295","count":2}]},{"hash":"1628048633711144068","title":"Muscle contraction and calcium signaling","description":"The GO terms point strongly to muscle-related processes: glycogen catabolism for energy, myosin II filament assembly for the contractile apparatus, calcium release from the sarcoplasmic reticulum for contraction, and cardiac muscle hypertrophy signaling in response to stress. While some terms touch on broader signaling or development, the core enrichment centers on muscle function and calcium-dependent contraction, suggesting these proteins cluster around muscle energy and contraction pathways.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0005980","count":3},{"id":"GO:0001569","count":3},{"id":"GO:0031036","count":3},{"id":"GO:0060487","count":3},{"id":"GO:0048143","count":3}]},{"hash":"1267653648645930530","title":"Ribosome Biogenesis and Ubiquitin-Dependent Quality Control","description":"The cluster centers on protein synthesis machinery (translation and ribosomal subunit/ rRNA maturation) alongside protein turnover and organelle quality control pathways (deubiquitination, ERAD, mitophagy, and tail-anchored ER membrane insertion), indicating a cohesive theme of maintaining protein homeostasis through synthesis and degradation, including ER and mitochondrial quality control; a peripheral link to erythrocyte differentiation is noted but less central.","confidence":"Medium","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0016579","count":4},{"id":"GO:0010637","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0000028","count":3}]},{"hash":"321402169197827071","title":"Unknown","description":"The terms span plant hormone regulation, animal gland development, immune and detox processes, and stress responses across different organisms, with no clear common function linking the cluster.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0010193","count":2},{"id":"GO:0010268","count":2},{"id":"GO:0010760","count":2},{"id":"GO:0010430","count":2},{"id":"GO:2001037","count":2}]},{"hash":"1562645073676814941","title":"Unknown","description":"Top terms across the cluster are a mix of immune regulation, neuromodulatory signaling, and some unrelated processes (visible light absorption, coagulation, vascular contraction). There isn\u2019t a single cohesive biological theme tying these terms together, so a specific, representative label isn\u2019t evident.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050728","count":9},{"id":"GO:0007191","count":9},{"id":"GO:0001975","count":9},{"id":"GO:0016038","count":9},{"id":"GO:0002305","count":9}]},{"hash":"232181129065228279","title":"mRNA splicing and processing regulation","description":"This cluster is dominated by GO terms for spliceosome-mediated splicing (cis and alternative), mRNA modification, mRNA export, and regulation of translational initiation and mRNA stability, all pointing to post-transcriptional RNA processing and export/regulation rather than DNA-level processes. The convergence on splicing and mRNA maturation suggests proteins functioning together in RNA processing pathways.","confidence":"High","size":9,"edges":34,"triangles":70,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":8},{"id":"GO:0045292","count":7},{"id":"GO:0000381","count":6},{"id":"GO:0006446","count":6},{"id":"GO:0006406","count":6}]},{"hash":"1044260433865046951","title":"Unknown","description":"The GO terms span transcription regulation, cholesterol biosynthesis, tRNA modification, protein urmylation, and other diverse processes with no shared pathway or interaction evident (edges 0). The mix includes an obsolete term and a plant-specific process, suggesting no cohesive functional theme for this cluster.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006695","count":2},{"id":"GO:0002143","count":1},{"id":"GO:0032447","count":1}]},{"hash":"962326720524199428","title":"Mitochondrial dynamics and distribution","description":"The top GO terms cluster around mitochondria: fission, membrane organization, inheritance, and intracellular distribution, with supporting signals from endocytic recycling and macroautophagy. This combination points to a coordinated program of mitochondrial dynamics and trafficking, including quality control via mitophagy, rather than a single specialization. The GABAergic synaptic term is less central but may reflect neuron-related contexts of mitochondrial function.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000266","count":3},{"id":"GO:0051932","count":3},{"id":"GO:0032456","count":3},{"id":"GO:0048312","count":3},{"id":"GO:0007006","count":3}]},{"hash":"289033617481642832","title":"ER stress induced apoptosis and cytokine signaling","description":"The cluster centers on ER-related processes (ER membrane fusion and ER organization) and apoptosis, with immune signaling terms (type II interferon response, IL-1 beta production, IL-2 regulation) suggesting a theme of ER stress triggering cell death and modulating inflammatory cytokine pathways, with a few cytoskeletal/synaptic terms appearing as secondary associations.","confidence":"Medium","size":9,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0071346","count":2},{"id":"GO:0050702","count":2},{"id":"GO:0016320","count":2}]},{"hash":"1198970422945815718","title":"Endocytic trafficking and signaling regulation","description":"The terms point to endosomal/lysosomal localization and transport (protein localization to lysosome; endosome to melanosome transport) alongside several receptor-mediated signaling pathways (cell surface receptor signaling, Notch, VEGF, integrin signaling) and effects on cell motility. This suggests proteins that participate in endocytic trafficking that modulates multiple signaling pathways. The triglyceride catabolic process may reflect lysosomal lipid metabolism, reinforcing a lysosome/endosome theme. Overall, a label emphasizing endocytic trafficking coupled with signaling regulation fits best.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019433","count":4},{"id":"GO:1901223","count":3},{"id":"GO:0043128","count":3},{"id":"GO:2000145","count":3},{"id":"GO:1900746","count":3}]},{"hash":"203612217863665095","title":"Mitochondrial translation and ribosome biogenesis","description":"This cluster is driven by mitochondrial translation and ribosome biogenesis, with terms for mitochondrial translation, ribosome assembly, and rRNA maturation; it also features assembly of the respiratory chain and ATP synthesis, tying the translation machinery to mitochondrial energy production.","confidence":"High","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0006123","count":2},{"id":"GO:0042254","count":1},{"id":"GO:0000028","count":1},{"id":"GO:0000462","count":1}]},{"hash":"491934200315835416","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000480","count":2},{"id":"GO:0000447","count":2},{"id":"GO:0000472","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0030433","count":2}]},{"hash":"297453269877232087","title":"Multi-tissue development","description":"GO terms point to development in Sertoli cells and the male gonad, as well as eye and brain development, with additional terms touching on proliferation, cell adhesion, and immune response. The common thread is broad developmental and differentiation programs across multiple tissues rather than a single, unified pathway. Hence Multi-tissue development best captures the cluster's theme.","confidence":"Medium","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060009","count":1},{"id":"GO:0033629","count":1},{"id":"GO:0008344","count":1},{"id":"GO:0009743","count":1},{"id":"GO:0008584","count":1}]},{"hash":"796061354999849580","title":"Cadherin-mediated adhesion and actin remodeling","description":"This cluster is dominated by cell-cell adhesion via cadherins and actin-related processes (actin cortical patch assembly, vesicle transport along actin, plasma membrane tubulation), suggesting a core theme of cadherin-based adhesion coordinated with cytoskeletal remodeling and membrane dynamics. Supporting GO terms for EGFR and cytokine signaling may reflect downstream modulation of adhesion and remodeling rather than independent pathways, reinforcing a cohesive function in junction maintenance and membrane trafficking.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044331","count":3},{"id":"GO:0042058","count":2},{"id":"GO:0097320","count":2},{"id":"GO:0051044","count":2},{"id":"GO:0070102","count":2}]},{"hash":"495737872469897415","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":10,"triangles":4,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006283","count":4},{"id":"GO:0016441","count":3},{"id":"GO:0090394","count":3},{"id":"GO:0071042","count":3},{"id":"GO:1990416","count":3}]},{"hash":"314630974533352443","title":"Neurotransmitter Release and SNARE Regulation","description":"This cluster centers on exocytosis and vesicle fusion: SNARE complex assembly; regulation of synaptic vesicle priming; exocytic insertion of neurotransmitter receptors; spontaneous neurotransmitter secretion; and norepinephrine release. Supporting terms include eosinophil degranulation and acrosome reaction, which are also vesicle fusion events, while Golgi organization relates to trafficking preceding secretion. Taken together, the proteins likely participate in the machinery and regulation of neurotransmitter release.","confidence":"High","size":9,"edges":6,"triangles":0,"max_degree":4,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:1903358","count":5},{"id":"GO:0098967","count":4},{"id":"GO:0007340","count":4},{"id":"GO:0035493","count":4},{"id":"GO:0010701","count":4}]},{"hash":"2063185110834447441","title":"GPCR signaling in development and cardiovascular regulation","description":"This cluster co-locates GO terms for prostaglandin response (a GPCR-driven pathway), heart development, GPCR internalization, and positive regulation of vasoconstriction, along with cell spreading related to adhesion. Together, they point to a coherent theme of GPCR-mediated signaling influencing developmental processes and cardiovascular functions. Some terms are more peripheral to this theme (e.g., embryonic morphogenesis in other contexts or gamete interactions), but the core connection appears to be GPCR signaling in development and heart/vessel physiology.","confidence":"Medium","size":9,"edges":11,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071380","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0002031","count":2},{"id":"GO:0045907","count":2},{"id":"GO:1900026","count":2}]},{"hash":"457751204840736342","title":"Neuronal excitability and sensory modulation","description":"This cluster centers on neural signaling and sensory processing: terms for amphetamine response, regulation of pain perception, prepulse inhibition, and negative regulation of glutamatergic synaptic transmission, plus sodium/potassium ion transport, all pointing to neuronal excitability and sensory modulation. A few terms appear as noise (e.g., plant meristem transition, ubiquitination), but the dominant theme is neural signaling and sensory regulation.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001975","count":2},{"id":"GO:0051930","count":2},{"id":"GO:0051967","count":2},{"id":"GO:0060134","count":2},{"id":"GO:0035725","count":2}]},{"hash":"877537432870483337","title":"Cross-tissue differentiation and hormone signaling","description":"This cluster centers on developmental differentiation and morphogenesis across multiple tissues (astrocytes, endothelial/heart structures, muscle, Malpighian tubules, brain boundaries) and includes hormonal influences (estradiol) and chemical regulation of heart rate. The varied GO terms point to broad developmental programs and hormone responsiveness rather than a single cohesive pathway, justifying a label that emphasizes differentiation across tissues and hormonal signaling.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048712","count":9},{"id":"GO:2001038","count":9},{"id":"GO:0003062","count":7},{"id":"GO:0042634","count":7},{"id":"GO:0060842","count":7}]},{"hash":"1080753736356948733","title":"Inflammatory mediator production and immune tolerance","description":"The top GO terms emphasize inflammatory signaling (production of molecular mediators, chemokine production) and immune tolerance (central tolerance induction to self antigen), suggesting an immune-regulatory cluster. Some metabolism/epigenetic terms are present but less central, so the core theme is immune inflammation with tolerance. ","confidence":"Medium","size":9,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002532","count":1},{"id":"GO:0090197","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0006032","count":1},{"id":"GO:2000791","count":1}]},{"hash":"50264538169804399","title":"DNA replication and cell cycle","description":"Most top GO terms point to genome duplication and cell division processes (DNA replication, cell cycle, sister chromatid cohesion, transcription related to DNA processing), suggesting the cluster functions in DNA replication and cell cycle control. A few terms about temperature/pain stress imply possible annotation noise or additional roles but do not negate the core theme. ","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071502","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0002024","count":2},{"id":"GO:0006368","count":1},{"id":"GO:0048096","count":1}]},{"hash":"1148506112482095975","title":"Multitissue development and morphogenesis","description":"This cluster centers on developmental processes and morphogenesis across multiple tissues, evidenced by GO terms for thymus epithelium morphogenesis, soft palate and axial mesoderm development, ureteric bud branching, trabecular meshwork development, and oocyte growth, with additional transcription regulation and cytokine/TGF-beta related terms. The common theme is broad developmental regulation rather than a single pathway, spanning several tissues. ","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097536","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0060023","count":2},{"id":"GO:0060678","count":2},{"id":"GO:0048318","count":2}]},{"hash":"1247349331615152338","title":"ECM Remodeling in Development","description":"Top terms center on extracellular matrix organization and secretion, cell-substrate adhesion, ECM signaling, and development-related processes (bone, limb, trachea, otic vesicle) with ascorbate-related collagen synthesis, suggesting this cluster is about ECM remodeling driving organogenesis.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010811","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0030198","count":2},{"id":"GO:0007165","count":2},{"id":"GO:0070278","count":2}]},{"hash":"893406150851968267","title":"Ribosome Biogenesis and Translation Initiation","description":"The top GO terms cluster around maturation of LSU/5.8S rRNA, ribosome biogenesis, and formation of the translation preinitiation complex, with regulation of translational initiation and cell division, pointing to a module involved in ribosome assembly and initiating protein synthesis. Some terms like chromatin organization or collagen catabolic process appear less central and may reflect broader multifunctionality or annotation noise.","confidence":"High","size":9,"edges":34,"triangles":71,"max_degree":8,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0035551","count":3},{"id":"GO:0034724","count":3},{"id":"GO:0034396","count":3}]},{"hash":"512713704440821665","title":"Pseudouridine Synthesis Enzymes","description":"The top GO terms are centered on RNA modification, specifically enzyme-directed rRNA pseudouridine synthesis and tRNA pseudouridine synthesis, which provides a cohesive functional theme for the cluster. While there are a few neural-development terms present, the strongest and most frequent signal is the RNA modification activity, suggesting these proteins collectively relate to pseudouridylation processes. The presence of additional, less-connected terms may reflect multifunctionality or dataset noise, but the core shared function is RNA pseudouridylation.","confidence":"Medium","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000455","count":1},{"id":"GO:0031119","count":1},{"id":"GO:0010976","count":1},{"id":"GO:0045648","count":1},{"id":"GO:0051572","count":1}]},{"hash":"796056866466648514","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0006526","count":3},{"id":"GO:0071555","count":2}]},{"hash":"2076083098115013528","title":"Unknown","description":"The terms are highly diverse, including DNA recombination, collagen fibril organization, cell migration, mechanical response, and virology-related processes (viral penetration, proviral latency, symbiont-induced apoptosis). There is no single clear function tying all nine proteins together, and the lack of edges supports an ambiguous, heterogeneous set. Confidence: None","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0014068","count":2},{"id":"GO:0014912","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0010596","count":2}]},{"hash":"1835617575677973090","title":"Nematode development and molting processes","description":"The top GO terms cluster around nematode-specific development and reproduction, including maternal axis specification in oocytes, embryonic morphogenesis, molting and cuticle formation, and processes like polyspermy prevention and pharyngeal pumping. A couple of transport terms (aspartate and oxalate) appear but are less central. Together, they point to a cohesive theme of nematode development, reproduction, and cuticle/molt biology.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":2},{"id":"GO:2000360","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0043050","count":2},{"id":"GO:0035124","count":2}]},{"hash":"668680177862821847","title":"Unknown","description":"The GO terms cover diverse processes (thyroid hormone and glycogen metabolism, vascular and lung development, cytoskeleton/myosin assembly, astrocyte activation, cardiac hypertrophy signaling, nuclear import, kinase regulation, and even drug response), with no evident single shared function or pathway linking the proteins. The lack of edges also suggests a heterogeneous cluster, so a cohesive label isn\u2019t justifiable.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042403","count":3},{"id":"GO:0005980","count":2},{"id":"GO:0001569","count":2},{"id":"GO:0031036","count":2},{"id":"GO:0060487","count":2}]},{"hash":"1069013397583345827","title":"N-terminal protein acetylation","description":"The dominant terms are various N-terminal acetylation events (peptidyl-lysine N6-acetylation, N-terminal serine/glutamic acid acetylation, propionylation), pointing to a cohesive theme of protein acetylation at the N-terminus. Additional items reference related acetylation processes (putrescine/spermine acetylation) and acetylation-associated metabolism (N-acetylglucosamine pathways). The presence of angiogenesis hints at broader, acetylation-linked regulatory roles but the core signal is N-terminal acetylation.","confidence":"High","size":9,"edges":18,"triangles":23,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":5},{"id":"GO:0017198","count":4},{"id":"GO:0046208","count":4},{"id":"GO:0006041","count":4},{"id":"GO:0061606","count":4}]},{"hash":"1824554626058398814","title":"Diverse substrate transmembrane transporters","description":"Based on the top GO terms, every item is a transmembrane transport process for a wide range of substrates (ions, sugars, vitamins, nitrite/nitrate, xenobiotics, etc.), suggesting these proteins function collectively as membrane transporters with broad specificity rather than a single substrate class.","confidence":"High","size":9,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":9},{"id":"GO:0035461","count":9},{"id":"GO:1900754","count":9},{"id":"GO:0015757","count":9},{"id":"GO:0015751","count":9}]},{"hash":"642633247867117256","title":"Unknown","description":"These GO terms cover plant hormone signaling (abscisic acid) and seed dormancy alongside animal processes (angiogenesis, renin-angiotensin regulation, leukotriene synthesis, adaptive immunity, development), with no shared biological theme across all proteins, so no coherent cluster label can be assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010231","count":1},{"id":"GO:0009789","count":1},{"id":"GO:0009738","count":1},{"id":"GO:0001525","count":1},{"id":"GO:0003081","count":1}]},{"hash":"1291428363328604012","title":"Neurodevelopment and Innate Immunity","description":"The proteins show enrichment for neural development terms (multicellular organism development, neural tube closure, olfactory learning, labyrinthine layer blood vessel development) alongside innate immune signals (innate immune response, cellular response to lipopolysaccharide, prostaglandin E stimulus). This suggests a cluster of proteins involved in neuronal development with concurrent immune-related functions, with amyloid-beta metabolism adding a neural context. The combination is plausible but not tightly cohesive, so a cautious Medium confidence.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050435","count":2},{"id":"GO:0043433","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0034446","count":2},{"id":"GO:0071222","count":2}]},{"hash":"1035544731928087854","title":"Ubiquitin-mediated control of signaling, transcription, and apoptosis","description":"The top GO terms show a strong emphasis on ubiquitin-dependent processes (polyubiquitination, ubiquitin-dependent proteolysis, ERAD), alongside regulation of signaling pathways (TLR signaling, NF-kappaB-related transcription) and cell fate decisions (apoptotic and necroptotic processes) as well as transcriptional regulation. This suggests a cohesive module where ubiquitin-mediated protein turnover intersects with signaling and transcription to finely regulate apoptosis and immune responses.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0034121","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0060544","count":3}]},{"hash":"116816557891596868","title":"Developmental Differentiation and Angiogenesis","description":"The top GO terms point to development and tissue formation\u2014cell differentiation, morphogenesis, multicellular organism development, and angiogenesis (including its positive regulation). DNA-templated transcription and Rho signaling further support coordinated gene expression and cytoskeletal changes during development, while cholesterol biosynthesis and learning-related terms are less central. Overall, the cluster is best represented as a developmental and angiogenic program.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030154","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0000902","count":2}]},{"hash":"768138005323952681","title":"Phenylpropanoid and lignan biosynthesis with transcriptional regulation","description":"The terms strongly point to plant secondary metabolism, especially phenylpropanoid pathways and lignan biosynthesis (lariciresinol, pinoresinol) and anthocyanin biosynthesis, with accompanying transcription-related terms suggesting regulation of these pathways. Some miscellaneous terms (oxidation-reduction, colanic acid biosynthesis) are less coherent but do not override the dominant phenotype of phenylpropanoid/lignan production and its transcriptional control.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0009699","count":1},{"id":"GO:0009718","count":1},{"id":"GO:0001081","count":1},{"id":"GO:1902129","count":1}]},{"hash":"1032759940815702195","title":"Redox homeostasis and calcium-regulated growth signaling","description":"The top GO terms split between oxidative stress/ detoxification and mitochondrial regulation (oxidant detoxification, redox homeostasis, mitochondrial membrane potential), with additional terms tied to toxin catabolism and cell growth regulation. The presence of calcium-related signaling linked to muscle contraction and osteoblast differentiation suggests a theme where redox balance intersects with calcium-driven growth and differentiation processes, across muscle and bone contexts. Therefore, labeling as redox maintenance coupled with calcium-regulated growth captures the core functional cluster.","confidence":"Medium","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":7},{"id":"GO:0098869","count":7},{"id":"GO:0045669","count":6},{"id":"GO:0009636","count":6},{"id":"GO:0051726","count":6}]},{"hash":"2070740969175970095","title":"GPCR Signaling and Phototransduction","description":"The top GO terms cluster around GPCR-mediated signaling: dopamine and adrenergic receptor pathways activating adenylate cyclase or PLC, plus downstream GTPase activity regulation and G protein heterotrimerization. The presence of phototransduction and blue light response terms suggests GPCR-based sensory signaling as well. Heart development as a GO term hints at GPCR roles in cardiac signaling, reinforcing a cohesive theme of GPCR-driven signal transduction and its downstream pathways. ","confidence":"High","size":8,"edges":26,"triangles":45,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007191","count":6},{"id":"GO:0060158","count":6},{"id":"GO:0071880","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0007507","count":6}]},{"hash":"1791607586199106424","title":"Central carbon metabolism and fatty acid biosynthesis","description":"The proteins are enriched for core energy and carbon-flow pathways (TCA cycle, glycolysis, pyruvate decarboxylation to acetyl-CoA) and lipid biosynthesis (malonyl-CoA and long-chain fatty acid biosynthesis), indicating a theme of central metabolism feeding fatty acid production; other terms like pyrimidine metabolism and starvation response may reflect broader metabolic state but do not override the central carbon/lipid focus.","confidence":"High","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:2001295","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0042759","count":3},{"id":"GO:0006552","count":2}]},{"hash":"812850984238413893","title":"MAPK/JNK Signaling and Development","description":"The proteins in this cluster are strongly associated with JNK/MAPK signaling (JNK cascade and activation) and related signal transduction pathways (also including PI3K/AKT signaling). The presence of terms tied to development (neuron and thymus development) suggests these signaling components influence developmental processes, and endosome transport hints at regulation via vesicle trafficking in signaling. Altogether, the most coherent high-level theme is MAPK/JNK signaling components involved in development.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0043491","count":8},{"id":"GO:0070671","count":8},{"id":"GO:0007257","count":8},{"id":"GO:2000641","count":8},{"id":"GO:0033138","count":8}]},{"hash":"1022275688094528449","title":"Lymphocyte development and cytokine signaling","description":"Top GO terms indicate NK T cell differentiation, B cell maturation, hemopoiesis, and cytokine responses (IL-7, IL-4, GM-CSF) with linked PI3K/AKT signaling and GPCR pathway modulation, pointing to immune cell development and cytokine-driven signaling as the common theme among the cluster.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":3},{"id":"GO:0001865","count":3},{"id":"GO:0098761","count":3},{"id":"GO:0002344","count":3},{"id":"GO:0030097","count":3}]},{"hash":"615306574901246645","title":"Cell Growth and Division Machinery","description":"The top GO terms are dominated by ribosome biogenesis, DNA replication, and cell division, which point to a cluster of proteins involved in growth and genome duplication. Additional terms relate to growth signaling (JNK, PI3K/AKT) and intracellular trafficking, but these appear secondary to the core replication/biogenesis functions. Overall, the cluster seems best described as components of the cell growth and division apparatus.","confidence":"Medium","size":8,"edges":25,"triangles":40,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0046330","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0043491","count":1}]},{"hash":"373950923588057449","title":"Unknown","description":"The GO terms are highly diverse, spanning lipid metabolism (prostaglandin biosynthesis, omega-oxidation), environmental responses (ozone, nematode, insecticide metabolism), and development in various tissues (mammary/gland development, tongue muscle differentiation), with no clear shared function tying the proteins together. This makes it difficult to assign a single coherent biological role to the cluster.","confidence":"","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":6},{"id":"GO:0010193","count":5},{"id":"GO:0010268","count":5},{"id":"GO:0010760","count":5},{"id":"GO:0010430","count":5}]},{"hash":"970842759522796437","title":"Aminoacyl-tRNA Synthetases & Translation Fidelity","description":"The cluster is enriched for GO terms tied to translation and tRNA charging (multiple aminoacyl-tRNA synthetases for Gln, Leu, Met, Ile, Val), plus tRNA modification and regulation of translational fidelity, with an additional note on protein repair. This points to a cohesive group of proteins involved in charging tRNAs and ensuring accurate protein synthesis, sometimes with quality control.","confidence":"High","size":8,"edges":23,"triangles":31,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006425","count":1},{"id":"GO:0006424","count":1},{"id":"GO:0006400","count":1},{"id":"GO:0006450","count":1}]},{"hash":"735312981295356815","title":"Cell division and cytoskeletal assembly","description":"The cluster is dominated by GO terms related to cell division and cytoskeletal organization: FtsZ-dependent cytokinesis, mitotic spindle midzone assembly, microtubule nucleation, cell division, and cell septum assembly. These point to core machinery that drives cytokinesis and cytoskeleton-driven processes. A few terms (neuron differentiation, mechanosensory behavior, and oxidant detoxification) appear unrelated or cross-domain noise, but they do not override the central division/cytoskeleton theme.","confidence":"Medium","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0098869","count":2},{"id":"GO:1905792","count":2},{"id":"GO:0043093","count":2},{"id":"GO:0030182","count":2}]},{"hash":"1266903701601476430","title":"Unknown","description":"The Top Terms span very different biological contexts: fungal lipid pathways (unsaturated fatty acid biosynthesis, ergosterol-related processes) alongside mammalian neural and skin differentiation terms, plus general stress responses and inheritance. With only a few lipid-related terms and no clear shared process or component across the eight proteins, there's no cohesive functional theme tying the cluster together. Therefore the label Unknown best reflects the data.","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006809","count":1},{"id":"GO:0006636","count":1},{"id":"GO:0006675","count":1},{"id":"GO:0001949","count":1},{"id":"GO:0032443","count":1}]},{"hash":"707940357806701128","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":27,"triangles":50,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0042254","count":3},{"id":"GO:1900745","count":1},{"id":"GO:0000470","count":1},{"id":"GO:0000185","count":1}]},{"hash":"507438577690814292","title":"Neddylation and Ubiquitin-Proteasome Degradation","description":"The proteins are dominated by processes linked to ubiquitination and proteasomal degradation (neddylation, ERAD, nucleus-associated proteasomal catabolism, N-end rule pathway) and by cell-cycle functions (cell division, spindle checkpoint), with ancillary signals related to NF-kappaB/IL-1. This suggests a cohesive module governing proteostasis and cell-cycle regulation via ubiquitin pathways.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0045116","count":8},{"id":"GO:0051092","count":8},{"id":"GO:0071629","count":8},{"id":"GO:0051301","count":8},{"id":"GO:1901044","count":8}]},{"hash":"952273218858295510","title":"Vertebrate embryogenesis and organogenesis","description":"The GO terms show a shared theme of vertebrate developmental processes, including somitogenesis regulation, somite specification, brain and eye development (forebrain, embryonic eye morphogenesis), heart tube left/right patterning, and left-right axis specification, with Hedgehog signaling involvement. Blood coagulation appears but is not central to the cluster\u2019s function, so the label reflects embryonic development and organ formation.","confidence":"High","size":8,"edges":5,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0014807","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043010","count":4},{"id":"GO:0001757","count":4},{"id":"GO:0060971","count":4}]},{"hash":"166635714992128268","title":"Neurotransmitter secretion and synaptic vesicle exocytosis","description":"The top GO terms cluster around neuronal secretory processes: synaptic vesicle exocytosis, neurotransmitter transport, and regulation of neurotransmitter secretion, with an emphasis on synaptic plasticity. A few terms about insulin secretion and vascular or muscle development appear as outliers but do not define the core theme. This supports labeling the cluster as focused on neuronal secretion and synaptic transmission.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031915","count":1},{"id":"GO:0016079","count":1},{"id":"GO:0006836","count":1},{"id":"GO:0046928","count":1},{"id":"GO:0030073","count":1}]},{"hash":"286328137656027832","title":"Actin Cytoskeleton Dynamics and Vesicle Trafficking","description":"Most of the top terms describe actin-related activities: actin cortical patch assembly, mitotic cytokinesis, vacuole inheritance (vacuole transport relies on actin), and regulation of endocytosis, with calcium signaling implicated in actin dynamics. The mentions of skeletal muscle fiber development and thin filament assembly reflect actin filament organization in muscle. Together these terms point to a coherent theme of actin cytoskeleton remodeling coupled to vesicle trafficking and membrane dynamics during cell division and muscle-related filament assembly.","confidence":"High","size":8,"edges":7,"triangles":3,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000011","count":2},{"id":"GO:0000281","count":2},{"id":"GO:0009825","count":1},{"id":"GO:0000147","count":1},{"id":"GO:0048741","count":1}]},{"hash":"2261011184824818609","title":"Heavy-metal stress and proteostasis","description":"Based on the top GO terms, many entries point to cellular responses to heavy metal ions (cadmium, lead) and to protein homeostasis via ubiquitin-proteasome\u2013dependent degradation and the unfolded protein response. Although some terms like photosynthesis and retinal development seem unrelated and could reflect annotation noise, the dominant signals convergently highlight stress response and proteostasis under metal exposure.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0071276","count":4},{"id":"GO:0031146","count":3},{"id":"GO:0051348","count":3},{"id":"GO:0015979","count":3},{"id":"GO:0060296","count":3}]},{"hash":"2156836914630654936","title":"Proteostasis and mitophagy","description":"The dominant GO terms point to ubiquitin-dependent protein degradation, autoubiquitination, aggresome formation, mitophagy, and regulation of mitochondrial fusion, all core elements of cellular proteostasis and mitochondrial quality control, especially under stress and toxic conditions. This clustering suggests a module focused on managing damaged proteins and mitochondria via ubiquitin-proteasome and autophagy pathways in response to stress. ","confidence":"High","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903378","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0010637","count":3},{"id":"GO:0070842","count":3},{"id":"GO:0000423","count":3}]},{"hash":"2090684194667255513","title":"Neural development and synaptic organization","description":"Most represented terms point to nervous system processes (axon guidance, maintenance of presynaptic active zone structure, oligodendrocyte differentiation) and intercellular communication via exosomes, suggesting the proteins collaborate in neural development and synaptic organization. A few terms are non-neural, indicating broader roles; however, the neural-related terms dominate the cluster signal. ","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:1903206","count":1},{"id":"GO:0033138","count":1},{"id":"GO:0007411","count":1},{"id":"GO:0043652","count":1}]},{"hash":"1486311002655937488","title":"Oocyte meiosis and spindle assembly","description":"The top terms point to ubiquitin-proteasome\u2013mediated protein degradation and meiotic/oocyte-specific processes such as spindle assembly in female meiosis I, oocyte maturation, and microtubule polymerization. Although some developmental terms appear, the strongest signal is meiosis/oocyte maturation with associated cytoskeletal dynamics and protein turnover, justifying this label.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0007057","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0006516","count":4},{"id":"GO:0001556","count":4}]},{"hash":"762039254876150321","title":"Translational Regulation & Ribosome Biogenesis","description":"The cluster is dominated by GO terms for regulating translation initiation, formation of the translation preinitiation complex, cytoplasmic translation, and maturation of SSU rRNA, indicating a core theme around translation machinery and ribosome assembly. A few peripheral terms (transport, coagulation, endocytosis) are present but less representative.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006446","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0015701","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0002181","count":1}]},{"hash":"1290640671681845677","title":"Calcium-driven nociception and inflammatory signaling","description":"This cluster centers on calcium release into the cytosol, mechanical pain detection, and pain response, with accompanying immune-related terms such as regulation of interleukin-12 and chemokine production. While some GO terms are broader, the convergence on calcium signaling and nociceptive/immune modulation suggests a module focused on calcium-mediated pain signaling linked to inflammatory responses. ","confidence":"Medium","size":8,"edges":24,"triangles":34,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0051209","count":2},{"id":"GO:0044707","count":1},{"id":"GO:1904355","count":1},{"id":"GO:0006397","count":1},{"id":"GO:0045083","count":1}]},{"hash":"1345850637644579411","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":6},{"id":"GO:0016441","count":5},{"id":"GO:0090394","count":5},{"id":"GO:0071042","count":5}]},{"hash":"2083593766712604359","title":"Neural development and myelination signaling","description":"The GO terms cluster around brain development and myelination (corpus callosum development, myelination, synapse assembly) with accompanying signaling pathways (RTK signaling, PI3K/AKT, Smoothened). These collectively point to neural development and oligodendrocyte-mediated myelination, with some ECM involvement via collagen organization, but the dominant theme is neural development-related signaling. ","confidence":"High","size":8,"edges":18,"triangles":9,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":3},{"id":"GO:0042552","count":3},{"id":"GO:0022038","count":3},{"id":"GO:0007169","count":3},{"id":"GO:0051965","count":3}]},{"hash":"434181045614944677","title":"Developmental signaling and cell proliferation regulation","description":"Top terms indicate coordinated signaling control (kinase and GTPase activity) with developmental and proliferative processes (development, cell population growth, and the mitotic cell cycle), supported by skin development and hypoxia response terms. This suggests proteins involved in developmental signaling pathways governing proliferation and maturation across tissues.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071902","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0008284","count":4},{"id":"GO:0000278","count":4}]},{"hash":"2278874154775562516","title":"Embryonic Development and Patterning","description":"The top GO terms cluster around early development and tissue patterning, with Wnt signaling, left-right pattern formation, and endocardial cushion EMT pointing to embryogenesis and organogenesis, while other terms reflect broader developmental programs across nervous, endocrine, and pancreatic lineages. This suggests a developmental-wide theme rather than a single tissue-specific function.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:1903142","count":2},{"id":"GO:0007399","count":2},{"id":"GO:2000312","count":2},{"id":"GO:0003323","count":1}]},{"hash":"2254982631536189510","title":"Glutathione metabolism and leukotriene biosynthesis","description":"This cluster shows glutathione biosynthesis and catabolism alongside leukotriene D4 biosynthesis, with a single proteolysis term. The combination suggests redox/antioxidant metabolism coupled with inflammatory lipid mediator production, rather than a tightly cohesive single pathway. Confidence: Medium","confidence":"","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1901750","count":1},{"id":"GO:0006751","count":1},{"id":"GO:0006750","count":1},{"id":"GO:0006508","count":1}]},{"hash":"2164683584011416469","title":"Cardiac and Visual GPCR Signaling","description":"The top GO terms point to G protein-coupled receptor signaling, including opsin-mediated signaling and visual perception, as well as downstream cAMP/adenylate cyclase activation and calcium release, all tied to protein phosphorylation. Simultaneously, several terms reference cardiac functions\u2014regulation of cardiac muscle contraction and heart development\u2014suggesting a shared GPCR-calcium-cAMP signaling theme that impacts both heart and sensory (retinal) pathways. The cluster appears to group proteins involved in GPCR-driven signaling cascades affecting calcium dynamics and phosphorylation in cardiac and visual contexts. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001975","count":4},{"id":"GO:0055117","count":4},{"id":"GO:0022400","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0008284","count":4}]},{"hash":"2106037330364525166","title":"Retroviral DNA integration and proviral latency","description":"The GO terms show strong signals for viral genome integration into the host (DNA integration, DNA recombination, RNA-templated DNA biosynthetic process, DNA replication) and for establishing proviral latency, which collectively point to retroviral-like genome integration and maintenance within the host. While there are also signals of host\u2013symbiont interactions (symbiont entry, symbiont-mediated apoptosis) that may reflect ancillary relationships, the core theme is proviral integration and latency. High","confidence":"","size":8,"edges":5,"triangles":2,"max_degree":3,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0015074","count":4},{"id":"GO:0006310","count":4},{"id":"GO:0075732","count":2},{"id":"GO:0075713","count":2},{"id":"GO:0039651","count":2}]},{"hash":"1539259940572667936","title":"Ribosome biogenesis and ER stress response","description":"The cluster is enriched for translation and ribosome-related terms (GO:0006412; GO:0042273) and ER stress/unfolded protein response terms (GO:0006986; GO:0036494; GO:0070843), plus protein targeting and export processes, suggesting a cohesive function in ribosome assembly, protein synthesis, and quality control during ER stress.","confidence":"High","size":8,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0042273","count":3},{"id":"GO:0031204","count":1},{"id":"GO:0045454","count":1},{"id":"GO:1900035","count":1}]},{"hash":"85570100976911425","title":"Tissue morphogenesis and vascular development","description":"The top terms point to development and differentiation across tissues, especially angiogenesis and blood vessel morphogenesis, plus ossification (bone maturation) and organ-specific differentiation (lung epithelia, astrocytes) with cytoskeletal remodeling (myosin II assembly). These together suggest a theme of tissue morphogenesis and vascular/skeletal development, with signaling regulation evident from kinase activity terms.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097274","count":3},{"id":"GO:0043931","count":3},{"id":"GO:0006469","count":3},{"id":"GO:0032516","count":3},{"id":"GO:0001525","count":3}]},{"hash":"1636189871480245139","title":"Placental labyrinth development and vascular morphogenesis","description":"This cluster is dominated by GO terms tied to placental morphogenesis, particularly labyrinthine layer development and associated blood vessel formation, with supportive signals from Wnt pathway regulation. While general processes like DNA-templated transcription and cell cycle activity appear, the placenta-related terms provide a coherent theme around placental labyrinth formation and vascularization. A few terms about fungal growth or invasive growth may be annotation noise, but the primary function theme remains placental development and vascular morphogenesis.","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0001890","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0060711","count":2}]},{"hash":"2106379065294042071","title":"Integrin-mediated adhesion in development","description":"The cluster centers on integrin-mediated signaling and cell-cell adhesion, with associated processes like neuron migration, myelination, mesodermal differentiation, and various tissue development, suggesting a cohesive role in integrin-based adhesion/signaling guiding developmental events across tissues.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0097477","count":4},{"id":"GO:0070527","count":4},{"id":"GO:0048333","count":4},{"id":"GO:0007229","count":3},{"id":"GO:0033631","count":3}]},{"hash":"1929638363388348227","title":"Vascular ECM remodeling and coagulation","description":"The top GO terms cluster around extracellular matrix remodeling and vascular interactions\u2014regulation of smooth muscle cell\u2013matrix adhesion, tissue remodeling, elastin catabolic processes, and blood coagulation\u2014with supporting signals from complement activation and development. This suggests a cohesive theme of ECM turnover and hemostatic/inflammatory processes in vascular or connective tissues. The presence of a few broader terms does not undermine the central ECM/coagulation focus.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000097","count":4},{"id":"GO:0048771","count":4},{"id":"GO:0045079","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0009791","count":4}]},{"hash":"704299611808833232","title":"Unknown","description":"The GO terms are scattered across microtubule dynamics, stress responses, development, and general cellular processes, with only single-term representation and no interconnections (no edges, no triangles). This lack of a shared function makes it impossible to assign a meaningful, cohesive label.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001578","count":1},{"id":"GO:0046785","count":1},{"id":"GO:0071243","count":1},{"id":"GO:0071218","count":1},{"id":"GO:0048745","count":1}]},{"hash":"229795487039431707","title":"Unknown","description":"Unknown","confidence":"","size":8,"edges":22,"triangles":29,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0033129","count":2},{"id":"GO:0070935","count":2},{"id":"GO:0034501","count":2},{"id":"GO:0000056","count":2},{"id":"GO:0006656","count":2}]},{"hash":"289334531284428326","title":"Dopamine GPCR-cAMP signaling and vascular regulation","description":"This cluster is dominated by dopamine receptor\u2013related GPCR signaling terms that activate adenylate cyclase and raise cAMP (e.g., GO:0007191, GO:0007190, GO:0010579), with related vascular effects (blood pressure regulation, smooth muscle contraction) and dopaminergic responses (response to amphetamine). Some terms like photoreceptor light absorption and electron transport may reflect broader annotations or multifunctional proteins, but the core signal points to dopaminergic GPCR signaling governing vascular and cAMP pathways.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0007190","count":5},{"id":"GO:0050728","count":4}]},{"hash":"1946559231673084975","title":"Unknown","description":"The GO terms are extremely diverse (ribosome biogenesis, liver regeneration, flower development, chromatin localization, estrogen/ERK signaling, neural/glial differentiation, cartilage growth), giving no coherent shared function to bind these proteins into a single, interpretable cluster.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000447","count":2},{"id":"GO:0097421","count":1},{"id":"GO:0009909","count":1},{"id":"GO:1903359","count":1},{"id":"GO:0071168","count":1}]},{"hash":"1954483338366287880","title":"Neural development: migration and oligodendrocyte differentiation","description":"The cluster is enriched for terms related to neural cell migration (cerebral cortex tangential migration, lateral motor column neuron migration) and oligodendrocyte differentiation, indicating a focus on CNS development and myelination, with some peripheral extracellular matrix remodeling terms that are less central to the main theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010710","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0046085","count":2},{"id":"GO:0034113","count":2},{"id":"GO:0045124","count":2}]},{"hash":"998741980648214369","title":"Chromatin Assembly and RNA Surveillance","description":"Dominant GO terms point to nuclear processes: CENP-A containing chromatin assembly and non-stop decay of mRNA, plus protein heterotetramerization suggesting multi-subunit chromatin complexes; these indicate chromatin organization and RNA quality control rather than cytoplasmic signaling. A few terms relate to innate immunity or reproduction and appear as outliers, but the two strongest signals anchor the cluster to chromatin-related assembly and RNA surveillance.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051290","count":2},{"id":"GO:0070481","count":2},{"id":"GO:1904815","count":1},{"id":"GO:0061641","count":1},{"id":"GO:0051572","count":1}]},{"hash":"392500365973092223","title":"AGP glycosylation in root hairs and mucilage","description":"This cluster is dominated by GO terms tied to arabinogalactan protein metabolism and HRGP hydroxyproline-rich glycoprotein O-glycosylation (e.g., AGP metabolic process, O-linked glycosylation via hydroxyproline, poly-N-acetyllactosamine, Lewis a epitope). Additional terms refer to plant-specific extracellular processes such as root hair development and seed mucilage biosynthesis, indicating a cohesive theme of cell wall\u2013associated glycoproteins (AGPs/HRGPs) and their glycosylation in plant development.","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0080147","count":1},{"id":"GO:0075015","count":1},{"id":"GO:0048354","count":1},{"id":"GO:0042248","count":1},{"id":"GO:0001744","count":1}]},{"hash":"1994686840877106837","title":"Unknown","description":"The GO terms are very heterogeneous, including plant-type cell wall biogenesis, nervous system development (medulla oblongata, cranial ganglion), nuclear import, organelle inheritance, and apoptosis regulation. There is no single, coherent function that ties all members together across species, so no specific, representative label can be assigned with confidence.","confidence":"","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":6},{"id":"GO:0007050","count":6},{"id":"GO:0051211","count":5},{"id":"GO:0000011","count":5},{"id":"GO:0006607","count":5}]},{"hash":"353619283387928374","title":"Unknown","description":"The GO terms span immune signaling, protein ubiquitination regulation, vesicle trafficking, renal ion transport, developmental processes, and locomotion, with no clear common function linking all proteins. This suggests a heterogeneous cluster without a single cohesive theme, so an Unknown label is appropriate.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0031397","count":4},{"id":"GO:1900242","count":4},{"id":"GO:2000312","count":4},{"id":"GO:0070294","count":4}]},{"hash":"2012707147880087285","title":"Embryonic organogenesis and tissue morphogenesis","description":"The terms cluster around regulation of transcription during embryonic development and morphogenesis across multiple tissues and organs (heart outflow tract, cranial skeleton, cartilage, bone, pancreas, midbrain, endoderm, glia, and palate). This suggests a broad developmental gene-regulatory program guiding organogenesis, justifying the label. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0003148","count":3},{"id":"GO:0048701","count":3},{"id":"GO:0031016","count":3},{"id":"GO:0030901","count":3}]},{"hash":"814274824179963939","title":"Endomembrane trafficking and autophagy regulators","description":"The cluster centers on intracellular membrane dynamics: positive regulation of GTPase activity, ER-to-Golgi transport, endocytosis, endosome-to-Golgi transport, and autophagy. These GO terms together point to vesicle trafficking and membrane remodeling roles, with a few outliers related to development that may be incidental. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0030100","count":2},{"id":"GO:0006897","count":2},{"id":"GO:0006914","count":1}]},{"hash":"229382187543570841","title":"Cardio-Neuro-Muscle Development","description":"This cluster centers on a broad set of development-related GO terms spanning heart development, angiogenesis, myoblast fusion, axonogenesis, neural activity, and even visual system development, indicating a general organogenesis/theme across cardio, neural, and muscular systems rather than a single precise function.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0043065","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0014850","count":4}]},{"hash":"1456428750838255189","title":"Golgi- and synaptic vesicle trafficking","description":"The cluster is dominated by GO terms tied to Golgi-based transport and vesicle trafficking, including retrograde Golgi-to-ER and endosome-to-Golgi transport, Golgi inheritance, Golgi-to-vacuole transport, and anterograde/vesicle budding at presynaptic terminals. This points to a cohesive function in vesicular transport and Golgi-associated processes, with some related organismal phenotype terms likely reflecting broader roles. ","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0008344","count":3},{"id":"GO:0032436","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0042147","count":2},{"id":"GO:0016185","count":2}]},{"hash":"1469004386547793188","title":"Transcriptional Regulation and Development","description":"This cluster is driven by transcription-related GO terms (DNA-templated transcription; negative regulation of miRNA transcription) with additional development signals (neuron maturation; in utero embryonic development). While a few terms touch on immune responses or obsolete processes, the dominant pattern is regulation of gene expression tied to developmental contexts.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902894","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0032496","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0042551","count":2}]},{"hash":"2049236579869340696","title":"Ubiquitin-Proteasome Degradation and Cell Cycle Regulation","description":"The cluster is dominated by GO terms for ubiquitin tagging and proteasome-mediated protein catabolism, including SCF- and APC-dependent ubiquitination, K48-linked ubiquitination, and protein degradation, linked to cell division. Neddylation and ERAD terms support proteostasis regulation, while a few outliers like peroxisome import and viral processes are secondary. Overall, the core theme is ubiquitin-mediated proteolysis connected to cell-cycle control.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":6},{"id":"GO:0045116","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0030433","count":6},{"id":"GO:0016032","count":6}]},{"hash":"1992775963527236286","title":"Sex hormone biosynthesis and gland development","description":"The cluster shows enrichment for GO terms tied to sex hormones: testosterone biosynthetic process, androgen metabolic process, and development of sex-related glands like mammary gland development and prostate gland growth. While some plant-related terms appear (isoquinoline alkaloid metabolism, brassinosteroid homeostasis) these seem off-target; the dominant themes point to endocrine metabolism and gland development, indicating a coherent functional cluster around sex hormone production and gland morphogenesis.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0033076","count":3},{"id":"GO:0061370","count":3},{"id":"GO:0008209","count":3},{"id":"GO:0010193","count":2},{"id":"GO:0010268","count":2}]},{"hash":"1405227410393161157","title":"Unknown","description":"The GO terms are scattered across proteolysis, telomere maintenance, tRNA modification, carbamoylation, salvage pathways, and immune differentiation, with no single cohesive function linking the cluster. Thus no representative label can be assigned.","confidence":"","size":7,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":1},{"id":"GO:0000722","count":1},{"id":"GO:0072670","count":1},{"id":"GO:0046944","count":1},{"id":"GO:0019284","count":1}]},{"hash":"1175524405846051835","title":"tRNA modification and urmylation network","description":"This cluster groups proteins involved in tRNA modification pathways (wobble position uridine thiolation, and seleno-modification) and the urmylation system, all of which rely on sulfur-transfer chemistry. Molybdopterin cofactor biosynthesis also ties into sulfur chemistry, reinforcing a shared biochemical theme. Some terms like glycerol metabolism or pseudohyphal growth reflect yeast-specific context rather than core function, but the prominent connections are to RNA modification and sulfur-transfer biology.","confidence":"Medium","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0045454","count":2},{"id":"GO:0035335","count":1},{"id":"GO:0006777","count":1},{"id":"GO:2000220","count":1},{"id":"GO:0070329","count":1}]},{"hash":"1301825319337520573","title":"Cranial nerve axon guidance","description":"This cluster is dominated by GO terms for axon guidance and cranial nerve organization, including branchiomotor neuron axon guidance, semaphorin-plexin signaling in axon guidance, and trigeminal nerve structural organization, indicating a neural development/nerve-patterning function. Other terms (hormone responses and metabolism) are present but less represented. ","confidence":"High","size":7,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021785","count":3},{"id":"GO:1902287","count":3},{"id":"GO:0021637","count":3},{"id":"GO:0071372","count":2},{"id":"GO:0006695","count":2}]},{"hash":"658246349128073587","title":"Nucleotide Metabolism","description":"This cluster is dominated by GO terms related to nucleotide biosynthesis and interconversion (AMP salvage, ADP biosynthesis, CDP biosynthesis, nucleoside monophosphate phosphorylation, purine ribonucleotide interconversion, ITP metabolism), indicating a shared role in maintaining nucleotide pools. The brain and liver development terms appear as context-specific annotations and do not negate the central metabolic theme. ","confidence":"Medium","size":7,"edges":12,"triangles":8,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":4},{"id":"GO:0046705","count":3},{"id":"GO:0046939","count":3},{"id":"GO:0006172","count":3},{"id":"GO:0007420","count":3}]},{"hash":"765494309502780503","title":"Developmental Growth and Cell Proliferation","description":"The cluster is dominated by terms tied to basic growth-related processes (cell division, ribosome biogenesis, cell growth) with several developmental terms (gastrulation, skin development), suggesting a core theme around growth and developmental signaling/proliferation. Some terms are obsolete, but the overall pattern supports this interpretation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0000747","count":2},{"id":"GO:0051260","count":2}]},{"hash":"345238764355918721","title":"TCA and glyoxylate cycle with NADPH regeneration","description":"Dominated by central carbon metabolism terms: TCA cycle, glyoxylate cycle, isocitrate metabolism, and NADPH regeneration, pointing to energy production and redox balance. A few unrelated GO terms (developmental and regulatory) may reflect annotation noise, but the metabolic signals are strongest. ","confidence":"Medium","size":7,"edges":20,"triangles":30,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0019878","count":3},{"id":"GO:0009098","count":3},{"id":"GO:0006740","count":2},{"id":"GO:0006097","count":2}]},{"hash":"420125084861277251","title":"Proteasome-ubiquitin regulation and circadian control","description":"Based on the frequent GO terms, the cluster is centered on ubiquitin-dependent protein catabolic processes, including SCF-dependent proteasomal pathways, with a parallel emphasis on regulation of circadian rhythm. Additional terms point to roles in cell-cycle\u2013related remodeling and cytoskeletal dynamics (microtubule polymerization) and developmental processes (neural tube closure, oocyte maturation). The common thread is the ubiquitin\u2013proteasome system linked to timing and developmental regulation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0042752","count":4},{"id":"GO:0008285","count":4},{"id":"GO:0051436","count":4},{"id":"GO:0031146","count":3}]},{"hash":"2252913946819066640","title":"Unknown","description":"The Top Terms reveal a highly diverse set of functions, including various catabolic and metabolic processes and a sensory term, with no clear, shared biological theme across the proteins. Because there is no unifying pathway or function that ties the terms together, a cohesive cluster label cannot be confidently assigned.","confidence":"","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":2},{"id":"GO:0002047","count":1},{"id":"GO:0019740","count":1},{"id":"GO:0001302","count":1},{"id":"GO:1904524","count":1}]},{"hash":"1335505623260507487","title":"Nervous system development and maintenance","description":"The terms with the strongest signal are related to nervous system structure and function (anterograde axonal transport, peripheral nervous system myelin maintenance, retina homeostasis), suggesting a cluster of proteins involved in neural development and maintenance. Other terms touch on broader growth, stress responses, or tissue-specific development, but the neural-associated terms provide the clearest common theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001541","count":2},{"id":"GO:0008089","count":1},{"id":"GO:0006309","count":1},{"id":"GO:0046716","count":1},{"id":"GO:0001895","count":1}]},{"hash":"1490426180002270006","title":"Regulated Cell Adhesion and Signaling","description":"Proteins in this cluster are enriched in GO terms related to cell surface receptor signaling, regulation of integrin- and VEGF-mediated signaling, and cell junction assembly, as well as processes influencing cell motility and lysosome localization. This pattern points to a cohesive theme of modulating cell adhesion and signaling pathways, with some peripheral metabolic terms likely incidental. Overall, the cluster seems to group regulators of cell adhesion and receptor signaling rather than a single metabolic process.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090528","count":3},{"id":"GO:0019740","count":2},{"id":"GO:0006212","count":2},{"id":"GO:1901223","count":2},{"id":"GO:0043128","count":2}]},{"hash":"2224004554630212742","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":13,"triangles":8,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":4},{"id":"GO:0000463","count":3},{"id":"GO:0000466","count":3},{"id":"GO:0006260","count":3},{"id":"GO:0000472","count":3}]},{"hash":"2101594284606242397","title":"Hematopoiesis and Apoptosis Regulation","description":"The terms point to blood cell lineage differentiation (megakaryocyte and primitive erythrocyte differentiation) and apoptotic processes, with additional signals of transcriptional regulation and occasional metabolic/splicing functions, suggesting a coherent module tied to hematopoietic development and cell death control rather than a single biochemical pathway.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043046","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0045654","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0009106","count":2}]},{"hash":"420871130785589193","title":"Post-transcriptional mRNA processing and export","description":"GO terms show regulation of alternative splicing, translational initiation, mRNA export, polyadenylation, mRNA modification, and stress-responsive mRNA stability, which together define a post-transcriptional RNA processing and nucleocytoplasmic transport theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000381","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0006406","count":1},{"id":"GO:0051096","count":1},{"id":"GO:0016973","count":1}]},{"hash":"737563957506347050","title":"Transmembrane transport of cofactors and metals","description":"Most top GO terms describe transport of small molecules and ions across membranes (NAD and CoA transmembrane transport; manganese ion transport; iron import into mitochondrion; pyridoxal phosphate and glycine import; glycine import across plasma membrane). A related term on mitochondrial membrane permeability reinforces the membrane transport theme. A couple terms (liver regeneration, female pregnancy) are broader physiological processes that appear less directly linked, but the dominant pattern points to transmembrane transport of cofactors, vitamins, and metals.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035352","count":4},{"id":"GO:0035349","count":4},{"id":"GO:0097421","count":4},{"id":"GO:0006828","count":4},{"id":"GO:0097274","count":4}]},{"hash":"1604032751371914469","title":"Transmembrane Solute and Ion Transporters","description":"The GO terms are dominated by diverse transmembrane transport activities (e.g., L-aspartate, oxalate, chloride, bicarbonate, sulfate, and fructose transport) and regulation of membrane potential, pointing to proteins that function as transporters across membranes. Some terms touch broader physiological contexts (gastric acid secretion, sperm capacitation, sensory perception of sound) but still relate to membrane transport and ion homeostasis. Overall, the cluster seems to group membrane transporter proteins handling diverse solutes and contributing to membrane potential regulation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0089712","count":2},{"id":"GO:0019532","count":2},{"id":"GO:0042391","count":2},{"id":"GO:0001696","count":2},{"id":"GO:0048240","count":2}]},{"hash":"484579521557190518","title":"Vesicle trafficking and lysosome targeting","description":"Based on GO terms, the proteins are heavily involved in intracellular protein transport, particularly Golgi-to-lysosome and Golgi-to-endosome routes, vesicle-mediated transport, and related processes like exosomal secretion and multivesicular body sorting. This consistent set of terms suggests a coherent cluster of vesicle trafficking machinery rather than a single pathway.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006886","count":2},{"id":"GO:1903543","count":1},{"id":"GO:0090160","count":1},{"id":"GO:0045743","count":1},{"id":"GO:0045053","count":1}]},{"hash":"213864476628253823","title":"Skeletal muscle development and ubiquitin turnover","description":"The top GO terms include skeletal muscle fiber development and skeletal muscle tissue development, plus swimming, suggesting muscle-related function. Ubiquitin-related terms (ubiquitin-dependent protein catabolic process, regulation of protein ubiquitination, K33-linked ubiquitination) point to protein turnover and signaling, which are important in muscle remodeling. A few terms (circadian regulation, wybutosine biosynthetic process) appear less connected and may reflect broader cellular processes or annotation noise.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031397","count":1},{"id":"GO:2000312","count":1},{"id":"GO:0070294","count":1},{"id":"GO:0048741","count":1},{"id":"GO:0036268","count":1}]},{"hash":"333557642805376141","title":"Muscle and vascular development with differentiation signals","description":"The top GO terms center on branching in blood vessel morphogenesis, skeletal muscle fiber development, and myosin II filament assembly, with a link to cardiac muscle hypertrophy. This suggests a cohesive theme of muscle and vascular differentiation and maturation, despite a few outlier terms related to neural activity, tRNA modification, and nuclear import. Overall, the cluster most strongly reflects muscle/vasculature development and differentiation.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001569","count":2},{"id":"GO:0048741","count":2},{"id":"GO:1900242","count":2},{"id":"GO:0005980","count":1},{"id":"GO:0002098","count":1}]},{"hash":"50092273695380528","title":"Nematode development and reproduction","description":"This cluster centers on nematode-specific developmental and reproductive processes, such as nematode pharyngeal pumping, molting cycles, axis specification in oocytes, and reproductive regulation (e.g., prevention of polyspermy, sperm binding to the zona pellucida). While a few GO terms are broader or less directly tied to nematodes (like general proteolysis or embryonic morphogenesis), the prominence of nematode-related processes suggests a cohesive theme of nematode development and reproduction rather than a completely unrelated mix. Confidence: Medium","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":1},{"id":"GO:2000360","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0043050","count":1},{"id":"GO:0035124","count":1}]},{"hash":"1325009185269920679","title":"Vesicle trafficking and protein localization","description":"This cluster's most represented GO terms center on intracellular transport and membrane targeting: SRP-dependent cotranslational protein targeting to membranes, ER-to-Golgi vesicle-mediated transport, protein targeting to vacuole, apical protein localization, nuclear envelope organization, and small GTPase-mediated signal transduction. Together they point to vesicle trafficking and precise protein localization within cells. Some terms like learning, interneuron migration, and ribosomal subunit biogenesis are broader or tangential but do not negate the dominant trafficking theme. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006998","count":2},{"id":"GO:1902953","count":2},{"id":"GO:0021830","count":1},{"id":"GO:0006614","count":1},{"id":"GO:0007612","count":1}]},{"hash":"1479198663880148749","title":"Endothelial activation and angiogenesis","description":"Most terms point to vascular biology: endothelial cell activation, differentiation, and sprouting angiogenesis, with supporting involvement in blood coagulation. While there are a few outliers (metabolic or developmental terms), the vascular/endothelial cluster dominates, suggesting a shared function in endothelial dynamics and vascular remodeling.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002043","count":1},{"id":"GO:0046373","count":1},{"id":"GO:0045446","count":1},{"id":"GO:0030277","count":1},{"id":"GO:0008344","count":1}]},{"hash":"209672487600320763","title":"Viral replication and host translation","description":"The cluster centers on viral lifecycle steps (viral RNA genome replication, virion attachment, fusion with host endosome) and host RNA processing/translation activities (mRNA capping, cytoplasmic translation, RNA methylation, and rRNA maturation). This combination points to a cohesive theme of how viral processes interface with the host's RNA processing and ribosomal machinery, despite some autophagy-related terms also appearing. ","confidence":"Medium","size":7,"edges":11,"triangles":7,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0002128","count":2},{"id":"GO:0039694","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0039520","count":2},{"id":"GO:0000463","count":2}]},{"hash":"812506252335766535","title":"Cranial nerve axon guidance","description":"The cluster is dominated by GO terms related to axon guidance and cranial nerve development (semaphorin-plexin signaling, commissural neuron/axon guidance, axon extension, facial nerve organization, facioacoustic ganglion development, otic placode development), indicating a cohesive role in neural pathfinding and cranial nerve formation; a single phosphate ion transport term appears incidental.","confidence":"High","size":7,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006817","count":2},{"id":"GO:1905040","count":1},{"id":"GO:2000312","count":1},{"id":"GO:1902287","count":1},{"id":"GO:0090036","count":1}]},{"hash":"1412480050884939681","title":"Chromatin assembly and histone modification","description":"This cluster is dominated by GO terms related to chromatin organization and histone modification, including CENP-A containing chromatin assembly and negative regulation of histone methylation (H3-K4 and H3-K27). These indicate a shared function in chromatin maintenance and epigenetic regulation. The other terms (reproduction and innate immunity) are present but appear less central to the core signal, likely reflecting pleiotropy or broader annotations. ","confidence":"Medium","size":7,"edges":14,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1904815","count":3},{"id":"GO:0061641","count":3},{"id":"GO:0051572","count":3},{"id":"GO:0019731","count":3},{"id":"GO:0051290","count":3}]},{"hash":"2165698523972714912","title":"T-cell signaling with ERK and cytoskeletal regulation","description":"The cluster centers on immune signaling pathways such as T cell receptor signaling (GO:0050852) and ephrin receptor signaling, with links to ERK cascade regulation (GO:0070374) and focal adhesion dynamics (GO:0051893). This points to a coherent module of T-cell activation, MAPK signaling, and cytoskeletal/adhesion remodeling, despite some obsolete terms present in the set. ","confidence":"Medium","size":7,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":2},{"id":"GO:0048013","count":2},{"id":"GO:0051893","count":2},{"id":"GO:0050852","count":2},{"id":"GO:0043552","count":2}]},{"hash":"807292212201192533","title":"Inflammatory Response and Chemokine Production","description":"The most frequent terms point to inflammatory mediator production and chemokine synthesis and response to microbial cues (LPS, yeast), indicating innate immune/inflammatory signaling. Some metabolic terms (carbohydrate metabolism, chitin catabolism) are present but appear secondary to the immune theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0002532","count":4},{"id":"GO:0090197","count":4},{"id":"GO:0005975","count":4},{"id":"GO:0006032","count":4},{"id":"GO:0032496","count":2}]},{"hash":"87676713606989759","title":"NMJ assembly and neuroimmune signaling","description":"Terms center on synaptic assembly at the neuromuscular junction and immune/cytokine signaling, with hints of glial differentiation and secretory pathway organization, suggesting proteins involved in NMJ biology coupled to neuroimmune regulation.","confidence":"Medium","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0071346","count":2},{"id":"GO:1900041","count":2},{"id":"GO:0008582","count":2},{"id":"GO:0072616","count":2},{"id":"GO:0045687","count":2}]},{"hash":"897276353882722859","title":"Plant Hormone Biosynthesis and Fruit Ripening","description":"This cluster\u2019s GO terms cluster around biosynthesis and turnover of key plant hormones (gibberellin, ethylene, auxin) and a fruit ripening program, with supporting roles for ROS-related signaling and secondary metabolism like proanthocyanidins. The combination points to a cohesive theme of hormone-regulated fruit development and maturation.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0008284","count":2},{"id":"GO:0009686","count":1},{"id":"GO:0009693","count":1},{"id":"GO:0055114","count":1},{"id":"GO:0046244","count":1}]},{"hash":"78598204285522980","title":"Unknown","description":"The terms span immune regulation, T cell signaling, coagulation, neural signaling, and even photoreception, with no single cohesive function tying all seven proteins together. This lack of a unifying theme makes a specific, representative label unreliable.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050728","count":2},{"id":"GO:0007191","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0016038","count":2},{"id":"GO:0014829","count":2}]},{"hash":"486078976521544284","title":"Muscle development and sarcomere organization","description":"The GO terms prominently point to heart development and sarcomere organization, indicating a muscle differentiation and contractile apparatus assembly theme. Some iron metabolism and obsolete redox terms appear as noise, but the dominant signal is muscle development and sarcomeric organization.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007507","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0045214","count":2},{"id":"GO:1904231","count":1},{"id":"GO:0033214","count":1}]},{"hash":"842447513945151737","title":"Neural development and vesicle exocytosis regulation","description":"The top GO terms center on brain development, axon guidance, and regulation of synaptic vesicle exocytosis, which together point to proteins involved in neural development and synaptic transmission. While a few terms are peripheral or obsolete, the strongest signal is neuronal development with regulation of vesicle release at synapses.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":4},{"id":"GO:0010796","count":4},{"id":"GO:0031384","count":4},{"id":"GO:0010628","count":4},{"id":"GO:0055091","count":4}]},{"hash":"698995059751510495","title":"Dendritic Spine and Synapse Morphogenesis","description":"The GO terms cluster around dendrite and spine formation, synaptic protein localization and receptor clustering, and related signaling pathways (Rho, Wnt, PI3K/AKT), indicating neuronal dendrite/spine development and synapse assembly as the core theme. The presence of multiple spine/morphogenesis and synapse-related terms supports a cohesive functional label.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060997","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0035418","count":3}]},{"hash":"1969643293460571026","title":"Transmembrane Transporters for Sugars and Xenobiotics","description":"The top GO terms point to a set of proteins involved in various transmembrane transport activities, including glucose, D-glucose, D-xylose, urate, vitamin, and xenobiotic transport, suggesting a cohesive theme of diverse nutrient and xenobiotic membrane transporters. Some unrelated terms appear, but the dominant function appears to be membrane transport.","confidence":"High","size":7,"edges":17,"triangles":18,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0035461","count":7},{"id":"GO:0006855","count":7},{"id":"GO:0042891","count":7},{"id":"GO:0044381","count":6},{"id":"GO:0035725","count":6}]},{"hash":"1925902074550491062","title":"Cranial nerve axon guidance","description":"This cluster is dominated by GO terms centering on axon guidance and cranial nerve development (semaphorin-plexin signaling, branchiomotor neuron guidance, trigeminal and facial nerve organization). Several terms refer to axon extension and collateral sprouting, reinforcing a theme of neural pathfinding and wiring during cranial nerve formation. A minor outlier term about bone maturation appears, but the strongest signal is neural guidance.","confidence":"High","size":7,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1902287","count":4},{"id":"GO:0021785","count":4},{"id":"GO:0021637","count":4},{"id":"GO:0021612","count":3},{"id":"GO:0048843","count":3}]},{"hash":"707794093833236137","title":"SRP-dependent membrane targeting and Fe-S cluster assembly","description":"The cluster\u2019s strongest, most frequent GO terms are SRP-dependent cotranslational protein targeting to membrane and related post-translational targeting to membrane, together with iron-sulfur (Fe-S) cluster assembly. This points to a cohesive functional theme around delivering nascent proteins to membranes and assembling Fe-S cofactors, rather than the more scattered signals like karyogamy or apoptosis regulation, which appear less central to the core function here.","confidence":"Medium","size":6,"edges":8,"triangles":3,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000742","count":5},{"id":"GO:0090307","count":3},{"id":"GO:1902037","count":3},{"id":"GO:0006880","count":3},{"id":"GO:1903751","count":3}]},{"hash":"1886585233431558968","title":"Cyclic nucleotide signaling (cAMP/cGMP)","description":"Top terms cluster around cAMP and cGMP biosynthesis and related signaling cascades (adenylyl cyclase activation, receptor guanylyl cyclase signaling, forskolin response) and general intracellular signal transduction; this suggests a shared role in cyclic nucleotide signaling.","confidence":"Medium","size":6,"edges":6,"triangles":1,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0071880","count":3},{"id":"GO:0052565","count":3},{"id":"GO:0006182","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0070483","count":3}]},{"hash":"2233240794464989768","title":"Cell signaling and mitotic regulation","description":"The proteins show enrichment for regulation of signaling pathways (PI3K/AKT, phosphorylation), focal adhesion dynamics, kinetochore localization, and spindle separation\u2014together pointing to coordinated control of cell signaling and cell division. Immune-related terms are present but less central, suggesting the core theme is signaling coupled to mitosis and related trafficking processes.","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0051893","count":5},{"id":"GO:0034501","count":5},{"id":"GO:0045736","count":5},{"id":"GO:0043491","count":4},{"id":"GO:0070671","count":4}]},{"hash":"1105263608085724667","title":"DNA transposition and cell cycle proteins","description":"Based on the top GO terms, the cluster centers on DNA mobility (DNA integration, transposition, proviral latency) and core cell cycle processes (chromosome segregation, cell cycle), suggesting a cohesive set of proteins involved in genome dynamics that operate during cell division. Some terms like symbiont entry or signaling appear as noise, but the dominant theme is DNA rearrangement and cell-cycle coordination. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075713","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0046718","count":3},{"id":"GO:0007059","count":2},{"id":"GO:0006313","count":2}]},{"hash":"863979410759534197","title":"Fatty acid transport and metabolism","description":"Based on the top GO terms, the cluster is most enriched for fatty acid handling, including long-chain fatty acid import into the cell, fatty acid transport (medium- and long-chain), and fatty acid biosynthesis, with supporting terms like carnitine metabolism. While there are a few other metabolic processes (galactose, phenylacetate, phenylpropanoid), they are less represented, so the dominant theme appears to be lipid metabolism and transport. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046677","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0006012","count":2},{"id":"GO:0044539","count":1},{"id":"GO:0009437","count":1}]},{"hash":"1661285634867358105","title":"Developmental and Neuro-related Proteins","description":"These six proteins show GO terms centered on development across tissues\u2014nervous system, brain, kidney, and spermatogenesis\u2014suggesting a developmental/neuronal role. Additional terms for calcium-dependent exocytosis and PI3K signaling align with cellular signaling and vesicle dynamics common in developing tissues. The defense response term appears as an outlier. Overall, the cluster is best described as development- and neuro-related proteins.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0045956","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1861426618919048315","title":"Mitotic cell cycle and kinetochore localization","description":"Top terms are heavily skewed toward mitosis, including mitotic cell cycle and protein localization to the kinetochore, with additional signals related to proliferation regulation. While there are a few signaling-related terms, the dominant theme is mitotic regulation and kinetochore-associated processes, justifying this label for the cluster.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0034501","count":3},{"id":"GO:0000189","count":3},{"id":"GO:0008285","count":3},{"id":"GO:0051436","count":3}]},{"hash":"1838077313458767092","title":"Innate Immune Activation and Leukocyte Function","description":"Based on the top GO terms, this cluster is enriched for innate immune processes: leukocyte tethering/rolling, basophil activation, phagocytosis, and complement activation via the lectin pathway, as well as response to fungal origin. A few terms about vessel or kidney morphogenesis appear, but the dominant pattern is immune activation and leukocyte-mediated defense.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030512","count":2},{"id":"GO:0072287","count":2},{"id":"GO:0050901","count":2},{"id":"GO:0036303","count":2},{"id":"GO:0010572","count":2}]},{"hash":"406131889067634692","title":"Embryonic Patterning and Organ Development","description":"The top GO terms center on axis formation and body plan specification (anterior/posterior pattern specification, bilateral symmetry determination) along with neural tube and cardiac muscle development, indicating a theme of embryonic patterning and organogenesis. Metabolic terms like retinal metabolism or GABA shunt are likely tissue-specific byproducts rather than the main signal of the cluster. Thus the label captures the core function of development and organ formation represented here.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0042574","count":6},{"id":"GO:0006540","count":6},{"id":"GO:0019413","count":6},{"id":"GO:0009952","count":6},{"id":"GO:0006068","count":6}]},{"hash":"1642142757484958531","title":"Neural development and differentiation","description":"This cluster is driven by multiple neural-focused terms (neuron differentiation, motor neuron development, interneuron specification, neuron migration) and related connectivity (cell-cell junction organization), suggesting a coherent theme around nervous system development, despite some other tissue-development terms present that may reflect broader annotation. ","confidence":"Medium","size":6,"edges":11,"triangles":10,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0045216","count":4},{"id":"GO:2000768","count":4},{"id":"GO:0097477","count":4},{"id":"GO:0010735","count":4},{"id":"GO:0035847","count":4}]},{"hash":"1310871634440643247","title":"Nucleotide biosynthesis and interconversion","description":"The GO terms are dominated by nucleotide metabolism: CDP, ADP, AMP salvage, purine ribonucleotide interconversion, various phosphorylation steps, and ITP metabolism, indicating a core function in nucleotide biosynthesis and interconversion. Occasional tissue-specific terms like brain and liver development seem incidental rather than defining the cluster\u2019s role.","confidence":"Medium","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0046705","count":6},{"id":"GO:0046939","count":6},{"id":"GO:0006172","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0044209","count":6}]},{"hash":"2083935570542155932","title":"Multi-tissue Development and Differentiation","description":"The top GO terms point to a broad set of developmental and differentiation processes across multiple tissues and lineages (endocrine organs, nervous system, blood formation, gut epithelium, adipose/immune differentiation, and EMT). There is no single cohesive pathway, but a common theme of cell fate specification and organogenesis across tissues, suggesting a general developmental/differentiation cluster rather than a pathway-specific one.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:2000611","count":4},{"id":"GO:0060017","count":4},{"id":"GO:0021514","count":4},{"id":"GO:0060216","count":4},{"id":"GO:0001655","count":4}]},{"hash":"631346121674371703","title":"Oocyte meiosis and spindle assembly","description":"The dominant GO terms point to oocyte maturation, spindle assembly in female meiosis I, and microtubule polymerization, indicating a shared role in meiotic progression and spindle dynamics. Ubiquitin-proteasome\u2013mediated proteolysis also fits meiosis regulation, though a couple of neural development terms may be noise. Overall, the cluster appears tied to meiosis and spindle function in oocytes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":5},{"id":"GO:0006516","count":5},{"id":"GO:0021993","count":5},{"id":"GO:0070544","count":5},{"id":"GO:0008285","count":5}]},{"hash":"2171702268474300354","title":"T cell differentiation and signaling","description":"The top GO terms point strongly to T cell biology and signaling, including positive regulation of alpha-beta T cell differentiation, thymus development, and interleukin-12 response, along with pathways like integrin-mediated signaling and PI3K/AKT signaling. These together suggest a cluster of proteins involved in T cell activation, trafficking, and development, with supportive links to extracellular matrix interactions and intracellular signaling processes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046638","count":4},{"id":"GO:0007229","count":4},{"id":"GO:0030212","count":4},{"id":"GO:1905050","count":4},{"id":"GO:0043491","count":3}]},{"hash":"57564398185700584","title":"Chromatin-based transcription regulation","description":"The dominant terms point to epigenetic control of gene expression: rDNA heterochromatin formation, DNA-templated transcription, and regulation of miRNA transcription, along with processes linked to chromatin and protein turnover. A few terms touch on stress responses and proteostasis, but the core theme is chromatin-mediated transcription regulation.","confidence":"Medium","size":6,"edges":10,"triangles":7,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000183","count":3},{"id":"GO:1902894","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0031397","count":2},{"id":"GO:0070933","count":2}]},{"hash":"1326704058280050832","title":"Ubiquitination and Proteasome-Dependent Cell Cycle Control","description":"The cluster is dominated by terms for ubiquitin/neddylation, ubiquitin-proteasome\u2013mediated protein degradation, and cell cycle processes (cell division and spindle assembly checkpoint regulation), pointing to a coherent role in protein turnover tied to cell cycle control, despite some obsolete terms.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0045116","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0071629","count":6},{"id":"GO:0051301","count":6},{"id":"GO:1901044","count":6}]},{"hash":"61214691675658093","title":"Wnt-driven muscle growth and cytoskeletal remodeling","description":"This cluster shows enrichment for the Wnt signaling pathway together with cell cycle and cytoskeletal/adhesion processes (actin filament uncapping, focal adhesion assembly) and muscle-related growth/atrophy terms, suggesting a theme where Wnt signaling coordinates muscle cell proliferation/differentiation with cytoskeletal remodeling and adhesion dynamics. The presence of pinocytosis regulation is secondary but may relate to signaling component trafficking. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0048549","count":2},{"id":"GO:0007049","count":2},{"id":"GO:1904706","count":1},{"id":"GO:0051695","count":1}]},{"hash":"1020048629581128019","title":"Angiogenesis and PI3K/AKT signaling","description":"These proteins cluster around promoting blood vessel formation, as shown by repeated angiogenesis and positive regulation of angiogenesis terms, coupled with PI3K/AKT pathway signaling and associated cell cycle/proliferation terms. Although a few terms are obsolete, the dominant pattern points to angiogenic signaling driving endothelial cell proliferation. ","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":3},{"id":"GO:0001525","count":3},{"id":"GO:0045766","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0007049","count":3}]},{"hash":"923572751115505391","title":"Mitotic Growth and Development","description":"This cluster centers on cell division and developmental processes: GO terms for cell division, mitotic cell cycle, mitotic spindle assembly, and cell population proliferation indicate active proliferation. Additional terms\u2014multicellular organism growth, skeletal system development, lens fiber cell differentiation, and axon guidance\u2014reflect broader developmental differentiation. The vesicle trafficking terms (retrograde Golgi-to-ER transport, COPII-coated vesicle budding) likely underscore secretory pathway activity needed during growth and differentiation. Taken together, the proteins appear connected to proliferative and developmental programs with some participation of the secretory/trafficking machinery.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0006890","count":2},{"id":"GO:0090114","count":2}]},{"hash":"1946513613548589281","title":"ER Protein Targeting & Iron-Sulfur Cluster Assembly","description":"These proteins show strong signals for SRP- and cotranslational/membrane targeting to the ER, plus links to ER stress-related and oxidative stress\u2013regulated apoptotic pathways, and to iron-sulfur cluster assembly and iron sequestration. Together, this suggests a module coordinating ER protein import with Fe-S biogenesis and stress-responsive apoptosis control, rather than a single narrow function.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:1902037","count":4},{"id":"GO:0006880","count":4},{"id":"GO:1903751","count":4},{"id":"GO:1903382","count":4},{"id":"GO:0031204","count":4}]},{"hash":"2202005353282552686","title":"Transmembrane Transporters for Sugars and Nutrients","description":"This cluster is driven by transmembrane transport GO terms for glucose, D-xylose, urate, vitamins, and sodium-dependent organic cations, indicating a set of solute transporter proteins involved in nutrient uptake and metabolite transport. A couple of outlier terms related to senescence regulation and quorum sensing may be annotation noise, but do not negate the overall transport theme.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":4},{"id":"GO:0035725","count":4},{"id":"GO:1904728","count":4},{"id":"GO:0052106","count":4},{"id":"GO:1904659","count":4}]},{"hash":"594143238909777250","title":"DNA Replication and Genome Maintenance","description":"The cluster centers on DNA replication processes (fork progression and reversal, RNA primer removal, mitotic strand elongation) and genome maintenance, including telomere regulation/maintenance and mitochondrial genome maintenance, suggesting a cohesive group of proteins involved in replication fidelity and genome integrity.","confidence":"High","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0032508","count":4},{"id":"GO:0097046","count":2},{"id":"GO:1902983","count":2},{"id":"GO:0071932","count":2},{"id":"GO:0051974","count":2}]},{"hash":"364399756685093869","title":"Transmembrane Cofactor and Metal Ion Transport","description":"Based on the GO terms, this cluster centers on transmembrane transport of cofactors and metal ions (NAD, coenzyme A, pyridoxal phosphate, glycine, manganese, iron) and related mitochondrial membrane processes (including iron import into mitochondria and regulation of membrane permeability). While a couple of terms relate to broader physiological states (liver regeneration, female pregnancy), the dominant pattern is membrane-associated transport of small molecules and ions, suggesting proteins with transporter roles across membranes, particularly involving mitochondria.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035352","count":2},{"id":"GO:0035349","count":2},{"id":"GO:0097421","count":2},{"id":"GO:0006828","count":2},{"id":"GO:0097274","count":2}]},{"hash":"2014001803876931790","title":"Unknown","description":"Top terms are a mix of bacterial secretion and motility (type III secretion, flagellum-dependent motility) and various metabolic/homeostasis processes (arginine, lysine, histidine homeostasis; lipid metabolism; proton transport; ERAD/proteasome-related). Angiogenesis adds a eukaryotic process that doesn\u2019t clearly connect to the bacterial functions, making it hard to define a single cohesive theme for this cluster. Therefore, no clear common function; label Unknown with None confidence.","confidence":"","size":6,"edges":12,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":2},{"id":"GO:0090465","count":1},{"id":"GO:0015991","count":1},{"id":"GO:0006629","count":1},{"id":"GO:1902906","count":1}]},{"hash":"1802669749964307475","title":"Mitochondrial phospholipid remodeling","description":"This cluster is driven by GO terms for mitochondrial lipid biosynthesis and remodeling, especially cardiolipin and phosphatidylcholine remodeling, ether lipid biosynthesis, and the CDP-diacylglycerol pathway, alongside mitochondrial ATP production, pointing to a core theme of mitochondrial membrane lipid metabolism. Some immune signaling terms (IL-2 production, T cell activation regulation) appear but are less central to the main lipid-focused theme.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":4},{"id":"GO:0016024","count":4},{"id":"GO:0036151","count":4},{"id":"GO:2001246","count":4},{"id":"GO:0008611","count":4}]},{"hash":"1215374694329348888","title":"Neural development signaling and apoptosis","description":"This cluster centers on neural development and neuronal signaling, with GO terms like neurogenesis and synapse organization, alongside pathways such as PI3K-AKT and Hedgehog (Smoothened). The presence of apoptotic process terms and tyrosine autophosphorylation supports roles in neuron survival and signaling during maturation. Some terms reference broader developmental processes (lymphangiogenesis, nephric duct morphogenesis), but the core theme remains neural development and signaling.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":6},{"id":"GO:0006915","count":6},{"id":"GO:0043491","count":5},{"id":"GO:1901491","count":5},{"id":"GO:0007224","count":5}]},{"hash":"2040553499766543184","title":"Developmental Signaling and Differentiation","description":"The proteins enrich for signaling pathways (PI3K/AKT, MAPK, STAT tyrosine phosphorylation, adenosine receptor signaling) and tissue/organ development processes (kidney/urogenital, neuron axonogenesis, myoblast differentiation, lymphangiogenesis). This pattern suggests a general role in developmental signaling and differentiation across multiple tissues rather than a single tissue-specific function.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":5},{"id":"GO:0001655","count":5},{"id":"GO:0001822","count":5},{"id":"GO:0043408","count":5},{"id":"GO:0071372","count":5}]},{"hash":"927381667749465836","title":"Cell Wall Biosynthesis and Carbohydrate Metabolism","description":"The cluster centers on cell-wall related processes (spore wall assembly, chitin breakdown, biofilm formation) and general carbohydrate metabolism (xylan and related polysaccharides), suggesting a coherent theme of cell-wall remodeling and polysaccharide utilization. Some immune signaling terms appear as noise and do not define the main function of the cluster.","confidence":"Medium","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071353","count":2},{"id":"GO:0042244","count":1},{"id":"GO:0042710","count":1},{"id":"GO:0019428","count":1},{"id":"GO:0045493","count":1}]},{"hash":"987628910184097205","title":"Stress-Responsive RNA Processing","description":"The cluster is dominated by GO terms for mRNA splicing, stability, decay, and miRNA turnover, all central to RNA metabolism and stress response, suggesting a functional theme of stress-modulated RNA processing. Some items (neuronal development, carotene biosynthesis, host\u2013viral RNA perturbation) are peripheral noise and do not disrupt the core RNA-centric signal.","confidence":"Medium","size":6,"edges":14,"triangles":16,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010610","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0006402","count":3},{"id":"GO:0022013","count":3},{"id":"GO:2000627","count":3}]},{"hash":"717971475273881451","title":"Ubiquitin-Mediated Signaling and Apoptosis Regulation","description":"This cluster centers on ubiquitin-dependent protein degradation and various ubiquitin linkages (K6, K63, linear), including autoubiquitination, coupled with regulation of NF-kappaB and TNF signaling and apoptosis/necroptosis. The GO terms collectively highlight ubiquitin-driven control of signaling pathways and cell death, suggesting a cohesive role in protein turnover and inflammatory/apoptotic signaling.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0051865","count":3},{"id":"GO:0085020","count":3},{"id":"GO:0070534","count":3},{"id":"GO:0043123","count":3}]},{"hash":"1720723907124842132","title":"ER-Golgi trafficking and COPI vesicle secretion","description":"The top GO terms cluster around COPI-coated vesicles, Golgi ribbon formation, ER exit and protein secretion (including Wnt), and retention of proteins in the ER lumen. This points to a cohesive theme of ER-to-Golgi transport and secretory pathway regulation. Some development-related terms (placenta, axis specification) likely reflect downstream roles of secreted factors or tissue-specific contexts, reinforcing the link to secretion. ","confidence":"High","size":6,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001893","count":1},{"id":"GO:0090161","count":1},{"id":"GO:0006621","count":1},{"id":"GO:0007311","count":1},{"id":"GO:0061357","count":1}]},{"hash":"519182750117838277","title":"Neuronal vesicle trafficking and synaptic signaling","description":"Top GO terms point to vesicle transport (ER-Golgi and endosome-Golgi) and general protein transport, plus neural signaling terms (synaptic transmission, cholinergic; modulation of nerve impulse; conditioned taste aversion). The shared theme appears to be vesicle trafficking coupled to neuronal communication.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015878","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0006888","count":1},{"id":"GO:0071420","count":1}]},{"hash":"456725605854001017","title":"Neural development and axon guidance","description":"This cluster's GO terms emphasize neural development processes, including axon guidance (commissural neuron axon guidance, facial nerve organization, axon extension, semaphorin-plexin signaling) and synapse formation (positive regulation of synapse assembly). Cranial nerve/facioacoustic ganglion and otic placode terms further anchor the set to cranial nerve development. Collectively, these terms point to a cohesive function cluster centered on establishing neural connections.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":2},{"id":"GO:1905040","count":1},{"id":"GO:2000312","count":1},{"id":"GO:1902287","count":1},{"id":"GO:0090036","count":1}]},{"hash":"1051447359508917449","title":"Diverse Metabolic Biosynthesis","description":"This cluster centers on a broad mix of biosynthetic and metabolic processes (pigments, lipids, vitamins, hormones) across different kingdoms, suggesting the proteins collectively participate in diverse metabolic pathways rather than a single, cohesive function.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0009718","count":3},{"id":"GO:0042574","count":3},{"id":"GO:0002138","count":3},{"id":"GO:0030497","count":3},{"id":"GO:0046677","count":3}]},{"hash":"312985026239062656","title":"Sugar and metabolite transmembrane transporters","description":"Top GO terms are dominated by various transmembrane transport activities for sugars, vitamins, and small metabolites, indicating proteins in this cluster primarily function as solute transporters across membranes. While a couple terms are less related (e.g., replicative senescence, quorum sensing), the transport theme is strongest and coherent.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":6},{"id":"GO:0035725","count":6},{"id":"GO:1904728","count":6},{"id":"GO:0052106","count":6},{"id":"GO:1904659","count":6}]},{"hash":"1963078972107504991","title":"Retroviral DNA integration and latency","description":"The top GO terms overwhelmingly point to a retroviral life cycle: viral entry into the nucleus, integration of proviral DNA, RNA-templated DNA synthesis, DNA recombination and replication, and proviral latency. A couple terms about symbionts or host development are present but appear incidental; the strongest signal is viral genome integration and maintenance within the host genome.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075732","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0039651","count":1},{"id":"GO:1903704","count":1},{"id":"GO:0015074","count":1}]},{"hash":"1600715932458728621","title":"Unknown","description":"The top terms are a mix of chromatin modification and gene regulation (histone methylation, chromatin organization, transcription regulation), immune gene diversification (somatic hypermutation, isotype switching), and heart development (atrial/membranous septum morphogenesis), with several terms marked obsolete. There isn\u2019t a single cohesive biological theme that clearly ties these proteins together, so a specific functional label isn\u2019t avoidably ambiguous.","confidence":"","size":6,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051571","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0016446","count":2},{"id":"GO:0003290","count":2},{"id":"GO:1903758","count":2}]},{"hash":"991486514698488311","title":"Transcription Regulation and Chromatin Modification","description":"The cluster is dominated by GO terms related to DNA-templated transcription and histone/arginine methylation, pointing to regulation of gene expression through chromatin state and post-translational modifications. Additional terms about translation initiation regulation and kinase activity support a broader cellular signaling context that converges on transcriptional control, despite some broad or obsolete terms. Overall, the strongest signal is transcriptional regulation via chromatin modification.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0051567","count":2},{"id":"GO:0070208","count":1},{"id":"GO:0006446","count":1},{"id":"GO:0035246","count":1}]},{"hash":"1869896199883716451","title":"Immune Response and Signaling Regulation","description":"This cluster is enriched for GO terms related to adaptive and innate immune responses, as well as protein ubiquitination and negative regulation of protein kinase activity, which are hallmark features of immune signaling pathways. While there are developmental terms appearing (heart, bone, neuron morphogenesis), the strongest shared themes are immune response and regulation of signaling, suggesting a cluster of immune-related proteins that modulate signaling cascades via ubiquitination and kinase control.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0060348","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0006469","count":2}]},{"hash":"1163803280202454598","title":"Immune Activation and Vascular Morphogenesis","description":"The cluster\u2019s top GO terms cluster around immune cell activation and adhesion (basophil activation, leukocyte tethering/rolling, phagocytosis recognition) and vascular/lymphatic development (lymph vessel morphogenesis, metanephric distal tubule morphogenesis). Peptide processing terms like bradykinin catabolic process and insulin processing are present but are more general processing activities that accompany inflammatory contexts. Overall, the dominant theme is immune activation with supporting vascular development signals, so this label captures the central function of the cluster.","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0010815","count":2},{"id":"GO:0030070","count":2},{"id":"GO:0072287","count":2},{"id":"GO:0050901","count":2},{"id":"GO:0036303","count":2}]},{"hash":"2142530440445362080","title":"Telomere maintenance and shelterin regulation","description":"The GO terms are dominated by telomere-related processes, including establishment of protein localization to telomere, shelterin complex assembly, protection from non-homologous end joining at telomere, and telomeric D-loop disassembly, which together point to a cluster centered on telomere maintenance and shelterin activity. Some terms reference plant hormone responses and leaf senescence, but these appear peripheral to the core telomere signals and do not override the central telomere theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904850","count":1},{"id":"GO:1904792","count":1},{"id":"GO:0070933","count":1},{"id":"GO:1900056","count":1},{"id":"GO:0009739","count":1}]},{"hash":"123041557074062048","title":"Unknown","description":"The terms span multiple distinct areas (PI3K/AKT signaling, JNK cascade, IL-12 response, endosome transport, thymus and neuron development) with no clear shared function, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":1},{"id":"GO:0070671","count":1},{"id":"GO:0007257","count":1},{"id":"GO:2000641","count":1},{"id":"GO:0033138","count":1}]},{"hash":"1491903272093521782","title":"RNA Pol II Transcription Regulation and DNA Replication","description":"Top terms indicate a clear emphasis on transcription regulation by RNA polymerase II, including both positive and negative regulation, complemented by DNA replication and viral genome replication terms. A few development- and silencing-related terms exist but are less representative of the cluster. Therefore, the label captures the main theme of transcription control with a connection to replication processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":3},{"id":"GO:0000122","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0019079","count":2},{"id":"GO:2000616","count":2}]},{"hash":"1288817545919655110","title":"Muscle and vascular development with metabolic regulation","description":"The terms point to development of muscle and blood vessels (skeletal muscle fiber development, cardiac hypertrophy regulation, blood vessel branching) and related organ differentiation (lung epithelium). The additional metabolic (glycogen, mevalonate) and immune/regulatory terms suggest coordinated metabolic signaling and immune modulation during tissue development and stress responses, supporting a cohesive muscle/vascular development with metabolic regulation theme.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001569","count":5},{"id":"GO:0050728","count":5},{"id":"GO:0005977","count":5},{"id":"GO:0060487","count":5},{"id":"GO:1903244","count":5}]},{"hash":"2165423255098777557","title":"Proteasome-Dependent Degradation and ERAD","description":"GO terms center on ubiquitin-mediated degradation via the proteasome, ER-associated degradation (ERAD), autoubiquitination, and related modifications like neddylation, pointing to a protein quality control and turnover module. Despite some obsolete terms, the core theme is ubiquitin-proteasome\u2013driven protein turnover and ERAD-associated quality control.","confidence":"High","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0030433","count":5},{"id":"GO:0051865","count":5},{"id":"GO:0070911","count":5},{"id":"GO:0045116","count":4},{"id":"GO:0051092","count":4}]},{"hash":"1266093244984234557","title":"Chaperone-Mediated Protein Folding and Heat Response","description":"The cluster is dominated by GO terms about chaperone-assisted protein folding (GO:0051085, GO:0051086) and heat stress response (GO:0009408), with an additional link to mitochondrial protein import, which aligns with chaperone/cofactor roles in folding within different compartments. The other terms (immune-related and virion assembly) are less central and may reflect secondary or pleiotropic roles of the proteins in this small cluster.","confidence":"High","size":5,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0051085","count":3},{"id":"GO:1904874","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0019068","count":3},{"id":"GO:0045041","count":3}]},{"hash":"653128001505578051","title":"Unknown","description":"The GO terms span inflammation, reproductive regulation, endocrine signaling, placental and cartilage development, and neurodevelopment, with no single shared function binding the proteins, so a concise, coherent label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050728","count":4},{"id":"GO:0007621","count":4},{"id":"GO:0090187","count":4},{"id":"GO:0002154","count":4},{"id":"GO:0060534","count":4}]},{"hash":"1525514052986820829","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":2},{"id":"GO:0045348","count":2},{"id":"GO:0070901","count":1},{"id":"GO:0048235","count":1},{"id":"GO:0030036","count":1}]},{"hash":"1375092287788365299","title":"Mitochondrial dynamics and trafficking","description":"The GO terms point strongly to mitochondrial processes: mitochondrial fission, mitochondrial membrane organization, intracellular distribution of mitochondria, and mitochondrion inheritance are repeatedly represented, suggesting a core theme of mitochondrial maintenance and movement. Other terms related to vesicle trafficking and signaling (ephrin signaling, endocytic recycling, GABAergic transmission) may reflect broader cellular transport roles or tissue-specific associations but do not outweigh the mitochondrial core. Therefore, the label captures the predominant functional theme of the cluster, with some ancillary processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048013","count":2},{"id":"GO:0006623","count":2},{"id":"GO:0000266","count":2},{"id":"GO:0060047","count":2},{"id":"GO:0051932","count":2}]},{"hash":"1983484292276039854","title":"Hormone-regulated tissue differentiation","description":"The GO terms couple hormonal signaling (negative regulation of androgen receptor signaling, response to estradiol) with a broad set of differentiation and developmental processes (osteoblast, hair cycle, myotube, endothelial, heart valve development, brain morphogenesis). This suggests a theme of hormones modulating differentiation programs across tissues rather than a single pathway, hence the label.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060766","count":5},{"id":"GO:0045668","count":5},{"id":"GO:0003062","count":4},{"id":"GO:0042634","count":4},{"id":"GO:0060842","count":4}]},{"hash":"658732381000292114","title":"RNA processing and translation regulation","description":"The cluster centers on RNA biology: translational elongation and maintenance of translational fidelity, plus primary miRNA processing and regulatory ncRNA\u2013mediated post-transcriptional gene silencing, suggesting a cohesive RNA metabolism and post-transcriptional control theme. Other terms indicate stress or immune responses, but RNA processing terms are most representative. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071479","count":1},{"id":"GO:0032232","count":1},{"id":"GO:0006414","count":1},{"id":"GO:1990145","count":1},{"id":"GO:2000011","count":1}]},{"hash":"1062501693081012645","title":"Mitochondrial import and cristae maintenance","description":"The top GO terms are strongly mitochondrial: mitochondrial calcium ion homeostasis, protein import into the mitochondrial intermembrane space, and cristae formation, suggesting the cluster centers on mitochondrial biogenesis/organization. While other terms appear unrelated, the mitochondrial signals dominate, supporting a label focused on mitochondrial import and cristae maintenance.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051560","count":1},{"id":"GO:0045041","count":1},{"id":"GO:0042407","count":1},{"id":"GO:0005980","count":1},{"id":"GO:0001569","count":1}]},{"hash":"886383484325042027","title":"ER-Golgi vesicle trafficking and exocytosis regulation","description":"Most terms point to vesicle trafficking, including COPII coating regulation, ER-to-Golgi transport, and intracellular protein transport, plus regulation of synaptic vesicle exocytosis. A couple other terms touch on development or cell death, but the core theme is vesicle transport and exocytosis, supporting a cohesive cluster label.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":3},{"id":"GO:0003400","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0010796","count":3}]},{"hash":"1356901903607660232","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045216","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0048023","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0061146","count":2}]},{"hash":"237670845329366489","title":"Developmental signaling and stress-response pathways","description":"The terms point to activity in key signaling cascades (PI3K/AKT, MAPK, adenosine receptor signaling) and developmental processes across tissues (kidney, skeletal muscle, CNS axonogenesis), coupled with stress-related regulation (mRNA stability under stress and ubiquitination). This suggests a broad cluster centered on developmental signaling rather than a single tissue-specific function.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010610","count":2},{"id":"GO:0043491","count":1},{"id":"GO:0031397","count":1},{"id":"GO:0001655","count":1},{"id":"GO:0001822","count":1}]},{"hash":"982310905012908988","title":"Mitochondrial Cofactor and Metabolite Transport","description":"The top GO terms point to transport of cofactors and metabolites across membranes (NAD, CoA, PLP, glycine) and mitochondrial import (iron into mitochondrion, manganese transport), plus regulation of mitochondrial membrane permeability, suggesting a cohesive theme of intracellular metabolite/cofactor transport with a mitochondrial focus. Some terms (liver regeneration, female pregnancy) seem unrelated noise, but the dominant signal supports a transport/metabolism role.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035352","count":1},{"id":"GO:0035349","count":1},{"id":"GO:0097421","count":1},{"id":"GO:0006828","count":1},{"id":"GO:0097274","count":1}]},{"hash":"938922175538620329","title":"Unknown","description":"The GO terms span both translation-related processes (formation of translation preinitiation complex, translation reinitiation) and DNA repair (homologous recombination), plus cell proliferation/division and a few post-translational modification and assembly terms. With only five proteins and no clear single functional theme connecting these terms, there isn\u2019t a cohesive cluster function to name beyond Unknown.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":2},{"id":"GO:0000724","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0008283","count":2},{"id":"GO:0070208","count":1}]},{"hash":"1218069886640375142","title":"IFN-Cytokine Signaling and ER Organization","description":"Dominant themes are interferon-\u03b3 signaling and cytokine production (GO: cellular response to type II interferon; IL-1\u03b2 and IL-18 production; IL-2 regulation), with ER organization/fusion terms suggesting involvement of the secretory pathway. This combination points to a module coordinating immune cytokine responses with ER-associated processing, hence the name.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071346","count":1},{"id":"GO:0050702","count":1},{"id":"GO:0016320","count":1},{"id":"GO:0007029","count":1},{"id":"GO:0008582","count":1}]},{"hash":"8437280982011819","title":"Wnt-Linked Developmental Signaling","description":"The strongest GO terms point to development and signaling, notably mesoderm development and the Wnt signaling pathway, with proboscis development also aligning with developmental processes. Other terms like protein localization to the cell surface, LDL receptor metabolism, translation, and DNA repair appear more as general cellular functions and do not define the cluster, but they don\u2019t override the developmental signaling signal. Thus, the label reflects the dominant theme of Wnt-associated developmental signaling.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007498","count":1},{"id":"GO:0016055","count":1},{"id":"GO:0048728","count":1},{"id":"GO:0034394","count":1},{"id":"GO:0032799","count":1}]},{"hash":"191922522476996266","title":"Unknown","description":"There are 5 proteins with limited interaction (3 edges, 1 triangle) and no GO terms listed, so there\u2019s no evident shared function or theme to base a specific label on. Without functional terms, the cluster cannot be confidently named beyond Unknown.","confidence":"","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"641602286004455137","title":"Inflammatory Mediator Regulation","description":"The top GO terms emphasize regulation and production of inflammatory mediators and chemokines (positive and negative control), suggesting the cluster centers on inflammatory signaling modulation. Some other terms (carbohydrate metabolism, chitin catabolic process, dopamine signaling, light absorption, etc.) appear less related and may reflect noise or multi-functional annotations, but the inflammation-related terms provide the core theme. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090197","count":2},{"id":"GO:0002532","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0006032","count":1},{"id":"GO:0050728","count":1}]},{"hash":"1996825263576886169","title":"Embryonic organogenesis and muscle development","description":"The terms point to roles in embryonic tissue morphogenesis across several lineages: vascular branching, genital and placode formation, neural structures (cerebellum, rhombomere), hair follicle proliferation, and myoblast migration/differentiation, plus stem cell development. This suggests a coherent theme of embryonic organogenesis and lineage specification rather than a single, isolated pathway. The limited edges and single-term representation imply a loose cluster with broad developmental associations rather than a tightly connected module.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001569","count":1},{"id":"GO:0035215","count":1},{"id":"GO:0071338","count":1},{"id":"GO:0048864","count":1},{"id":"GO:0021588","count":1}]},{"hash":"636885926795770990","title":"N-terminal protein and polyamine acetylation","description":"The top GO terms cluster around acetylation events: multiple instances of N-terminal acetylation on various residues (serine, lysine, glutamic acid, propionylation) and acetylation of polyamines (putrescine, spermine), plus related metabolic acetylation processes (e.g., N-acetylglucosamine, glucosamine). This points to a unifying theme of acetyl group transfer to amine-containing substrates, across both proteins and small metabolites, despite some ancillary terms. Confidence in this label is High.","confidence":"","size":5,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":2},{"id":"GO:0018003","count":2},{"id":"GO:0046208","count":2},{"id":"GO:0006041","count":2},{"id":"GO:0061606","count":2}]},{"hash":"1295177270259307808","title":"Photoreceptor differentiation and melanosome transport","description":"The top GO terms include eye photoreceptor differentiation and endosome-to-melanosome transport, suggesting involvement in retinal development and pigment cell trafficking; additional signaling terms (Notch, VEGF, integrin, NF-kappaB) and cell motility indicate coordinated signaling and movement during eye morphogenesis. This points to a cohesive theme around photoreceptor/retinal pigment epithelium function with vesicle trafficking and associated signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901223","count":2},{"id":"GO:0043128","count":2},{"id":"GO:2000145","count":2},{"id":"GO:1900746","count":2},{"id":"GO:0007166","count":2}]},{"hash":"1311098613735269852","title":"Acetylation-Linked Protein Modification and Polyamine Metabolism","description":"The top GO terms are dominated by acetylation-related processes, including N-terminal peptidyl-serine/lysine/glutamic acid acetylation, N-terminal propionylation, and putrescine acetylation, along with N-acetylglucosamine/glucosamine metabolic processes. Spermine catabolic and acetoin catabolic processes point to amine/acetyl group turnover. Together these suggest a cohesive theme around acetylation-modification and related amine metabolism, with angiogenesis appearing as a broader cellular context. ","confidence":"Medium","size":5,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":3},{"id":"GO:0018003","count":3},{"id":"GO:0046208","count":3},{"id":"GO:0006041","count":3},{"id":"GO:0061606","count":3}]},{"hash":"1585290589704592128","title":"DNA damage response and cell cycle control","description":"The cluster centers on genes involved in DNA replication and repair, plus DNA damage response to ionizing radiation and p53-mediated cell cycle arrest, suggesting a common theme of genome integrity maintenance and cell-cycle regulation. A couple terms (heart development, GPCR desensitization) are less aligned and may reflect pleiotropy or annotation noise, but the dominant signals point to DNA damage sensing/repair and cell-cycle control.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0071479","count":2},{"id":"GO:0006977","count":2}]},{"hash":"1517833057828910473","title":"Inhibition of neutrophil activation","description":"Based on GO:1902564, which denotes negative regulation of neutrophil activation, the proteins in this cluster appear to collectively dampen neutrophil activation. The label directly reflects this shared function without assuming additional roles.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902564","count":1}]},{"hash":"934523687632419816","title":"N-terminal and polyamine acetylation","description":"The top GO terms are dominated by various acetylation processes, including N-terminal acetylations on several residues (serine, lysine, glutamic acid) and peptidyl acetylation, plus acetylation of polyamines like putrescine and spermine. Related acetylated-sugar metabolism terms (N-acetylglucosamine, glucosamine) also appear, all pointing to acetylation-related modifications and metabolism as the cluster\u2019s theme. An outlier term such as angiogenesis is present but peripheral. ","confidence":"High","size":5,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":4},{"id":"GO:0018003","count":4},{"id":"GO:0046208","count":4},{"id":"GO:0006041","count":4},{"id":"GO:0061606","count":4}]},{"hash":"1737963051178051686","title":"N-terminal and polyamine acetylation","description":"This cluster centers on acetylation-related functions, with GO terms for N-terminal peptidyl-serine/lysine/glutamic acid acetylation, N-terminal propionylation, and putrescine/spermine acetylation, plus N-acetylglucosamine-related metabolism. The common thread is acetylation of diverse substrates (proteins, amino acids, polyamines, sugars), suggesting a cohesive theme around acetylation-modification processes rather than a single specific pathway.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":1},{"id":"GO:0018003","count":1},{"id":"GO:0046208","count":1},{"id":"GO:0006041","count":1},{"id":"GO:0061606","count":1}]},{"hash":"374217131871013654","title":"Eye-Neural-Thymic Development","description":"The GO terms point to developmental processes in eye retina, neuron development, and thymus development, suggesting a shared theme of tissue development. Some other terms refer to signaling and endosomal trafficking that can accompany development but do not define a single pathway.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061298","count":3},{"id":"GO:0043491","count":2},{"id":"GO:0070671","count":2},{"id":"GO:0007257","count":2},{"id":"GO:2000641","count":2}]},{"hash":"1306170876976291304","title":"Hypoxia-Responsive Neural Development","description":"The cluster combines neural development terms (subpallium neuron fate commitment, spinal cord motor neuron cell fate specification, cochlea morphogenesis, bronchiole development) with hypoxia-related signaling (HIF-1alpha pathway, intracellular oxygen homeostasis, hypoxia-regulated transcription), suggesting a role in coordinating neural organogenesis with oxygen-sensing pathways.","confidence":"Medium","size":4,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0097411","count":2},{"id":"GO:0060163","count":2},{"id":"GO:0021520","count":2},{"id":"GO:0090103","count":2}]},{"hash":"959832897060019515","title":"Protein quality control and trafficking","description":"This cluster is enriched for processes like autophagosome maturation, ubiquitin-dependent ERAD, and protein retention in the Golgi, pointing to roles in cellular proteostasis and trafficking through the secretory pathway; other terms suggest related cytoskeletal and metabolic context but do not redefine the core theme.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0097352","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0045053","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0031117","count":2}]},{"hash":"1366568087425650862","title":"Prostaglandin synthesis and P450 lipid signaling","description":"The top GO terms show prostaglandin biosynthetic process and epoxygenase P450 pathway, pointing to eicosanoid production via cytochrome P450 enzymes. Additional terms about redox homeostasis and regulation of inflammatory-related processes (superoxide generation, JNK activity, monocyte chemokine production) support a lipid-mediated signaling and oxidative regulation theme. Some terms appear plant- or bone-related, but the core signal is prostaglandin synthesis with lipid signaling and redox/inflammation interplay.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":2},{"id":"GO:0019373","count":2},{"id":"GO:1904706","count":1},{"id":"GO:0045669","count":1},{"id":"GO:0009735","count":1}]},{"hash":"710864242234241728","title":"Unknown","description":"The top GO terms are diverse and each appears once, spanning nitric-oxide synthase regulation, SMAD/ubiquitination-related processes, photomorphogenesis, hormone biosynthesis, immune signaling, chaperone assembly, autoubiquitination, and chitin response. There is no coherent shared function or enriched theme to assign a specific label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050999","count":1},{"id":"GO:0040022","count":1},{"id":"GO:0030579","count":1},{"id":"GO:0009640","count":1},{"id":"GO:0090359","count":1}]},{"hash":"2182837232421817450","title":"Chaperone-mediated folding under stress","description":"Top GO terms point to chaperone-assisted protein refolding and folding independent of cofactors, plus a heat response, indicating a core function in protein quality control under stress. The additional terms (mitochondrial import, virion assembly, cell division, telomerase RNA localization, TNF and B cell cytokines, isotype switching) likely reflect integrative roles of chaperones in complex assembly and signaling, or incidental annotations for multifunctional proteins. Overall, the cluster can be summarized as chaperone-mediated folding under stress.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051085","count":4},{"id":"GO:1904874","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0019068","count":4},{"id":"GO:0045041","count":4}]},{"hash":"654833950088766517","title":"Mitochondrial Energy Metabolism and Ion Transport","description":"Top terms center on mitochondrial energy production (TCA cycle, acetyl-CoA biosynthesis) and proton-driven transport (proton transmembrane transport, proton motive force\u2013driven ATP synthesis), with related vacuolar processes and metal ion homeostasis signals, suggesting a theme of energy production linked to membrane transport and ion balance.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":1},{"id":"GO:0006104","count":1},{"id":"GO:0006085","count":1},{"id":"GO:0006626","count":1},{"id":"GO:0015991","count":1}]},{"hash":"2139853465489917451","title":"Unknown","description":"The top terms are highly heterogeneous (viral process, redox/homeostasis, erythrocyte and gonad development, spermatogenesis, nonphotochemical quenching, MAPK regulation) with little to no overlap, and there are no edges connecting proteins. This scattered set provides no coherent shared function or theme for the cluster, so it is best labeled Unknown with no confidence.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016032","count":2},{"id":"GO:1903206","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0010196","count":1},{"id":"GO:0043388","count":1}]},{"hash":"392195517381902227","title":"General cellular growth and trafficking","description":"This cluster shows recurring terms for core cellular processes (cell division, DNA-templated transcription) as well as ER-to-Golgi vesicle transport, suggesting a mix of basic cellular maintenance and protein trafficking rather than a single specific pathway. The diversity of terms (including signaling and development-related terms) supports labeling it as a general cellular machinery cluster rather than a focused function.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070208","count":1},{"id":"GO:0010244","count":1}]},{"hash":"901996738244790779","title":"Vesicle trafficking and intercellular signaling","description":"This set includes several vesicle- and trafficking-associated terms (vacuole fusion, exosomal secretion, engulfment of apoptotic cells) plus related signaling and developmental terms, pointing to a common theme of vesicle trafficking and intercellular communication rather than a single pathway.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0032889","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0050771","count":3},{"id":"GO:1903206","count":2},{"id":"GO:0033138","count":2}]},{"hash":"1522311381853989532","title":"Membrane Transporters for Sugars and Nutrients","description":"The cluster is dominated by GO terms for various transmembrane transport processes (glucose, D-xylose, urate, vitamins, L-ascorbic acid, and other ions/organic cations), indicating proteins that function as membrane transporters carrying diverse substrates. A few outlier terms about senescence or host interaction appear unrelated and do not define the main theme.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044381","count":1},{"id":"GO:0035725","count":1},{"id":"GO:1904728","count":1},{"id":"GO:0052106","count":1},{"id":"GO:1904659","count":1}]},{"hash":"1981794773419148905","title":"Cell cycle and developmental regulators","description":"The GO terms cluster around mitosis (mitotic cell cycle, spindle assembly), proliferation, and developmental processes (gastrulation, multicellular development), with supporting roles in transcription and ubiquitination, pointing to proteins that coordinate cell division with development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0006351","count":2}]},{"hash":"587108360980670275","title":"Unknown","description":"The GO terms are a mix of immune signaling (TLR2 regulation, IL-1\u03b2 production, macrophage activation) and diverse developmental processes (trachea and lung development, neural crest migration, otic placode formation), with no clear single functional theme tying all four proteins together. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034137","count":1},{"id":"GO:0060534","count":1},{"id":"GO:0050718","count":1},{"id":"GO:0002281","count":1},{"id":"GO:0061145","count":1}]},{"hash":"1038140434975834853","title":"Neuronal differentiation and fate specification","description":"The top GO terms indicate neural development and neuronal lineage specification (subpallium fate commitment, spinal cord motor neuron fate, GABAergic interneuron differentiation, and oligodendrocyte lineage), with transcription by RNA polymerase II reflecting differentiation-linked gene expression. Some non-neural developmental terms are present but peripheral to the main neural theme.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060163","count":2},{"id":"GO:0021520","count":2},{"id":"GO:0060435","count":2},{"id":"GO:0031018","count":2},{"id":"GO:0021892","count":2}]},{"hash":"1338674849415933201","title":"Developmental morphogenesis and differentiation","description":"This cluster is driven by GO terms pointing to developmental patterning and cell differentiation (insect cuticle patterning, dopaminergic neuron differentiation, and hair placode formation) as well as processes like cytokinesis and pseudopodium assembly that underpin morphogenesis. RNA processing terms appear less central, reinforcing a primary theme of developmental regulation and morphogenesis.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035293","count":2},{"id":"GO:1904948","count":2},{"id":"GO:0060789","count":2},{"id":"GO:0032467","count":2},{"id":"GO:0031274","count":2}]},{"hash":"482468290762870468","title":"Muscle and cardiovascular development regulation","description":"Most terms point to differentiation and regulation of smooth and cardiac muscle, vascular-associated muscle cells, and related developmental processes (e.g., vascular smooth muscle differentiation, cardiac ventricle development, negative regulation of cardiac muscle apoptosis). A TGF-beta signaling regulatory term also fits this developmental muscle/vascular theme. Some terms about brain or bladder development and amyloid-beta clearance are less central, but the dominant signal is muscle/vascular development regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904706","count":1},{"id":"GO:0035886","count":1},{"id":"GO:2001015","count":1},{"id":"GO:0060157","count":1},{"id":"GO:1900222","count":1}]},{"hash":"1202641609845095890","title":"Unknown","description":"The top GO terms span immune regulation, neurotransmitter signaling, sensory perception, and vascular functions with no clear shared function or pathway; additionally, the cluster has no edges, making a cohesive functional label unsupported.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050728","count":1},{"id":"GO:0007191","count":1},{"id":"GO:0001975","count":1},{"id":"GO:0016038","count":1},{"id":"GO:0014829","count":1}]},{"hash":"1026042762969770146","title":"Bacterial cell envelope biosynthesis and morphology","description":"This cluster shows strong enrichment for capsule polysaccharide biosynthesis, peptidoglycan biosynthesis, and regulation of cell shape, along with cell division and ether lipid biosynthesis\u2014together pointing to bacterial cell wall/capsule synthesis and envelope maintenance as the common theme. While some metabolic terms appear, the envelope-related processes are the primary signal linking the proteins\u2019 functions. ","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0045227","count":2},{"id":"GO:0008360","count":2},{"id":"GO:0019516","count":2},{"id":"GO:0035884","count":2},{"id":"GO:0019853","count":2}]},{"hash":"1039939959134873722","title":"N-terminal and peptidyl acetylation","description":"The terms cluster around acetylation of proteins and amino acids (N-terminal acetylation, peptidyl-lysine acetylation, propionylation) with related metabolic processes (polyamine acetylation, sugar acetylation), suggesting acetyltransferase-related activity.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0018003","count":3},{"id":"GO:0017198","count":2},{"id":"GO:0046208","count":2},{"id":"GO:0006041","count":2},{"id":"GO:0061606","count":2}]},{"hash":"1541233731807121985","title":"Developmental Differentiation","description":"The top terms are all differentiation-related development processes: R7 cell differentiation, microgametogenesis, and somatic embryogenesis. This suggests the proteins in the cluster are involved in cellular differentiation across different tissues and life stages, so the label Developmental Differentiation captures the shared function.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045466","count":1},{"id":"GO:0055046","count":1},{"id":"GO:0010262","count":1}]},{"hash":"324411702424480564","title":"Sterol and lipid metabolism","description":"The proteins are enriched for sterol biosynthesis and broader lipid metabolic processes (cholesterol via lathosterol, ergosterol biosynthesis, ether lipid and fatty acid biosynthesis, sterol oxidation). Additional terms referencing myelin maintenance and sebaceous gland differentiation align with lipid-rich tissue functions, suggesting a lipid-centric functional theme for the cluster, though some terms like B cell chemotaxis are less tied to lipids. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0033490","count":1},{"id":"GO:0035754","count":1},{"id":"GO:0046485","count":1},{"id":"GO:0080064","count":1},{"id":"GO:0080065","count":1}]},{"hash":"304378025455224272","title":"Neuroimmune Xenobiotic Response","description":"GO terms show defense against bacteria and LPS, regulation of inflammation, xenobiotic and stimulant responses, and dopamine signaling, pointing to a shared theme of neuroimmune interactions with xenobiotic responsiveness. This justifies a Neuroimmune Xenobiotic Response label, though the linkage is somewhat indirect.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0042742","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0014063","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0042391","count":3}]},{"hash":"756740816591930829","title":"Neuronal signaling and neuromodulatory regulation","description":"This cluster shows terms tied to neural communication and modulation, including sodium ion transport, cholinergic synaptic transmission, and regulation of nerve impulse transmission, plus contextual cues from histamine response, circadian sleep regulation, and amyloid-beta\u2013related processes. While acrosome reaction is peripheral, the overall pattern centers on neuronal signaling and its modulation, with links to circadian and amyloid pathways.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":3},{"id":"GO:0071420","count":3},{"id":"GO:0007340","count":3},{"id":"GO:1904645","count":3},{"id":"GO:0001661","count":3}]},{"hash":"784431262147906234","title":"Oxidative stress response and redox regulation","description":"Based on GO terms, redox homeostasis and negative regulation of hydrogen peroxide-induced cell death point to a shared theme of managing oxidative stress. Several other terms touch on general regulation (DNA binding, protein processing, growth regulation) but there isn't a single tightly knit function beyond redox control, making this the most representative label.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":1},{"id":"GO:0040014","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0010196","count":1},{"id":"GO:0043388","count":1}]},{"hash":"863364439904335663","title":"Glycogen and polysaccharide catabolism","description":"The listed GO terms show a clear enrichment for carbohydrate catabolic processes (polysaccharide and glycogen catabolism), suggesting a metabolic theme. However, there are several divergent terms related to development, signaling, and cellular differentiation, indicating the cluster also spans broader roles. Overall, the dominant signal is carbohydrate breakdown, with mixed additional functions.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0000272","count":2},{"id":"GO:0005980","count":1},{"id":"GO:0001569","count":1},{"id":"GO:0031036","count":1},{"id":"GO:0060487","count":1}]},{"hash":"1468043161539772759","title":"Histone modification regulation","description":"This cluster\u2019s top GO terms overwhelmingly point to regulation of histone modifications (H3K27/H3K4 methylation and acetylation) and heterochromatin formation, indicating a common function in chromatin state control rather than signal transduction or cell proliferation. Although several terms are obsolete, the recurring theme is epigenetic regulation of chromatin via histone marks, suggesting the proteins are histone modifiers/remodelers. ","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:2000791","count":1},{"id":"GO:0061086","count":1},{"id":"GO:0002509","count":1},{"id":"GO:0090308","count":1},{"id":"GO:1901674","count":1}]},{"hash":"122849993710754262","title":"Embryonic organogenesis","description":"The four proteins are tied to multiple GO terms reflecting embryonic development across tissues, including heart/vessel formation (coronary vasculature development, aorta development, embryonic heart tube left/right pattern formation), skeleton and limb formation (ossification, limb bud formation), gastrulation (epiboly involved in gastrulation with mouth forming second), and neural/retinal development (fasciculation of sensory neuron axon, retinal metabolic process). This constellation points to a general theme of embryogenesis and organogenesis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0060976","count":2},{"id":"GO:0055113","count":2},{"id":"GO:0048842","count":2},{"id":"GO:0035904","count":2}]},{"hash":"1575386832827537655","title":"Muscle and vascular differentiation with anti-inflammatory signaling","description":"The cluster shows enrichment for tissue development terms such as branching in blood vessel morphogenesis, skeletal muscle fiber development, cardiac hypertrophy regulation, and lung epithelial differentiation, along with glycogen metabolic processes and immune-related regulation (negative regulation of T cell cytotoxicity). This suggests a cohesive theme of muscle and vascular development with metabolic and anti-inflammatory regulatory aspects, rather than a single narrow function. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001569","count":3},{"id":"GO:0050728","count":3},{"id":"GO:0005977","count":3},{"id":"GO:0060487","count":3},{"id":"GO:1903244","count":3}]},{"hash":"1244998376383780942","title":"Mitochondria-Linked Immune Signaling","description":"The terms cluster around mitochondrial regulation (membrane potential, mtDNA replication) and immune signaling (TLR3 pathway, T cell polarity) with membrane raft localization, suggesting a theme where mitochondrial function interfaces with immune signaling at membrane domains.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007588","count":3},{"id":"GO:0010918","count":3},{"id":"GO:0034141","count":3},{"id":"GO:0070584","count":3},{"id":"GO:0001302","count":3}]},{"hash":"894522687051383246","title":"Cell growth and fate signaling","description":"This cluster combines GO terms tied to growth control and cell fate decisions (hippo signaling, mitotic checkpoint signaling, apoptotic processes, insulin signaling) with protein turnover and trafficking (ubiquitin-dependent degradation and endocytosis), as well as differentiation signals (keratinocyte differentiation) and immune signaling (T cell anergy). The common theme is general cellular signaling networks that regulate proliferation, survival, differentiation, and proteostasis, making a coherent label \u201ccell growth and fate signaling.\u201d Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060044","count":2},{"id":"GO:0031064","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0035329","count":2},{"id":"GO:0006915","count":2}]},{"hash":"1449531813136648145","title":"Unknown","description":"Top terms are diverse, including cocaine response, RNA modification, various biosynthetic/metabolic processes, and nodulation, with no single shared function linking the proteins. Because there is no coherent theme among the terms, this cluster should be labeled Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042220","count":2},{"id":"GO:0070476","count":1},{"id":"GO:0002098","count":1},{"id":"GO:0009102","count":1},{"id":"GO:1901052","count":1}]},{"hash":"1032543608747249928","title":"Neuronal ion transport and signaling","description":"The terms cluster around membrane ion transport (potassium and proton), membrane repolarization, and ionotropic glutamate receptor signaling, all central to neuronal excitability and synaptic transmission; a few terms about neural development (vestibulocochlear nerve formation) support a neural context, though other terms are less connected. This suggests a core theme of neuronal ion transport and signaling. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1990573","count":3},{"id":"GO:0097623","count":3},{"id":"GO:0021650","count":2},{"id":"GO:1903249","count":2},{"id":"GO:0046272","count":2}]},{"hash":"1519012505209513282","title":"Bacterial lipid metabolism and siderophore biosynthesis","description":"The GO terms cluster around fatty acid metabolism (biosynthesis and transport) and production of secondary metabolites like siderophores and menaquinone, with a note of bioluminescence typical of certain bacteria. This points to a bacterial metabolism-focused cluster centered on lipid pathways and iron-acquisition-related metabolites.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044539","count":1},{"id":"GO:0090410","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0010124","count":1},{"id":"GO:0009698","count":1}]},{"hash":"1034136237788583571","title":"Light-responsive transcription regulation","description":"The top GO terms center on transcriptional control (DNA-templated transcription, regulation of transcription from RNA polymerase II promoter) and light sensing (detection of visible light, response to very low fluence red light stimulus), suggesting proteins in this cluster participate in light-triggered transcriptional programs, possibly photomorphogenesis or light-stimulated regulatory pathways. Obsolete or broader terms related to stress signaling (oxidative stress, hypoxia) appear less specific to the core theme but do not override the light- and transcription-focused pattern. ","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0009584","count":2},{"id":"GO:0042634","count":2},{"id":"GO:0061414","count":2},{"id":"GO:0097411","count":2}]},{"hash":"282321008581570350","title":"Ribosome biogenesis and translation","description":"The top GO terms cluster around ribosome assembly and protein synthesis: ribosomal small subunit assembly, maturation of SSU-rRNA, and translation, which together point to ribosome biogenesis and protein synthesis as the core function of this cluster. Some unrelated terms are present but do not override the dominant ribosome/translation signal.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010637","count":3},{"id":"GO:0045648","count":3},{"id":"GO:0060334","count":3},{"id":"GO:0051572","count":3},{"id":"GO:0035186","count":3}]},{"hash":"1516467995153995474","title":"Metabolism and Chemical Stress Response","description":"The top GO terms cluster around diverse metabolic processes (ethanol catabolic, fatty acid oxidation/biosynthesis, glucose catabolism, amino acid catabolism, retinoic acid metabolism) and environmental/chemical stress responses (response to xenobiotic stimulus, osmotic stress, nutrient level signaling), suggesting a broad metabolic role with chemical stress responsiveness rather than a single dedicated pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006068","count":2},{"id":"GO:0046688","count":2},{"id":"GO:0010430","count":2},{"id":"GO:0000947","count":2},{"id":"GO:0031667","count":2}]},{"hash":"833944934289620022","title":"Protein repair under oxidative stress","description":"This cluster centers on protein maintenance in redox conditions: terms like protein modification process, oxidation-reduction process, protein repair, and response to oxidative stress dominate the GO terms, indicating a common function in preserving protein integrity when reactive oxygen species are present. The other terms (retinal metabolism, GABA shunt, ethanol catabolic process, etc.) appear less represented and may reflect broad annotations rather than a core function of the cluster. Overall, the proteins are best described as participating in oxidative-stress\u2013related protein repair/modification.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006464","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0030091","count":2},{"id":"GO:0006979","count":2},{"id":"GO:0042574","count":1}]},{"hash":"309283744606200473","title":"Nuclear import and pore organization","description":"The top GO terms cluster around nucleocytoplasmic transport: importing NLS-bearing proteins into the nucleus, regulation of nuclear import, nuclear pore organization, and tRNA export from the nucleus, plus related nuclear envelope dynamics. While there are also terms about protein oligomerization, the dominant signal is nuclear transport and envelope organization, supporting a cohesive label of Nuclear import and pore organization.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036228","count":1},{"id":"GO:0070208","count":1},{"id":"GO:0051290","count":1},{"id":"GO:0042306","count":1},{"id":"GO:0006607","count":1}]},{"hash":"801609770100624568","title":"Developmental Growth and Cell-Cycle Machinery","description":"The cluster is dominated by developmental terms (skeletal system morphogenesis, brain development, multicellular organism growth) alongside core cellular processes (DNA-templated transcription, ribosome biogenesis, mitotic cell cycle) and vesicle trafficking between the ER and Golgi. Together these suggest proteins that drive organismal development through gene expression, proliferation, and intracellular transport.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048705","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0043547","count":2}]},{"hash":"650817566141150878","title":"Kidney development and PI3K/MAPK signaling","description":"The GO terms show strong representation of kidney and urogenital system development (GO:0001655, GO:0001822) together with signaling pathway regulation (PI3K/AKT GO:0043491 and MAPK cascade GO:0043408). Also, terms about follicle-stimulating hormone response and STAT phosphorylation suggest hormonal signaling during development, with additional signals related to axonogenesis and myoblast differentiation indicating broader developmental contexts. Overall, this cluster likely represents proteins involved in kidney/urogenital development governed by PI3K/MAPK signaling.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":2},{"id":"GO:0001655","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0043408","count":2},{"id":"GO:0071372","count":2}]},{"hash":"172380429025274723","title":"Viral integration and transposition","description":"The top GO terms strongly point to DNA integration, transposition, retrotransposition, and proviral latency, all involving movement or integration of genetic material into host genomes or cells, with additional signals of viral/symbiont entry and host modification. A few terms are tangential, but the dominant theme centers on genome integration and host interaction mediated by viruses or transposable elements.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032091","count":2},{"id":"GO:0075713","count":1},{"id":"GO:0075732","count":1},{"id":"GO:0039651","count":1},{"id":"GO:0015074","count":1}]},{"hash":"1012514263619650510","title":"Neural development and synaptic signaling","description":"The top GO terms are dominated by neural-related processes\u2014regulation of glutamatergic synaptic transmission, long-term synaptic plasticity, and axon guidance\u2014with exosomal secretion also appearing, pointing to neuronal signaling roles. A few terms like kidney development and heart contraction are older or broader developmental signals and are likely pleiotropic, but the core theme centers on neural development and synaptic communication.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051966","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0048169","count":2},{"id":"GO:0071260","count":2},{"id":"GO:1903206","count":1}]},{"hash":"1623820732923520598","title":"Lipid metabolism and development","description":"The top GO terms are dominated by lipid-related processes (fatty acid elongation, beta-oxidation, short-chain fatty acid biosynthesis, ketone body catabolism, cholesterol metabolism, adipose tissue development), indicating a cohesive cluster centered on lipid metabolism and energy/wound signaling. While brain development appears among the terms, the prevailing signal is lipid metabolism, so the label reflects the core function of the cluster.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0019367","count":3},{"id":"GO:0006635","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0051790","count":3},{"id":"GO:0030435","count":3}]},{"hash":"1161132727906053659","title":"Vesicle trafficking and exocytosis","description":"The top GO terms cluster around vesicle fusion and exocytosis, including ERGIC membrane fusion, autophagosome docking, SNARE complex assembly, and synaptic vesicle exocytosis, as well as receptor recycling and general protein transport. Additional terms like mucus secretion and neutrophil degranulation point to secretory pathways across cell types, indicating a cohesive theme of vesicle trafficking and secretion.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990668","count":1},{"id":"GO:0016240","count":1},{"id":"GO:0098967","count":1},{"id":"GO:0001921","count":1},{"id":"GO:0070254","count":1}]},{"hash":"1481845545097198797","title":"Lipoprotein remodeling and triglyceride metabolism","description":"This cluster centers on lipid metabolism, with GO terms pointing to HDL/LDL particle remodeling, triglyceride lipase regulation and catabolism, cholesterol transport and absorption, and phospholipid breakdown, indicating a cohesive theme of lipoprotein remodeling and triglyceride handling.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0034375","count":1},{"id":"GO:0061365","count":1},{"id":"GO:0044241","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0032376","count":1}]},{"hash":"2081512702696061400","title":"Sulfur-containing amino acid metabolism","description":"The terms cluster around serine and cysteine metabolism, hydrogen sulfide biosynthesis, and related homocysteine/cystathionine pathways, signaling a focus on sulfur-containing amino acid metabolism; a few outliers exist.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007568","count":2},{"id":"GO:0018871","count":1},{"id":"GO:0070814","count":1},{"id":"GO:0046360","count":1},{"id":"GO:0070179","count":1}]},{"hash":"201366600704305029","title":"Phosphoinositide and small GTPase signaling","description":"This cluster centers on intracellular signaling: phosphatidylinositol dephosphorylation and inositol trisphosphate biosynthesis point to phosphoinositide signaling, alongside small GTPase-mediated signal transduction and a cellular response to nitric oxide, suggesting a shared theme of lipid- and GTPase-driven signaling pathways. Some terms appear developmental or obsolete, but the core terms indicate a signaling-focused cluster rather than a purely developmental one.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0021678","count":2},{"id":"GO:0002296","count":1},{"id":"GO:0060017","count":1},{"id":"GO:0007257","count":1},{"id":"GO:1904685","count":1}]},{"hash":"1496854127957630983","title":"Neuroimmune GPCR signaling and inflammation","description":"Top GO terms indicate signaling pathways (dopamine receptor signaling, octopamine/tyramine signaling) and immune/inflammatory processes (T cell chemotaxis, CD8+ gamma-delta T cell differentiation, negative regulation of inflammatory response, blood coagulation). The convergence on neuromodulatory signaling and immune regulation suggests a cluster of proteins involved in neuroimmune communication and inflammation control, with possible GPCR mediation. The presence of an outlier term (absorption of visible light) may reflect annotation noise rather than a core function. Confidence: Medium","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0050728","count":2},{"id":"GO:0007191","count":2},{"id":"GO:0001975","count":2},{"id":"GO:0016038","count":2},{"id":"GO:0014829","count":2}]},{"hash":"450940377028602757","title":"Ubiquitin-Proteasome-Mediated Protein Degradation","description":"The dominant GO terms are about ubiquitin-dependent proteolysis and SCF-dependent proteasomal degradation, pointing to a core function in tagging and destroying proteins via the ubiquitin-proteasome system. Additional terms related to neural development or stress responses appear incidental; the central theme is proteasomal protein turnover.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031146","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0060386","count":1},{"id":"GO:0006516","count":1},{"id":"GO:0021993","count":1}]},{"hash":"749584952745622993","title":"Unknown","description":"The GO terms span diverse stress responses, hormone biosynthesis, development, and metabolism across different species, with no clear common function linking the proteins; thus no cohesive theme emerges to name the cluster meaningfully.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010193","count":3},{"id":"GO:0010268","count":3},{"id":"GO:0010760","count":3},{"id":"GO:0010430","count":3},{"id":"GO:2001037","count":3}]},{"hash":"1874913553487163481","title":"GPCR/PI3K Signaling and Trafficking","description":"Top terms cluster around receptor-mediated signaling (GPCR desensitization, PI3K/AKT signaling, thrombin receptor signaling) and associated endomembrane processes (endosome organization, small GTPase signaling, substrate adhesion-dependent spreading). This points to a cohesive theme of cell signaling intertwined with vesicular trafficking and membrane dynamics, justifying a label focused on GPCR/PI3K signaling and trafficking. Some terms (myelin maintenance, peroxisome regulation) are broader or peripheral to signaling but do not override the core theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":1},{"id":"GO:0002029","count":1},{"id":"GO:0070493","count":1},{"id":"GO:0007340","count":1},{"id":"GO:0032287","count":1}]},{"hash":"2067462948180660747","title":"Mitochondrial Regulation and Immune Signaling","description":"This cluster centers on mitochondria-related processes (positive regulation of mitochondrial membrane potential, mtDNA replication) alongside membrane-associated signaling and localization (raft localization, lipid localization) and immune pathways (TLR3 signaling, T cell polarity). The combination suggests proteins coordinating mitochondrial function with immune signaling at cellular membranes, rather than a single solitary function, supporting a mitochondria-immune interface theme. Confidence reflects a moderate agreement given some obsolete terms but coherent pattern.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007588","count":2},{"id":"GO:0010918","count":2},{"id":"GO:0034141","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0001302","count":2}]},{"hash":"556789296722426577","title":"Unknown","description":"There are no GO terms listed for this cluster (Top Terms is empty), so I cannot infer a common function. With only 3 proteins and a small, sparse interaction network (Edges: 3, Triangles: 1, Max Degree: 2), there isn\u2019t enough signal to assign a meaningful, specific label.","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[]},{"hash":"1672520950645895611","title":"RNA processing and transcription regulation","description":"The top GO terms cluster around RNA biogenesis and transcription control, with pre-miRNA processing, miRNA catabolic process, DNA-templated transcription, transcription antitermination, and termination regulation pointing to RNA processing and transcription regulation functions. A couple of unrelated terms (cholesterol metabolism, mitochondrial ATP synthase assembly) appear as noise due to the small cluster size, but the dominant themes support labeling the cluster with RNA processing and transcription regulation.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1901724","count":1},{"id":"GO:0031054","count":1},{"id":"GO:0031564","count":1},{"id":"GO:1902219","count":1},{"id":"GO:0060567","count":1}]},{"hash":"147204271696423631","title":"Nematode Embryogenesis, Reproduction, and Molting","description":"GO terms point to nematode developmental and reproductive processes, including maternal axis specification, prevention of polyspermy, embryonic morphogenesis, and molting with cuticle formation; pharyngeal pumping reinforces a nematode physiology theme. Some terms appear as outliers (cellulose catabolic process, fin morphogenesis), but the strongest signal centers on nematode development and reproduction.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007313","count":1},{"id":"GO:2000360","count":1},{"id":"GO:0006508","count":1},{"id":"GO:0043050","count":1},{"id":"GO:0035124","count":1}]},{"hash":"69930266114732266","title":"Developmental Signaling and Neural Morphogenesis","description":"This cluster includes GO terms for PI3K/Akt signaling, Hedgehog signaling (smoothened pathway), and tyrosine autophosphorylation, along with terms related to neural structure formation (dendritic spine morphogenesis, synapse organization) and organ development (heart development, nephric duct morphogenesis). The shared theme appears to be developmental signaling pathways guiding neural connectivity and organ morphogenesis, with some ancillary immune signaling terms that may be less central. ","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":3},{"id":"GO:1901491","count":3},{"id":"GO:0007224","count":3},{"id":"GO:0038083","count":3},{"id":"GO:1902997","count":3}]},{"hash":"1338364008727590129","title":"Negative Regulation of Signaling Pathways","description":"These proteins show GO annotations focused on negative regulation across multiple signaling pathways (e.g., Wnt, PI3K/AKT, activin) and also relate to developmental processes (CNS development, heart formation, angiogenesis). The common thread is dampening signaling during development and tissue formation, suggesting a role as general negative regulators of signaling. However, the small cluster size and cross-context annotations warrant a moderate level of confidence.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035414","count":1},{"id":"GO:0070197","count":1},{"id":"GO:0045950","count":1},{"id":"GO:0035307","count":1},{"id":"GO:0007417","count":1}]},{"hash":"1885718577849016156","title":"Muscle contraction machinery and cardiac signaling","description":"Several GO terms strongly point to muscle physiology: myosin II filament assembly, release of sequestered calcium into the cytosol by the sarcoplasmic reticulum, and positive regulation of cardiac muscle hypertrophy in response to stress. A glycogen catabolic process also aligns with muscle energy metabolism. The other terms are more divergent, but the cluster\u2019s strongest shared theme appears to be muscle structure and signaling, especially relating to cardiac/skeletal muscle contraction and adaptive responses. Confidence: Medium","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0005980","count":1},{"id":"GO:0001569","count":1},{"id":"GO:0031036","count":1},{"id":"GO:0060487","count":1},{"id":"GO:0048143","count":1}]},{"hash":"1335447979542236512","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0016441","count":2},{"id":"GO:0090394","count":2},{"id":"GO:0071042","count":2}]},{"hash":"1136418400159629055","title":"Chromatin regulation and DNA replication","description":"The top GO terms cluster around chromatin modification (histone methylation, heterochromatin formation) and core DNA replication processes (pre-replicative complex assembly, DNA replication, DNA biosynthetic process), suggesting the proteins function in chromatin state control linked to genome replication.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051568","count":1},{"id":"GO:0007307","count":1},{"id":"GO:0030466","count":1},{"id":"GO:0006267","count":1},{"id":"GO:0006260","count":1}]},{"hash":"1515564978599655031","title":"Auditory synaptic signaling and neural transmission","description":"This cluster centers on neural communication and sensory processing, highlighted by terms for auditory perception, cholinergic synaptic transmission, and general nerve impulse signaling. While some terms touch broader brain-related processes (histamine response, amyloid-beta regulation, heart rate pathways), the common thread appears to be neuronal communication and sensory processing, with a notable emphasis on auditory signaling.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":3},{"id":"GO:0035725","count":2},{"id":"GO:0071420","count":2},{"id":"GO:0007340","count":2},{"id":"GO:1904645","count":2}]},{"hash":"1181559598026491370","title":"Unknown","description":"The listed GO terms span multiple unrelated biological themes (cell division and spindle regulation; brain development; ERAD; heat-stress\u2013related mRNA export; mitochondria\u2013nucleus signaling; post-translational arginine methylation) with no clear common function or pathway tying the proteins together, and there are no edges to suggest a cohesive cluster. Therefore, no specific, reliable label can be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070208","count":1},{"id":"GO:0035246","count":1},{"id":"GO:0071902","count":1},{"id":"GO:0051301","count":1},{"id":"GO:0007420","count":1}]},{"hash":"2078663709325489455","title":"Proteostasis: Ubiquitin-Proteasome and Autophagy","description":"This cluster shows several ubiquitin-proteasome\u2013linked degradation terms (proteasome-mediated catabolic process, ERAD) and autophagy (autophagosome assembly), plus related protein homeostasis processes, indicating a cohesive theme of cellular proteostasis and quality control.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007253","count":1},{"id":"GO:0043161","count":1},{"id":"GO:0016973","count":1},{"id":"GO:0030433","count":1},{"id":"GO:0007030","count":1}]},{"hash":"544106211276848914","title":"Unknown","description":"The terms span mitochondrial energy processes (complex IV assembly, proton transport) alongside neural signaling (sleep, rhythmic processes, cholinergic synaptic regulation, voltage-gated potassium channels) and insect-specific development (tracheal tube diameter, chitin-based cuticle biosynthesis). There isn\u2019t a single coherent function uniting these terms across the cluster, so a specific, representative label is not evident.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042774","count":1},{"id":"GO:0033617","count":1},{"id":"GO:1902600","count":1},{"id":"GO:1903818","count":1},{"id":"GO:0035158","count":1}]},{"hash":"962672341150291634","title":"Chromatin organization and nucleosome assembly","description":"GO terms cluster around chromatin structure and gene regulation in the nucleus, including nucleosome assembly, heterochromatin organization, localization to chromatin, and transcription initiation. Despite some obsolete terms, the prevailing theme is chromatin organization and transcriptional regulation, consistent for a small group of proteins involved in chromatin dynamics. ","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016584","count":1},{"id":"GO:0070828","count":1},{"id":"GO:0071169","count":1},{"id":"GO:0097298","count":1},{"id":"GO:0080182","count":1}]},{"hash":"1009105961970885810","title":"RNA Modification and Ribosome Dynamics in Cell Cycle","description":"This cluster centers on RNA modification processes (tRNA, rRNA, and mRNA pseudouridylation), together with ribosome-related functions (translation initiation, ribosome disassembly) and cell cycle/division terms, suggesting a theme of RNA processing and ribosome regulation coordinating cell cycle progression.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":3},{"id":"GO:0006400","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0002192","count":1},{"id":"GO:1904874","count":1}]},{"hash":"1789619249511094184","title":"Aromatic Compound Catabolism","description":"The top GO terms are dominated by catabolic and degradation processes for aromatic and related lipid substrates (stilbene, 3-phenylpropionate, beta-ketoadipate pathway, prostaglandin catabolism, phospholipid dephosphorylation). This points to a functional theme of breaking down aromatic and lipid compounds, with a miscellaneous outlier in biotin biosynthesis; overall, the cluster appears to group proteins involved in aromatic compound degradation. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046272","count":1},{"id":"GO:1905344","count":1},{"id":"GO:0009102","count":1},{"id":"GO:0019433","count":1},{"id":"GO:0046839","count":1}]},{"hash":"1795357167032464958","title":"Transcription and Translation Machinery","description":"This cluster centers on core gene expression processes: DNA-templated transcription (initiation/termination/antitermination), translation, tyrosyl-tRNA aminoacylation, and ribosome biogenesis, with rRNA pseudouridine synthesis supporting ribosome assembly. The combination of transcription and translation-related terms suggests these proteins collectively function in overall gene expression machinery, possibly with associated RNA modification and stress-response links.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":1},{"id":"GO:0031564","count":1},{"id":"GO:0045947","count":1},{"id":"GO:0046677","count":1},{"id":"GO:0000455","count":1}]},{"hash":"1838025759865530807","title":"RNA processing and mRNA export","description":"This cluster\u2019s terms cluster around RNA metabolism and gene expression: transcription termination, spliceosomal disassembly, poly(A)+ mRNA export, and general RNA processing activities, with additional related terms like protein import and mitochondrial ribosome assembly, suggesting a broad focus on RNA maturation and export pathways linked to gene expression. Some outliers (DNA repair, obsolete terms, mitochondrial assembly) exist, but the dominant theme points to RNA processing and export functions.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000716","count":1},{"id":"GO:0060303","count":1},{"id":"GO:0006363","count":1},{"id":"GO:0072715","count":1},{"id":"GO:0000390","count":1}]},{"hash":"960017414144762394","title":"Unknown","description":"The proteins show a broad mix of developmental (placenta, segmentation, salivary gland), differentiation (osteoblast, plasma cells), organ regeneration (liver), and ER-stress\u2013related signaling terms, with no single coherent function linking them. This diversity makes a reliable, shared-label interpretation unlikely.","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:1990440","count":1},{"id":"GO:0045669","count":1},{"id":"GO:0001892","count":1},{"id":"GO:0010691","count":1},{"id":"GO:0070059","count":1}]},{"hash":"522741234212454008","title":"Unknown","description":"The GO terms span diverse biosynthetic and metabolic processes (biotin, heme, porphyrinogen, kynurenic acid, amino acid biosynthesis/catabolism) plus plant-specific traits like fruit ripening and fatty acid transport. There isn\u2019t a single coherent function tying these together, so a specific label isn\u2019t supported.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009102","count":1},{"id":"GO:0006782","count":1},{"id":"GO:0042853","count":1},{"id":"GO:0034276","count":1},{"id":"GO:0009835","count":1}]},{"hash":"1988727429495112781","title":"Neuronal signaling and exocytosis","description":"The terms cluster around neuronal communication and vesicle-mediated processes: cholinergic synaptic transmission, regulation of nerve impulse transmission, conditioned taste aversion, and responses related to histamine and autonomic heart-rate regulation. The inclusion of acrosome reaction points to vesicle fusion/exocytosis, while insecticide response and amyloid-beta\u2013related terms tie into cholinergic/neural pathways and amyloid biology. Together, they suggest a cluster of proteins involved in neural signaling and vesicle-mediated release.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017085","count":2},{"id":"GO:0035725","count":1},{"id":"GO:0071420","count":1},{"id":"GO:0007340","count":1},{"id":"GO:1904645","count":1}]},{"hash":"484441515321878117","title":"Tissue Development and Differentiation","description":"The top GO terms cluster around development and differentiation across multiple tissues (bone ossification, organ morphogenesis, nephron tubule development, vascular branching, lung epithelium differentiation, astrocyte activation, and cardiac remodeling), with a few general cellular processes present, suggesting a broad developmental theme rather than a single pathway.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0072221","count":2},{"id":"GO:0005980","count":1},{"id":"GO:0001569","count":1}]},{"hash":"1736582632440358838","title":"Unknown","description":"The terms include diverse signaling pathways (PI3K/AKT, JNK), immune response, endosome transport, phosphorylation regulation, and development (thymus, neuron), with no single cohesive function linking all proteins. Therefore, no clear cluster label can be assigned beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043491","count":1},{"id":"GO:0070671","count":1},{"id":"GO:0007257","count":1},{"id":"GO:2000641","count":1},{"id":"GO:0033138","count":1}]},{"hash":"1717881674661215140","title":"Multi-tissue development and morphogenesis","description":"The GO terms cluster around developmental processes and tissue morphogenesis across organs: ossification, multicellular organism development, tubule and vessel morphogenesis, lung differentiation, astrocyte activation, and cardiac hypertrophy responses to stress. Supporting terms like myosin II filament assembly and nuclear import suggest general cellular machinery enabling these developmental processes. Together, the terms point to a broad theme of developmental differentiation across multiple tissues rather than a single, specific pathway.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0072221","count":3},{"id":"GO:0005980","count":2},{"id":"GO:0001569","count":2}]},{"hash":"66435743217747524","title":"Vascular and neural development","description":"The top GO terms cluster around vascular development (angiogenesis, branching in blood vessel morphogenesis, heart development) and neural development (axonogenesis, excitatory postsynaptic potential), plus multicellular organism development. This pattern suggests these proteins participate in developmental programs governing both blood vessels and neurons, rather than a single narrow function. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001569","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0043065","count":2}]}]