[{"hash":"2002792969538970137","title":"Regulators of differentiation and development","description":"This cluster centers on GO terms about regulation of differentiation across multiple tissues (astrocytes, pancreatic A cells, smooth muscle cells, stomata, heart-related morphogenesis), suggesting a shared role in controlling development and cell fate. While some terms (immune response, pigmentation) are more divergent, the dominant pattern is regulatory influence over differentiation and developmental processes.","confidence":"Medium","size":29,"edges":406,"triangles":3654,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048712","count":24},{"id":"GO:2001038","count":24},{"id":"GO:2000820","count":23},{"id":"GO:2000227","count":23},{"id":"GO:0060948","count":23}]},{"hash":"414635784211628627","title":"Auditory nerve signaling and ion transport","description":"The top terms cluster around neural excitability and auditory signaling: detection of mechanical stimulus involved in sensory perception of sound, transmission of nerve impulse, membrane depolarization, sodium and potassium ion transmembrane transport, and excitatory postsynaptic potential, plus paranodal junction assembly. These together point to a function in auditory nerve signaling and ion-channel\u2013mediated excitability, with a minor incidental immune term present. ","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":7},{"id":"GO:0030913","count":7},{"id":"GO:0019226","count":7},{"id":"GO:2001046","count":6},{"id":"GO:0000187","count":5}]},{"hash":"791729952992868887","title":"Cell cycle and developmental processes","description":"The cluster is enriched in GO terms for cell cycle, cell division, and spermatogenesis, with additional signals for neuron projection development and synaptic plasticity; translation and ubiquitination imply broad regulatory control during growth and differentiation. This combination suggests proteins involved in proliferative and developmental programs across cell types, so the label reflects both cycle and developmental context.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0007049","count":13},{"id":"GO:0097284","count":7},{"id":"GO:0071260","count":7},{"id":"GO:0007283","count":7},{"id":"GO:0031175","count":7}]},{"hash":"967092357568691990","title":"Immune cell adhesion and regulation","description":"The cluster is enriched for cell-cell adhesion terms (heterophilic/homophilic adhesion) and immune regulatory processes (T cell costimulation, regulation of T cell proliferation, macrophage activation), plus complement activation and synapse assembly regulation, suggesting proteins that mediate immune cell interactions and modulate immune responses. The inclusion of symbiont entry into host cell aligns with host-pathogen interfaces where adhesion molecules can play a role.","confidence":"Medium","size":29,"edges":321,"triangles":1866,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0006958","count":12},{"id":"GO:0046718","count":11},{"id":"GO:1905404","count":11}]},{"hash":"2062703152261762902","title":"Developmental signaling and neural activity","description":"Top GO terms suggest a mix of multicellular development and broad signaling roles, including neural signaling (visual perception, pain perception, excitatory postsynaptic potentials), cell-cycle progression and apoptosis, and plant hormone signaling (abscisic acid pathway). While the terms span multiple contexts, they collectively reflect general signaling and developmental processes across tissues, rather than a single specific function.","confidence":"Medium","size":29,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007275","count":20},{"id":"GO:0010800","count":16},{"id":"GO:0007601","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0014850","count":15}]},{"hash":"1535919318185372835","title":"Keratinocyte differentiation via Wnt/Hippo signaling","description":"This cluster is dominated by GO terms for keratinocyte differentiation and signaling pathways (positive regulation of Wnt signaling and Hippo signaling), implying a role in signaling-driven keratinocyte development and growth control. The presence of transcription, DNA replication, and apoptotic terms supports coordinated regulation of gene expression and cell cycle during differentiation, reinforcing a theme of differentiation intertwined with proliferative signaling.","confidence":"High","size":29,"edges":3,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":16},{"id":"GO:0090263","count":16},{"id":"GO:0030216","count":16},{"id":"GO:0060044","count":16},{"id":"GO:0035329","count":16}]},{"hash":"785628346516151297","title":"Calcium-regulated cardiac muscle contraction","description":"The cluster\u2019s top GO terms cluster around cardiac muscle contraction, calcium ion sensing, and regulation of contraction via calcium release, pointing to a cohesive role in calcium signaling that modulates cardiac (and to some extent skeletal) muscle contraction, including inotropic regulation. Some unrelated terms (e.g., mitotic cell cycle, long-term memory) may reflect broad annotations on shared proteins but do not outweigh the muscle/calcium theme.","confidence":"High","size":29,"edges":73,"triangles":51,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":20},{"id":"GO:0060048","count":19},{"id":"GO:0007616","count":19},{"id":"GO:0098735","count":17},{"id":"GO:0005513","count":17}]},{"hash":"1657748576338921651","title":"Neural and Muscular Development Signaling","description":"The proteins are enriched for terms related to nervous system development, muscle contraction and sarcomere organization, and several signaling pathways (Roundabout, Smoothened/Hedgehog, Rho signaling, STAT phosphorylation) that coordinate development and differentiation in neural and muscular contexts. A broader signaling term (T cell receptor signaling) appears but the dominant theme is development-related signaling in neural and muscle tissues. ","confidence":"Medium","size":29,"edges":350,"triangles":2430,"max_degree":28,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035385","count":8},{"id":"GO:0035023","count":7},{"id":"GO:0045162","count":7},{"id":"GO:0050852","count":7},{"id":"GO:0007399","count":7}]},{"hash":"1200653448607889874","title":"Transcription Regulation and Ubiquitin-Mediated Degradation","description":"The cluster centers on DNA-templated transcription and its regulation, with strong signals for ubiquitin-related processes (ubiquitin-dependent protein catabolic process and multiple deubiquitinations at K29, K48, and K6) and spliceosomal assembly. This pattern points to a link between transcription control and ubiquitin-proteasome\u2013mediated protein turnover/quality control, possibly including ERAD-associated aspects. Despite no edges, the GO term set coherently suggests a transcription-centric proteostasis role.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":8},{"id":"GO:1904378","count":7},{"id":"GO:0035523","count":6},{"id":"GO:0006511","count":6},{"id":"GO:0071108","count":6}]},{"hash":"307425166345481971","title":"Developmental regulation and cell cycle","description":"The top GO terms point to developmental processes (heart development, skeletal muscle fiber development, Schwann cell development) and transcriptional control (DNA-templated transcription), with supporting cell-cycle signals (G2/M transition, mitotic cell cycle) and phosphorylation regulation, suggesting a cluster focused on development intertwined with cell-cycle control. Some terms (abscisic acid signaling, defense response) appear ancillary or cross-kingdom, but the core theme remains development and cell-cycle regulation.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":7},{"id":"GO:0007601","count":7},{"id":"GO:0009738","count":7},{"id":"GO:0000086","count":7},{"id":"GO:0007507","count":7}]},{"hash":"1483466500585768283","title":"ER-Golgi trafficking and cell cycle regulation","description":"The top terms emphasize ER-to-Golgi vesicle transport and retrograde Golgi-to-ER transport, along with mitotic cell cycle and cell division, pointing to a core theme of vesicle trafficking tied to cell cycle control. Growth signaling (TORC1) and stress responses (cadmium) further support a regulatory context. Some outliers (forebrain development, imprinting, rRNA maturation) exist, but the dominant pattern is trafficking-related proteins linked to cell cycle regulation.","confidence":"Medium","size":29,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:0000278","count":8},{"id":"GO:0071276","count":8},{"id":"GO:0006890","count":8},{"id":"GO:0051301","count":8}]},{"hash":"2193850255313797672","title":"Dopaminergic Neural Signaling and Vision","description":"This cluster is dominated by neural-related GO terms: dopaminergic synaptic transmission, visual perception/visual learning, and behavioral responses to cocaine, all pointing to brain signaling and sensory processing. The ERK1/ERK2 cascade enrichment further supports a common neuronal signaling pathway. While a few terms touch on non-neural roles, the prevailing theme is brain signaling and perception.","confidence":"Medium","size":29,"edges":404,"triangles":3600,"max_degree":28,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":22},{"id":"GO:0019233","count":22},{"id":"GO:0007601","count":22},{"id":"GO:0048148","count":22},{"id":"GO:0010759","count":22}]},{"hash":"1815289424131194910","title":"Transcriptional Control and Ubiquitin-Proteasome Regulation","description":"This cluster is dominated by GO terms related to nuclear gene expression and protein turnover: DNA-templated transcription, RNA Pol II transcription termination (including exosome-dependent), and ubiquitin-dependent protein catabolic processes (including K48-linked deubiquitination). While there are also terms linking to lymphatic/immune contexts and muscle fiber transitions, the common thread appears to be transcriptional control combined with proteostasis, suggesting proteins involved in gene expression regulation and protein degradation. ","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001946","count":6},{"id":"GO:0050774","count":6},{"id":"GO:0043029","count":5},{"id":"GO:0014883","count":5},{"id":"GO:0006511","count":5}]},{"hash":"2089920084530211159","title":"Neural adhesion and immune activation","description":"This cluster is enriched for both cell-cell adhesion terms (heterophilic and homophilic adhesion) and neural-development related terms (nervous system development, synapse assembly). In addition, many immune-related processes appear (innate immune response, complement activation, phagocytosis, T cell costimulation, B cell activation), with ossification suggesting possible bone-immune crosstalk. Taken together, the proteins likely participate in neural connection formation while engaging immune signaling and adhesion networks.","confidence":"Medium","size":29,"edges":37,"triangles":6,"max_degree":9,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":19},{"id":"GO:0007156","count":18},{"id":"GO:0007399","count":15},{"id":"GO:0043931","count":14},{"id":"GO:0006958","count":14}]},{"hash":"1677201667043248383","title":"Auditory synapse plasticity and vocalization","description":"This cluster is dominated by GO terms for auditory perception and social communication, including sensory perception of sound, vocalization behavior, and social behavior, along with synaptic plasticity and glutamatergic transmission. The presence of dendritic spine morphogenesis and regulation of synapse structure supports remodeling of auditory synapses, aligning with vocalization and social behaviors driven by sound cues. Therefore, a label focusing on auditory synapse plasticity and related communication fits best.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007605","count":6},{"id":"GO:0060997","count":5},{"id":"GO:0051835","count":5},{"id":"GO:0035176","count":5},{"id":"GO:0007205","count":5}]},{"hash":"1365354541407694762","title":"Bacterial fatty acid biosynthesis and lipid metabolism","description":"The top GO terms cluster around fatty acid biosynthesis, fatty acid transport, and fatty-acyl-CoA metabolism, with supportive signals from lipoteichoic acid biosynthesis and menaquinone biosynthesis, pointing to lipid construction and lipid-containing cofactors in bacteria. There is also a related but separate signal for nonribosomal peptide biosynthesis. A couple of plant-specific terms appear, but the dominant pattern strongly suggests a bacterial lipid metabolism/envelope biosynthesis theme.","confidence":"Medium","size":29,"edges":342,"triangles":2266,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1902987","count":11},{"id":"GO:0006633","count":11},{"id":"GO:0010030","count":10},{"id":"GO:0070395","count":10},{"id":"GO:0009234","count":10}]},{"hash":"1467674637960057389","title":"Unknown","description":"Unknown","confidence":"","size":29,"edges":401,"triangles":3525,"max_degree":28,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":26},{"id":"GO:0046677","count":7},{"id":"GO:0042254","count":6},{"id":"GO:0006407","count":5},{"id":"GO:0000028","count":4}]},{"hash":"1552094209703701796","title":"Chromatin Organization and Transcriptional Regulation","description":"The cluster is enriched for nucleosome assembly, histone modification, chromatin organization, and DNA-templated transcription, indicating a cohesive role in chromatin structure and gene expression control, with additional hints of development and pigmentation links in multicellular contexts.","confidence":"High","size":29,"edges":99,"triangles":150,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006334","count":7},{"id":"GO:0080182","count":5},{"id":"GO:0098532","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0007275","count":4}]},{"hash":"167964114498710567","title":"Embryonic brain and eye development regulators","description":"The most represented term is transcription by RNA polymerase II, pointing to transcription factors or co-regulators. Several top GO terms describe brain segmentation, rhombomere 5 development, pituitary gland development, and camera-type eye/retina morphogenesis, indicating a cohesive group involved in early CNS and ocular organogenesis. The mixture of CNS and eye-related developmental terms suggests a common theme of developmental transcriptional control during embryogenesis.","confidence":"High","size":29,"edges":404,"triangles":3601,"max_degree":28,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:0035470","count":11},{"id":"GO:0035284","count":11},{"id":"GO:0021571","count":11},{"id":"GO:0021983","count":10}]},{"hash":"1350655966082898636","title":"Mesodermal organ morphogenesis","description":"Top terms converge on development and morphogenesis of mesoderm-derived tissues (lung, heart ventricles, lymphatic vessels, thymus) and related differentiation programs, suggesting a shared theme of organogenesis across mesodermal lineages. While some terms touch on other developmental areas (oocyte growth, putamen development), the dominant pattern is mesodermal organ morphogenesis. Therefore, this label captures the cluster\u2019s core function.","confidence":"Medium","size":29,"edges":227,"triangles":897,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0001555","count":14},{"id":"GO:0048286","count":14},{"id":"GO:1990785","count":14},{"id":"GO:0002669","count":14},{"id":"GO:0021758","count":14}]},{"hash":"1975630179256234679","title":"ER Stress, ERAD, and Apoptosis","description":"This cluster centers on ER-associated degradation of misfolded proteins, maintenance of unfolded proteins in the ER, and downstream outcomes like apoptosis, including aggrephagy as a quality-control mechanism. The convergence on protein quality control in the endoplasmic reticulum and its link to cell death makes this an intuitive, specific label for the cluster.","confidence":"High","size":29,"edges":277,"triangles":1235,"max_degree":27,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:1904378","count":5},{"id":"GO:0097194","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0006915","count":5}]},{"hash":"490126989171519141","title":"Ubiquitin-Dependent Degradation and Immune Signaling","description":"The top GO terms indicate strong enrichment for ubiquitin-dependent protein catabolic processes, including ERAD and autoubiquitination, pointing to a central role in targeted protein turnover. Immune-related terms such as TNF signaling and I-kappaB phosphorylation, and V(D)J recombination, suggest additional immune-regulatory functions. Overall, the cluster seems defined by ubiquitin-mediated degradation with concurrent immune signaling involvement.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0030433","count":11},{"id":"GO:2000620","count":10},{"id":"GO:0070512","count":10},{"id":"GO:0033151","count":10}]},{"hash":"1857328702430700026","title":"Nucleotide biosynthesis and growth-factor signaling","description":"This cluster shows strong enrichment for nucleotide metabolism terms (dUDP, dTDP, dTTP biosynthesis and nucleoside monophosphate phosphorylation) along with signals related to growth factor response, myoblast differentiation, and hormonal/metal stress responses (estrogen, cadmium). The combination suggests proteins involved in nucleotide metabolism linked to growth and differentiation signaling rather than a single strict pathway. Therefore the label emphasizes both metabolic and signaling/differentiation roles.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":4},{"id":"GO:0046044","count":4},{"id":"GO:0046940","count":4},{"id":"GO:0071363","count":4},{"id":"GO:0006227","count":4}]},{"hash":"783196487182824807","title":"Cardiac development and conduction regulation","description":"Top GO terms indicate a cohesive theme around heart development and cardiac electrical activity: heart development, regulation of atrial and ventricular membrane potential, regulation of heart rate by conduction, and SA node action potential. A few terms like multicellular organism development and outflow tract morphogenesis further support a cardiovascular development/conduction cluster. Overall the set appears to reflect proteins involved in heart formation and rhythm regulation.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"transmembrane transport","top_go_terms":[{"id":"GO:0007507","count":8},{"id":"GO:0060371","count":7},{"id":"GO:0060307","count":7},{"id":"GO:0086091","count":7},{"id":"GO:0086015","count":6}]},{"hash":"1612419754146737135","title":"Embryonic Organogenesis and Neural Development","description":"This cluster is enriched for development-related processes across multiple tissues: nervous system development, synapse assembly, and cell adhesion, along with ossification and nephron development. The mix suggests a theme of embryonic organogenesis and tissue morphogenesis, with melanin biosynthesis reflecting neural crest\u2013derived pigmentation. Overall, the terms point to coordinated growth and specialization during development rather than a single tissue-restricted function.","confidence":"High","size":29,"edges":12,"triangles":0,"max_degree":12,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0043931","count":28},{"id":"GO:0007399","count":28},{"id":"GO:0051965","count":28},{"id":"GO:0007156","count":28},{"id":"GO:0007157","count":28}]},{"hash":"1079724615148270810","title":"Ubiquitination and Circadian Regulation","description":"The top GO terms are dominated by ubiquitin-dependent protein catabolic process and protein ubiquitination, with a notable contribution from regulation of circadian rhythm. This suggests a cohesive function centered on ubiquitin-mediated proteostasis and its links to circadian control. Other terms (nervous system development, distal tubule morphogenesis, renal sodium ion absorption) likely reflect broader roles of ubiquitination in development and signaling, but the unifying thread appears to be ubiquitin-driven protein turnover and its modulation by circadian processes.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0042752","count":8},{"id":"GO:0000209","count":7},{"id":"GO:0007399","count":7},{"id":"GO:0051260","count":7}]},{"hash":"5714221996803610","title":"Craniofacial and sensory organ development","description":"The top GO terms repeatedly involve development of craniofacial and sensory structures (trigeminal ganglion, eye/eye morphogenesis, inner ear, roof of mouth). There are supporting terms for embryonic development and neural regulation, plus signaling activity. Taken together, the proteins are best described as a craniofacial/sensory organ development cluster.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061551","count":6},{"id":"GO:0000122","count":6},{"id":"GO:0007338","count":6},{"id":"GO:0043010","count":5},{"id":"GO:0048839","count":5}]},{"hash":"76684918343203457","title":"Diverse Metabolite Biosynthesis","description":"Based on the top GO terms, the proteins are enriched across multiple biosynthetic pathways, including amino acid biosynthesis (threonine, homoserine, methionine), isoprenoid and cholesterol biosynthesis (mevalonate pathway, IPP, farnesyl diphosphate), and various carbohydrate-related metabolite productions (galacturonate, galactitol, fucose salvage). The common theme is synthesis of diverse small molecules, pointing to a broad biosynthetic/metabolic role rather than a single pathway.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046835","count":8},{"id":"GO:0006695","count":6},{"id":"GO:0009088","count":5},{"id":"GO:0046396","count":5},{"id":"GO:0042352","count":5}]},{"hash":"788399045162819384","title":"Cell Cycle and DNA Replication with MAPK/Wnt Signaling","description":"The top terms cluster around mitotic cell cycle, DNA replication and repair, and DNA-templated transcription, with strong links to signaling cascades (ERK/MAPK and JNK) and Wnt pathway regulation, plus focal adhesion remodeling. This points to a coherent theme of cell-cycle progression and DNA metabolism coordinated by signaling pathways and adhesion dynamics.","confidence":"High","size":29,"edges":4,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":24},{"id":"GO:0006260","count":24},{"id":"GO:0070374","count":22},{"id":"GO:0006281","count":20},{"id":"GO:0006351","count":20}]},{"hash":"1571656851320052079","title":"Notch signaling in epidermal differentiation and inflammation","description":"The top GO terms converge on Notch receptor processing, keratinocyte differentiation, cell adhesion, and inflammatory responses (TNF, inflammatory response) as well as sprouting angiogenesis, suggesting a theme around Notch-mediated epidermal differentiation and tissue remodeling with an inflammatory component. Redox-related terms and metal ion response are present but less central to the core theme. Overall, a Notch- and epidermis-focused cluster best fits these functions, albeit with some heterogeneity.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":11},{"id":"GO:0098869","count":10},{"id":"GO:0051965","count":9},{"id":"GO:0007156","count":9},{"id":"GO:0030216","count":9}]},{"hash":"1303998080621527048","title":"Epidermal differentiation and ECM signaling","description":"The top GO terms center on keratinocyte differentiation, Notch/BMP signaling, VEGF signaling, and inflammatory responses, alongside collagen organization/biosynthesis and integrin-mediated adhesion, indicating a theme of epidermal cell differentiation coupled with extracellular matrix remodeling and ECM\u2013cell signaling.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1900748","count":11},{"id":"GO:0032331","count":11},{"id":"GO:0030216","count":10},{"id":"GO:0034612","count":10},{"id":"GO:0007220","count":10}]},{"hash":"938696845111067065","title":"Ubiquitin-Dependent Protein Degradation","description":"The top GO terms show a tight focus on ubiquitination and proteolysis, including ubiquitin-dependent protein catabolic process, various ubiquitin linkages (K48, K63), polyubiquitination, autoubiquitination, and ERAD-related pathways, with histone catabolic process also aligning with degradation. This suggests the cluster represents proteins involved in tagging substrates for proteasomal or ER-associated degradation, potentially modulating signaling pathways like TNF signaling through ubiquitination.","confidence":"High","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":19},{"id":"GO:0051865","count":14},{"id":"GO:1903265","count":13},{"id":"GO:0085020","count":13},{"id":"GO:0036205","count":13}]},{"hash":"2198536388262545273","title":"Immune cell adhesion and T cell signaling","description":"The top GO terms point to cell-cell adhesion (heterophilic and homophilic) combined with immune signaling: T cell costimulation, regulation of T cell proliferation, and macrophage activation, plus actin cytoskeleton regulation tied to adhesion and synapse assembly. This suggests a module focused on immune cell contacts and signaling, i.e., immune synapse\u2013like processes, with a note that symbiont entry terms may reflect host-pathogen interaction contexts. ","confidence":"High","size":29,"edges":164,"triangles":320,"max_degree":20,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":18},{"id":"GO:0046718","count":16},{"id":"GO:1905404","count":16},{"id":"GO:0031295","count":16},{"id":"GO:0046007","count":16}]},{"hash":"952301808586572371","title":"Embryonic Development and Organ Morphogenesis","description":"These GO terms cluster around developmental differentiation and organ formation across multiple tissues (placenta, cartilage, endocrine organs, heart, pancreas). The presence of trophoblast giant cell differentiation, placental development, cartilage morphogenesis, left/right patterning, and EMT-related heart formation points to a shared theme of embryogenesis and organ morphogenesis. A few outlier terms (viral release, dopamine response, TLR signaling) are less central to this theme but do not override the overall developmental signal.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":3},{"id":"GO:0060806","count":3},{"id":"GO:0060536","count":3},{"id":"GO:0035270","count":3},{"id":"GO:0060972","count":3}]},{"hash":"1313168273568027582","title":"Cell adhesion and neural development","description":"The top GO terms cluster around cell-cell adhesion and nervous system development, including heterophilic cell-cell adhesion, axonal fasciculation, synapse assembly, and nervous system development. While there are also bone/skeletal development and innate immune terms in the list, the strongest signal points to adhesion-mediated neural development processes, suggesting a coherent theme of adhesion guiding neural wiring. The presence of multiple related terms and re-added proteins supports a meaningful cluster, yielding a Medium confidence.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":16},{"id":"GO:0046718","count":15},{"id":"GO:0032516","count":13},{"id":"GO:0043931","count":12},{"id":"GO:0007399","count":12}]},{"hash":"92273217105113153","title":"Innate immune signaling and inflammatory regulation","description":"The cluster\u2019s top GO terms are dominated by innate immune response, defense against virus, and regulation of inflammatory signaling (negative regulation of IL-1\u03b2 production, negative regulation of MAP kinase activity, glucocorticoid metabolic process). Cytoskeletal remodeling terms (stress fiber assembly, substrate adhesion-dependent spreading) also appear, which can accompany immune cell activation. While a few terms like sensory perception of sound and nutrient response are less directly related, the overall theme ties to immune signaling and inflammatory control.","confidence":"Medium","size":29,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007605","count":4},{"id":"GO:0007584","count":3},{"id":"GO:1900026","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3}]},{"hash":"105165589006366869","title":"Central carbon metabolism","description":"The cluster shows strong representation of core metabolic pathways: glycolysis, the TCA cycle, acetyl-CoA and succinyl-CoA metabolism, 2-oxoglutarate, and leucine catabolism, plus thiamine biosynthesis, indicating a cohesive role in energy production and carbon flux. Some obsolete terms appear but the dominant theme is central energy metabolism.","confidence":"High","size":28,"edges":18,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":4},{"id":"GO:0009228","count":4},{"id":"GO:0006552","count":4},{"id":"GO:0006096","count":3},{"id":"GO:0043046","count":3}]},{"hash":"1006936918487364680","title":"Adaptive Immune Activation and Signaling","description":"The cluster is dominated by GO terms tied to activation and signaling of immune cells (T and B cell costimulation, B cell receptor signaling, T cell proliferation), along with innate immune responses, complement activation, phagocytosis, and cell-cell adhesion. This pattern suggests a cohesive module of immune activation coordinating both innate and adaptive responses and intercellular communication.","confidence":"High","size":28,"edges":17,"triangles":0,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:2000649","count":7},{"id":"GO:0006911","count":6},{"id":"GO:0031295","count":6},{"id":"GO:0050871","count":6},{"id":"GO:0042102","count":6}]},{"hash":"2152691632872554054","title":"Neuronal development and synapse formation","description":"The top GO terms cluster around nervous system development, synapse assembly, axon guidance, and cell adhesion, suggesting these proteins participate in establishing neural connectivity. Several terms indicate neuronal adhesion (homophilic/heterophilic cell-cell adhesion) and guidance cues, consistent with axon pathfinding and synapse formation. While there are a few divergent terms like ossification and innate immune response, the predominant theme is neural development and synaptic organization.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":9},{"id":"GO:0014068","count":7},{"id":"GO:0007156","count":6},{"id":"GO:0007411","count":6},{"id":"GO:0043931","count":6}]},{"hash":"1540945339832036887","title":"Nervous system development and neural crest migration","description":"The cluster is dominated by GO terms tied to nervous system development, axonal fasciculation, sympathetic neuron projection, neural crest cell migration, and synapse assembly, which point to a coherent theme of neural development and connectivity. Additional terms about bone ossification and classical complement activation appear but are less representative of the cluster\u2019s primary function. Overall, the proteins seem to share roles in neural development and network formation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006958","count":17},{"id":"GO:0007157","count":16},{"id":"GO:0043931","count":15},{"id":"GO:0007275","count":14},{"id":"GO:0007399","count":14}]},{"hash":"1114700097958836040","title":"Mitotic division and cell polarity","description":"Based on top terms: GO:0051301 (cell division), GO:0000278 (mitotic cell cycle), GO:0000281 (mitotic cytokinesis), GO:0010458 (exit from mitosis), GO:0000917 (division septum assembly), and GO:0030011 (maintenance of cell polarity) suggest a cohesive theme around mitosis and how cells divide and organize their membranes/cytoskeleton. A few terms like neuron projection development and ribosome biogenesis are less central but can be linked to cytoskeletal dynamics or general growth. Thus the cluster most plausibly represents mitotic division machinery with associated polarity regulation.","confidence":"High","size":28,"edges":76,"triangles":79,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":11},{"id":"GO:0000278","count":10},{"id":"GO:0031175","count":9},{"id":"GO:0000281","count":8},{"id":"GO:0000747","count":7}]},{"hash":"596189863550555322","title":"Ubiquitin-Proteasome and Autophagy Protein Quality Control","description":"The cluster is dominated by GO terms about ubiquitination and proteasomal regulation (protein deubiquitination, ubiquitin-dependent ERAD, protein autoubiquitination, negative regulation of proteasomal protein catabolic process) plus autophagy-related processes (aggrephagy) and related quality-control steps (deglycosylation, vesicle formation). This suggests a cohesive role in cellular protein quality control through ubiquitin-proteasome and autophagy pathways. A minority term about GnRH neuron development appears less central to the core theme. ","confidence":"High","size":28,"edges":376,"triangles":3225,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":20},{"id":"GO:0030433","count":15},{"id":"GO:0033132","count":14},{"id":"GO:0035973","count":14},{"id":"GO:1901799","count":14}]},{"hash":"904967807977378577","title":"Immune signaling and actin dynamics","description":"Top GO terms indicate strong involvement in both immune signaling (adaptive and innate immune responses; regulation of JNK cascade; EGFR signaling) and cytoskeletal regulation (regulation of Rho signaling; positive regulation of GTPase activity; barbed-end actin filament capping; synapse structural plasticity). The convergence of immune response pathways with actin remodeling suggests a cluster of proteins that mediate signal transduction in immune cells while coordinating cytoskeletal changes, consistent with roles in cell migration, synapse formation, and immune activation.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046328","count":13},{"id":"GO:0002250","count":11},{"id":"GO:0045087","count":11},{"id":"GO:0035023","count":11},{"id":"GO:0043547","count":10}]},{"hash":"2284885831854608672","title":"Immune Signaling and T Cell Activation","description":"The cluster is dominated by GO terms related to immune processes and signaling\u2014innate immune response, NF-kappaB regulation, IL-12 response, T cell receptor signaling, regulation of T cell proliferation, and ERK cascade. These point to immune signal transduction and activation, with a few developmental terms likely reflecting shared signaling components rather than a dedicated developmental program. Confidence: Medium","confidence":"","size":28,"edges":10,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0051092","count":5},{"id":"GO:0070671","count":5},{"id":"GO:0048701","count":4},{"id":"GO:0070374","count":4}]},{"hash":"920218842733785291","title":"Neural development and synaptic signaling","description":"The cluster is enriched for brain development, regulation of synaptic vesicle exocytosis, and cellular responses to dopamine, suggesting a core theme of neuronal development and neurotransmission. Some terms are less neural (e.g., mating projection growth), but the dominant signal points to neural growth and synaptic function. ","confidence":"Medium","size":28,"edges":207,"triangles":493,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007420","count":7},{"id":"GO:0031384","count":6},{"id":"GO:0010796","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0042088","count":6}]},{"hash":"1380219286142058260","title":"Epithelial Polarity and Microvilli Assembly","description":"The Top Terms cluster around establishment of epithelial polarity (apical/basal polarity), microvillus/terminal web assembly, and regulation of cytoskeletal dynamics via Rho signaling. EMT-related terms indicate remodeling of the epithelial state, with additional signals from nitric oxide synthase activity and cAMP response suggesting coordinated signaling during epithelial differentiation and cytoskeletal organization. Taken together, this cluster centers on epithelial cell polarity and microvilli/cytoskeletal architecture.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0001837","count":10},{"id":"GO:1902896","count":9},{"id":"GO:0051000","count":9},{"id":"GO:0045198","count":7},{"id":"GO:0010718","count":7}]},{"hash":"797283402777830789","title":"Neural development and JNK signaling","description":"This cluster is enriched for nervous system development terms (nervous system development, hippocampus development, dendrite morphogenesis, axon extension) and includes positive regulation of the JNK cascade, suggesting a core role in neuronal differentiation and MAPK signaling. While some cell cycle-related terms are present, they appear less central to the dominant neural development theme.","confidence":"High","size":28,"edges":109,"triangles":132,"max_degree":17,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":25},{"id":"GO:0007399","count":25},{"id":"GO:0046330","count":24},{"id":"GO:0045773","count":24},{"id":"GO:0000278","count":24}]},{"hash":"1244578888173899570","title":"Vesicle trafficking and mitotic regulation","description":"Many terms point to vesicle trafficking and endosome/vacuole dynamics (plasma membrane to endosome transport; regulation of vacuole fusion; intracellular protein transport). Others emphasize cell-cycle control and spindle signaling (mitotic spindle orientation checkpoint signaling; negative regulation of septation initiation signaling; negative regulation of protein localization to the spindle pole body) and associated signaling pathways (Rap signaling; calcineurin-NFAT). Together, they define a theme of trafficking-associated regulation of mitosis and related signaling.","confidence":"Medium","size":28,"edges":1,"triangles":0,"max_degree":1,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048227","count":5},{"id":"GO:0032486","count":5},{"id":"GO:0032889","count":5},{"id":"GO:0031578","count":5},{"id":"GO:1902543","count":4}]},{"hash":"1232148484109821959","title":"Actin cytoskeleton remodeling and mitosis regulation","description":"The cluster shows strong representation of actin-related processes (cortical patch localization, filament depolymerization, Arp2/3 regulation) together with mitotic functions (spindle assembly, mitotic cell cycle). Additional terms touch on ubiquitination, histone modification, and developmental/immune contexts (neural tube closure, T cell proliferation), suggesting a cohesive theme around cytoskeletal dynamics coupled to cell division and development. This combination supports a label focused on actin dynamics linked to mitosis, with broader developmental and immune roles.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000209","count":5},{"id":"GO:0090307","count":5},{"id":"GO:0051666","count":5},{"id":"GO:0030042","count":5},{"id":"GO:0043982","count":4}]},{"hash":"1497158745578170331","title":"Chromatin Regulation and Histone Modifications","description":"The cluster centers on chromatin state control, with multiple terms for heterochromatin formation (subtelomeric and rDNA) and gene expression regulation, plus replication fork protection. It also includes post-translational modifications like peptidyl-lysine acetylation and N-terminal propionylation, common modifiers of chromatin-associated proteins. Some terms such as angiogenesis and leaf formation suggest broader developmental contexts, but the core theme is transcriptional control through chromatin modification.","confidence":"Medium","size":28,"edges":22,"triangles":1,"max_degree":5,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0001525","count":10},{"id":"GO:0006348","count":9},{"id":"GO:0018003","count":8},{"id":"GO:0006349","count":7},{"id":"GO:0000183","count":7}]},{"hash":"355280445116193579","title":"Chromatin remodeling and transcription regulation","description":"The cluster is enriched in chromatin-related processes, including negative regulation of RNA polymerase II transcription, chromatin assembly during DNA replication, transcription initiation-coupled chromatin remodeling, and heterochromatin formation, suggesting a core function in chromatin organization and transcription control. Secondary terms like protein localization to chromatin and Rho signaling are supportive but less central.","confidence":"High","size":28,"edges":310,"triangles":1884,"max_degree":27,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0000122","count":17},{"id":"GO:0051290","count":15},{"id":"GO:0071169","count":9},{"id":"GO:0031532","count":8},{"id":"GO:0006915","count":8}]},{"hash":"509529636322919161","title":"Organ development and morphogenesis","description":"Top GO terms emphasize organ identity maintenance, hair follicle placode formation, cell migration, and regulation of signaling pathways (notably Wnt), all of which are central to tissue development and morphogenesis. While a few terms pertain to basic cellular logistics (GTPase regulation, nuclear import, vacuole inheritance) these do not redefine the cluster's theme. Overall, the proteins appear linked to developmental patterning and morphogenetic processes rather than a single enzymatic pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048496","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0000011","count":7},{"id":"GO:0006607","count":7},{"id":"GO:0016477","count":7}]},{"hash":"490727598995063441","title":"Unknown","description":"Unknown","confidence":"","size":28,"edges":13,"triangles":2,"max_degree":5,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006378","count":8},{"id":"GO:0098789","count":6},{"id":"GO:0045292","count":4},{"id":"GO:0006398","count":4},{"id":"GO:0033138","count":3}]},{"hash":"2260506907596780695","title":"Innate Immunity and ECM Remodeling","description":"The prominent terms include cellular response to lipopolysaccharide, TLR9 signaling, and macrophage activation, indicating innate immune sensing. At the same time, collagen fibril organization, response to mechanical stimulus, and negative regulation of angiogenesis point to extracellular matrix remodeling and tissue remodeling processes. The presence of reproductive development terms suggests tissue-contextual roles, but the shared theme appears to be immune signaling linked to remodeling and angiogenesis.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0030199","count":7},{"id":"GO:0042552","count":5},{"id":"GO:0031663","count":5},{"id":"GO:0007565","count":5}]},{"hash":"451563100322266129","title":"Rho GTPase signaling and actin remodeling","description":"Top GO terms center on regulation of Rho protein signal transduction and GTPase activity, with downstream effects on actin crosslinking and ERK signaling, plus thrombin receptor signaling and endothelial cell migration. This points to a core theme of cytoskeletal remodeling and coordinated signaling controlled by Rho GTPases, relevant to platelet function, vascular dynamics, and related immune signaling.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0070493","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0051092","count":4},{"id":"GO:0043087","count":3}]},{"hash":"2108575632264145210","title":"Bacterial lipid and secondary metabolite biosynthesis","description":"The top terms point to lipid- and fatty-acid-related biosynthesis and transport (lipoteichoic acid biosynthesis, fatty acid and acyl-CoA metabolism, fatty-acid transport), along with related secondary metabolite pathways (menaquinone, nonribosomal peptide biosynthesis) and even bioluminescence, suggesting a bacterial context centered on lipid/secondary metabolite production and handling. Some plant-specific terms (phenylpropanoid metabolism, seed germination) may be annotation noise or cross-species mappings, but they don\u2019t override the core bacterial biosynthetic theme.","confidence":"Medium","size":28,"edges":51,"triangles":8,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070395","count":10},{"id":"GO:0006633","count":9},{"id":"GO:0010030","count":8},{"id":"GO:0009234","count":8},{"id":"GO:0001579","count":8}]},{"hash":"1440076522514314518","title":"N-terminal and polyamine acetylation","description":"The top GO terms are dominated by acetylation-related processes: N-terminal peptidyl-serine acetylation, N-terminal protein propionylation, spermidine acetylation, and putrescine acetylation, pointing to a common theme of acetylation-based post-translational modification. Additional metabolism terms (glucosamine, arginine biosynthesis) are present but secondary, with a few development terms (leaf formation, angiogenesis) that may reflect broader roles of acetylation in growth. Overall, the cluster appears centered on acetylation pathways and related modifications. ","confidence":"High","size":28,"edges":373,"triangles":3152,"max_degree":27,"top_function":null,"top_go_terms":[{"id":"GO:0017198","count":24},{"id":"GO:0061606","count":23},{"id":"GO:0045150","count":23},{"id":"GO:0006041","count":23},{"id":"GO:2000025","count":23}]},{"hash":"198780252394634713","title":"Immune Cell Adhesion and Regulation","description":"This cluster is dominated by terms related to cell-cell adhesion and immune modulation, including heterophilic adhesion, immune synapse assembly, actin cytoskeleton regulation by adhesion, and negative regulation of NK and T cell activities, plus dendritic cell differentiation and macrophage activation control. The combination suggests a coherent theme of immune cell communication and adhesion-driven signaling. A outlier like symbiont entry into host cells may reflect host\u2013pathogen interaction contexts but does not override the core immune-regulatory pattern.","confidence":"High","size":28,"edges":115,"triangles":413,"max_degree":17,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":13},{"id":"GO:0043031","count":13},{"id":"GO:0051963","count":13},{"id":"GO:0007157","count":13},{"id":"GO:0043931","count":12}]},{"hash":"863829987021590385","title":"Embryonic organogenesis and transcriptional regulation","description":"The cluster is dominated by diverse organ development terms (heart, eye, hindlimb, pituitary, habenula, gonad, pancreatic cells) and embryonic morphogenesis, plus a broader term for negative regulation of transcription by RNA polymerase II. This suggests a shared theme of embryonic organ development guided by transcriptional control, making the label representative of the cluster\u2019s function.","confidence":"High","size":28,"edges":5,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0007507","count":11},{"id":"GO:0008584","count":11},{"id":"GO:0043010","count":10},{"id":"GO:0003148","count":10}]},{"hash":"2159117718676415893","title":"Embryonic organ development and morphogenesis","description":"Proteins in this cluster are enriched for GO terms tied to embryonic development and morphogenesis across multiple organs: neural crest cell migration; endocrine pancreas development; roof of mouth development; ureteric bud branching morphogenesis; embryonic digestive tract morphogenesis; camera-type eye development; lung morphogenesis; embryonic eye morphogenesis; and transcription by RNA polymerase II, including negative regulation. The common thread is embryonic organogenesis and tissue shaping across diverse systems, indicating a cohesive developmental role.","confidence":"High","size":28,"edges":40,"triangles":3,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":14},{"id":"GO:0001755","count":12},{"id":"GO:0031018","count":12},{"id":"GO:0060021","count":12},{"id":"GO:0090190","count":12}]},{"hash":"1475374844107242939","title":"Ubiquitin-Proteasome Regulation and Antiviral Defense","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein degradation and ubiquitination (e.g., ubiquitin-dependent proteolysis, protein ubiquitination, SCF-dependent proteasomal pathways) and includes immune-related terms (defense response to virus, innate immune response), suggesting a coordinated role of ubiquitin-mediated proteolysis in antiviral defense.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":16},{"id":"GO:0000209","count":10},{"id":"GO:0042752","count":9},{"id":"GO:0030433","count":9},{"id":"GO:0051607","count":8}]},{"hash":"1114122318675916885","title":"Developmental Regulation and Gene Expression","description":"Most top GO terms describe developmental processes (brain development, neural tube closure, male gonad and multicellular organism development) and gene expression control (DNA-templated transcription, TGF-beta response, histone methylation). Together these suggest a cluster enriched for developmental regulation and transcriptional control, making this label representative, despite a couple outlier terms like virion assembly.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010667","count":3},{"id":"GO:0050714","count":2},{"id":"GO:0019068","count":2},{"id":"GO:0008584","count":2},{"id":"GO:0007275","count":2}]},{"hash":"2255009261219103931","title":"GPCR Signaling in Vascular and Immune Regulation","description":"The cluster\u2019s GO terms highlight GPCR signaling (dopamine/serotonin receptor pathways, PLC activation, arrestin desensitization) together with vascular effects (blood pressure regulation, smooth muscle contraction) and immune cell traffic (monocyte chemotaxis), suggesting a cohesive GPCR-mediated vascular-immune regulatory theme.","confidence":"High","size":28,"edges":75,"triangles":27,"max_degree":11,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":28},{"id":"GO:0007191","count":28},{"id":"GO:0071380","count":28},{"id":"GO:0090026","count":27},{"id":"GO:0002032","count":27}]},{"hash":"1874120810051793180","title":"mRNA Splicing and Translation Reinitiation","description":"The top GO terms point strongly to spliceosome-mediated mRNA splicing and its regulation, with several entries focused on regulatory aspects of splicing. In addition, there are multiple terms related to translation initiation and reinitiation, including preinitiation complex formation and viral IRES-driven processes, suggesting a connection between RNA processing and translation control within this cluster. This combination supports labeling the cluster as RNA processing with a translation-control theme.","confidence":"Medium","size":28,"edges":326,"triangles":2222,"max_degree":27,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":22},{"id":"GO:0031047","count":18},{"id":"GO:0048026","count":17},{"id":"GO:0075525","count":16},{"id":"GO:1900363","count":16}]},{"hash":"2298620439873545434","title":"Fungal Innate Immunity and Phagocytosis","description":"The cluster is dominated by terms tied to innate antifungal responses, including cellular response to fungal molecules, lectin pathway complement activation, phagocytosis and Fc-gamma receptor signaling, and basophil/NK cell regulatory processes, suggesting a cohesive theme around fungal recognition and phagocytic defense. A couple of developmental terms (cartilage condensation, metanephric limb development) appear incidental. ","confidence":"High","size":28,"edges":279,"triangles":1457,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0071226","count":26},{"id":"GO:0001502","count":22},{"id":"GO:0060355","count":18},{"id":"GO:0001867","count":18},{"id":"GO:0051873","count":18}]},{"hash":"1898145126994063607","title":"Bioelectrical signaling in muscle and sensory systems","description":"The cluster shows a clear emphasis on ion transport and electrical signaling in muscle and sensory contexts: potassium channel/transmembrane transport, membrane repolarization in cardiac muscle, calcium-response pathways, and sensory modalities like touch and pain. While there are some broader terms (thermogenesis, skin development), the dominant theme is ion-channel\u2013mediated signaling linked to muscle and sensory function, justifying this label as representative of the cluster.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098914","count":10},{"id":"GO:0050976","count":10},{"id":"GO:0051592","count":9},{"id":"GO:0034465","count":9},{"id":"GO:0071502","count":9}]},{"hash":"1174385300589566368","title":"Glycosylation and cell wall biosynthesis","description":"Top GO terms cluster around glycan assembly and modification, including teichoic acid biosynthesis, proteoglycan biosynthesis (heparan and chondroitin), and various protein O-linked glycosylation pathways, supported by UDP-glucose metabolism. This suggests a cohesive theme of glycan biosynthesis at the cell surface or extracellular matrix, spanning both bacterial cell wall components and vertebrate proteoglycans. Therefore, the label captures the central function of the cluster.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":9},{"id":"GO:0019350","count":8},{"id":"GO:0016266","count":7},{"id":"GO:0015012","count":6},{"id":"GO:0050650","count":6}]},{"hash":"2232852680128492262","title":"Nervous System Development and Synapse Assembly","description":"The proteins are strongly associated with nervous system development and synapse assembly, plus heterophilic cell\u2013cell adhesion and collagen fibril organization, indicating ECM remodeling during neural wiring. Additional links to angiogenesis and innate immune signaling suggest broader developmental and tissue remodeling context, but the core signal is neural development and synaptic organization.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051965","count":9},{"id":"GO:0014068","count":9},{"id":"GO:0001501","count":9},{"id":"GO:0007399","count":8},{"id":"GO:0007157","count":8}]},{"hash":"763983791100573484","title":"Dopaminergic signaling and drug response","description":"The cluster shows strong enrichment for neural signaling terms: dopaminergic synaptic transmission, visual perception/learning, pain perception, and behavioral responses to cocaine and morphine, all pointing to neural reward, sensory processing, and drug-response pathways. ERK1/2 cascade also supports activity-regulated signaling in neurons. A few terms like macrophage chemotaxis, prostaglandin response, and heart development may reflect broader signaling roles or pleiotropy, but the core theme is neural signaling related to reward and sensory processing.","confidence":"High","size":28,"edges":290,"triangles":1463,"max_degree":26,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":19},{"id":"GO:0048148","count":17},{"id":"GO:0010759","count":17},{"id":"GO:0070374","count":17},{"id":"GO:0008542","count":17}]},{"hash":"1594957067229161860","title":"Protein Translation Machinery","description":"The dominant GO signal is translation (GO:0006412) with 19 proteins, indicating a core cluster of ribosomal/translation-related components. Other terms suggest related stress responses and regulatory links, but the primary theme is protein synthesis machinery. Overall, this cluster fits best as a translation/ribosome-related group.","confidence":"High","size":28,"edges":378,"triangles":3276,"max_degree":27,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":19},{"id":"GO:0009636","count":7},{"id":"GO:0045071","count":7},{"id":"GO:0046677","count":6},{"id":"GO:0021610","count":6}]},{"hash":"1324976376811820754","title":"Dopaminergic Neuronal Signaling and Drug Response","description":"The cluster centers on dopaminergic synaptic transmission and drug-related behaviors, with terms like responses to cocaine and morphine, visual perception and learning, and ERK signaling, pointing to dopamine-driven neural signaling and plasticity. An outlier term like heart development may reflect annotation bleed-through rather than a core theme. Overall, it resembles a dopamine-mediated neuronal signaling and drug-response module.","confidence":"Medium","size":28,"edges":175,"triangles":256,"max_degree":16,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":22},{"id":"GO:0019233","count":21},{"id":"GO:0007507","count":21},{"id":"GO:0048148","count":20},{"id":"GO:0010759","count":20}]},{"hash":"1165539699067290170","title":"Vascular development, coagulation, and innate immunity","description":"The top GO terms cluster around complement activation, blood coagulation (and its regulation), and positive regulation of angiogenesis, pointing to vascular, hemostatic, and innate immune functions. Additional terms related to development and tissue formation fit within a broader vascular-developmental context, with defense against Gram-positive bacteria highlighting immune readiness. Collectively, these themes tie together vascular formation, clotting, and immune defense, justifying this label.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006958","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0014068","count":6},{"id":"GO:0071333","count":6},{"id":"GO:0009791","count":6}]},{"hash":"1931240536343124741","title":"DNA Repair and Meiotic Spindle Assembly","description":"Top GO terms point to DNA repair pathways (base-excision repair, nucleotide-excision repair) and meiotic cell division processes (meiotic cell cycle, spindle assembly in female meiosis II). This suggests the proteins cluster around genome maintenance coupled with meiosis/spindle organization, though some terms are obsolete or developmentally oriented (bicoid mRNA localization), which may reflect annotation noise or multifunctionality. Confidence: Medium","confidence":"","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070940","count":2},{"id":"GO:0045008","count":2},{"id":"GO:0006284","count":2},{"id":"GO:0006289","count":2},{"id":"GO:0032074","count":2}]},{"hash":"1678072419205192784","title":"Angiogenesis and Kidney Development with Hormone Regulation","description":"This cluster shows strong signals for kidney development (loop of Henle development) and angiogenesis (endothelial cell proliferation in sprouting angiogenesis), along with growth factor (FGF) production and thyroid hormone generation, pointing to coordinated vascular/renal development and hormonal regulation as a core theme. Additional terms like tissue homeostasis and cellular oxidant detoxification support a broader developmental and homeostatic context.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0032495","count":3},{"id":"GO:0006590","count":3},{"id":"GO:0048661","count":3},{"id":"GO:0090271","count":3}]},{"hash":"1883242774586222638","title":"Interferon-dsRNA Mediated Innate Immunity","description":"The cluster is dominated by GO terms tied to antiviral innate responses: dsRNA sensing, type I interferon signaling, and general innate immune activation, indicating these proteins likely participate in dsRNA-triggered interferon-mediated immunity. A few terms related to cell division appear but do not define the core theme. ","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":7},{"id":"GO:0071360","count":5},{"id":"GO:0050689","count":5},{"id":"GO:0071357","count":5},{"id":"GO:0045087","count":5}]},{"hash":"623170577254220123","title":"Chromatin Modification and Ribosome Biogenesis","description":"The cluster is dominated by terms related to DNA-templated transcription and chromatin state (histone acetylation and methylation) along with rRNA maturation and formation of the translation preinitiation complex, pointing to a core theme of gene expression regulation and ribosome biogenesis. Some terms like seminiferous tubule development and ER-Golgi transport appear peripheral or reflective of broader roles, but the strongest signal centers on chromatin regulation and ribosome assembly.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0043982","count":5},{"id":"GO:0061087","count":5},{"id":"GO:0000463","count":5},{"id":"GO:0000466","count":5}]},{"hash":"242513230147179973","title":"Telomere maintenance and telomeric localization","description":"The cluster is dominated by GO terms related to telomere maintenance, telomere capping, and localization to telomeric regions, including regulation by telomerase and telomere-binding processes. ADP-ribosylation terms (PARP-related) further support a chromatin/DNA-damage\u2013related telomere context, with only a few terms suggesting other processes like spindle assembly or general mRNA processing. Overall, the telomere-related signals best explain the cluster\u2019s functional theme.","confidence":"High","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0010745","count":5},{"id":"GO:1904355","count":5},{"id":"GO:1904908","count":5},{"id":"GO:1904743","count":5},{"id":"GO:0051225","count":5}]},{"hash":"1992364911516027932","title":"Developmental signaling and cytoskeletal regulation","description":"The set combines developmental processes (myelination in the peripheral nervous system and bone development) with prominent cytoskeletal and signaling regulators (stress fiber assembly, Rho and GTPase activity, cell spreading, GPCR internalization, and phosphorylation). This pattern points to proteins that coordinate developmental signaling with cytoskeletal dynamics and adhesion, rather than a single, isolated pathway.","confidence":"Medium","size":28,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0022011","count":5},{"id":"GO:0060348","count":5},{"id":"GO:1900026","count":5},{"id":"GO:0051496","count":5},{"id":"GO:0051497","count":5}]},{"hash":"852795853001946691","title":"Actin-Driven Development and Migration","description":"The cluster centers on actin cytoskeleton processes (filament assembly, depolymerization regulation) that underpin cell movement and morphogenesis across multiple contexts (neuronal migration, platelet function, seed morphogenesis, and developmental regulation), suggesting a unifying theme around actin-mediated remodeling in development and migration.","confidence":"Medium","size":27,"edges":233,"triangles":984,"max_degree":26,"top_function":null,"top_go_terms":[{"id":"GO:0070527","count":23},{"id":"GO:0097477","count":23},{"id":"GO:0048317","count":21},{"id":"GO:2000691","count":21},{"id":"GO:0051017","count":21}]},{"hash":"153659925232745896","title":"Gonad and reproductive organ development","description":"Most Top Terms center on gonad development in both sexes (female and male) and uterus development, pointing to a cluster of proteins involved in reproductive organ formation and differentiation. The other terms\u2014response to vitamin D, regulation of non-canonical NF-kappaB signaling, redox homeostasis/detoxification, and ubiquitin-related ERAD/autoubiquitination\u2014likely reflect general cellular maintenance processes that support development and function of reproductive tissues. Overall, the theme is reproductive organ development with supporting cellular context.","confidence":"High","size":27,"edges":171,"triangles":694,"max_degree":18,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0008585","count":6},{"id":"GO:0008584","count":5},{"id":"GO:0042345","count":5},{"id":"GO:0045454","count":5},{"id":"GO:0098869","count":5}]},{"hash":"2279608909570664263","title":"Diverse metabolite biosynthesis","description":"The GO terms suggest involvement in a range of biosynthetic and metabolic processes across different metabolite types (retinoids, alkaloids, lipids like mycolic acids, and cofactor biosynthesis), along with some transcriptional regulation. This indicates a cluster of proteins tied to general biosynthesis/metabolism rather than a single, cohesive pathway, hence a label reflecting broad metabolite biosynthesis. ","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042572","count":8},{"id":"GO:0006355","count":7},{"id":"GO:0017000","count":7},{"id":"GO:0009710","count":7},{"id":"GO:0045150","count":7}]},{"hash":"1290069227071144024","title":"Developmental Signaling and Adhesion Regulators","description":"The top GO terms span immune cytokine signaling (STAT phosphorylation, IL-27 signaling, T-helper 2 cytokine production, TLR9 regulation), neural development and plasticity (dendrite self-avoidance, synaptic plasticity), and developmental morphogenesis/adhesion (hemidesmosome assembly, nephric duct morphogenesis, FSH response). This suggests a cluster of proteins that act as broad signaling or adhesion regulators across multiple tissues and developmental contexts, rather than a single pathway.","confidence":"Medium","size":27,"edges":343,"triangles":2742,"max_degree":26,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042517","count":20},{"id":"GO:0035745","count":20},{"id":"GO:0070106","count":20},{"id":"GO:0031581","count":19},{"id":"GO:0071372","count":19}]},{"hash":"2225341568121681993","title":"Developmental transcription and tissue differentiation","description":"The cluster centers on DNA-templated transcription and multiple tissue development/differentiation processes (mammary gland alveolus, Leydig cell, fat cell, retinal cone cell development) as well as in utero embryonic development. While there is some immune signaling content (LPS response, interferon pathway regulation), the dominant theme is developmental gene regulation across diverse tissues, suggesting these proteins broadly contribute to development and differentiation rather than a single tissue-specific function.","confidence":"Medium","size":27,"edges":84,"triangles":99,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":11},{"id":"GO:2001275","count":9},{"id":"GO:0060749","count":9},{"id":"GO:0033327","count":9},{"id":"GO:0045444","count":8}]},{"hash":"779227475593510476","title":"Unknown","description":"The top GO terms cover a very wide range of biological processes (cell fusion, bone differentiation, actin nucleation regulation, defense against Gram-positive bacteria, ribosome biogenesis, protein oligomerization, cell division, cilium assembly, gastrulation, and histone acetylation). There isn't a clear, unifying theme that ties these functions together into a single coherent cluster, suggesting diverse roles or annotations rather than a single biological module. ","confidence":"","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000747","count":8},{"id":"GO:0001649","count":8},{"id":"GO:0034316","count":8},{"id":"GO:0050830","count":8},{"id":"GO:0042254","count":8}]},{"hash":"608467760245746936","title":"DNA replication and cell-cycle signaling regulators","description":"The cluster centers on DNA replication and mitotic cell cycle processes, with strong links to multiple signaling pathways (ERK/MAPK, Wnt, T cell receptor) and regulation of focal adhesion, beta selection, and axonogenesis, indicating proteins that coordinate cell division with signaling and developmental cues.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":20},{"id":"GO:0070374","count":19},{"id":"GO:0000278","count":19},{"id":"GO:0051893","count":19},{"id":"GO:0000186","count":19}]},{"hash":"1895938310745023207","title":"Developmental transcription and differentiation","description":"Contains strong signals for transcription by RNA polymerase II and DNA-templated transcription, alongside lineage-specific differentiation processes (outflow tract morphogenesis, osteoblast and adipocyte differentiation, vascular healing) and immune signaling. This points to a module of transcriptional regulators driving developmental differentiation across mesoderm-derived tissues, rather than a single pathway, justifying a label focused on developmental transcription and differentiation.","confidence":"Medium","size":27,"edges":350,"triangles":2900,"max_degree":26,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":18},{"id":"GO:0003151","count":13},{"id":"GO:0045669","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0071277","count":10}]},{"hash":"1213800032009152935","title":"RNA processing and translational control","description":"The top GO terms cluster around translation initiation and related complexes (translation reinitiation, formation of translation preinitiation complex, IRES-dependent initiation, viral reinitiation, regulation of translational initiation), indicating proteins involved in controlling translation. The presence of RNA-processing terms (spliceosome-mediated splicing, splice site recognition) and RNA stability regulation suggests these proteins also participate in broader RNA metabolism. Together, they point to a group of RNA-binding/processing factors that coordinate mRNA maturation and translation.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9},{"id":"GO:0075522","count":8},{"id":"GO:0075525","count":8},{"id":"GO:0006446","count":8}]},{"hash":"1190365327672180658","title":"Multiorgan morphogenesis and developmental signaling","description":"The proteins map to GO terms across multiple organs (brain, heart, kidney, hair follicle, hepatocytes) and processes like morphogenesis and signaling regulation (Rho and GPCR pathways). This points to a shared role in broad developmental programs and tissue remodeling rather than a single tissue-specific function, hence a label centered on multiorgan morphogenesis and developmental signaling.","confidence":"Medium","size":27,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0090190","count":3},{"id":"GO:0031069","count":3},{"id":"GO:0070294","count":3}]},{"hash":"2026928982542501408","title":"Developmental transcriptional regulators","description":"The GO terms cluster around embryonic development and organogenesis across diverse tissues (primitive streak, heart/outflow tract, inner ear, midbrain, hypothalamus, male gonad) while also emphasizing transcriptional regulation by RNA polymerase II (including negative regulation). This points to a group of proteins that coordinate transcriptional programs during development across multiple lineages.","confidence":"High","size":27,"edges":8,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0090009","count":11},{"id":"GO:0048935","count":11},{"id":"GO:0007507","count":10},{"id":"GO:0003148","count":10}]},{"hash":"1477235072585755120","title":"Rho signaling\u2013driven cytoskeletal development","description":"The top GO terms point to regulation of Rho signaling and cytoskeletal/structural organization (sarcomere organization, sodium channel clustering) with several developmental contexts (nervous system, heart, spermatid) and cell adhesion, suggesting a cluster of proteins coordinating cytoskeletal dynamics during development across tissues rather than a single tissue-specific function.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0045214","count":4},{"id":"GO:0045404","count":3},{"id":"GO:0007286","count":3},{"id":"GO:0045162","count":3}]},{"hash":"1972073305595848526","title":"DNA replication and transcription termination regulation","description":"This cluster centers on nuclear genome maintenance and transcription control, highlighted by DNA replication, RNA Pol II termination (including exosome-dependent/tailored pathways), and G1/S cell cycle transitions, with additional related functions like miRNA processing regulation. There is some noise from unrelated terms (e.g., teichoic acid biosynthesis) but the dominant theme is nuclear DNA processing and transcription regulation.","confidence":"Medium","size":27,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":5},{"id":"GO:0070940","count":4},{"id":"GO:0030846","count":3},{"id":"GO:0030847","count":3},{"id":"GO:1905213","count":3}]},{"hash":"1775531582570077882","title":"Inflammation-Driven Angiogenesis and ECM Remodeling","description":"The cluster centers on inflammatory signaling (monocyte activation; cellular responses to TNF and IL-1) together with angiogenesis regulation and endothelial morphogenesis, plus collagen fibril organization and collagen biosynthesis, indicating coordinated extracellular matrix remodeling linked to blood vessel formation. Some terms touch on reproductive tissue remodeling (ovulation) and melanocyte differentiation, but the dominant theme appears to be inflammation-associated ECM remodeling and angiogenesis.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042117","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0071356","count":5},{"id":"GO:0071347","count":5}]},{"hash":"658939382129540890","title":"Neuronal sensory perception and GPCR signaling","description":"Strong representation of sensory-perception terms (pain, vision) and GPCR signaling pathways, including cGMP-linked and adenylate cyclase-activating routes, plus membrane potential regulation and energy metabolism, pointing to neuron-centric signaling; an outlier term related to macrophage chemotaxis is less central.","confidence":"High","size":27,"edges":105,"triangles":44,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":21},{"id":"GO:0071502","count":20},{"id":"GO:0002024","count":20},{"id":"GO:0007601","count":18},{"id":"GO:0007199","count":17}]},{"hash":"143975133018879226","title":"Fertilization and pronucleus formation","description":"Top GO terms include both male and female pron nucleus assembly, egg activation, and cellular responses linked to reproductive signaling (estrogen stimulus). Additional terms point to proteasomal regulation and histone-related processes, suggesting this cluster centers on the chromatin remodeling and protein turnover that accompany fertilization and early zygote development.","confidence":"Medium","size":27,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0032435","count":4},{"id":"GO:0071442","count":3},{"id":"GO:0035038","count":3},{"id":"GO:0071391","count":3},{"id":"GO:0035335","count":3}]},{"hash":"874055758929611160","title":"Neuronal development and synapse formation","description":"The top GO terms cluster around multicellular development, synapse assembly/organization, and growth factor\u2013mediated signaling (ERK cascade, FGFR apoptotic signaling), which together point to developmental processes guiding neuronal growth and synapse formation. Some terms touch broader development or immune signaling (GM-CSF), but the prominence of synapse-related processes supports this label.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0007118","count":4},{"id":"GO:0051965","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0045425","count":3}]},{"hash":"81093117614640751","title":"Chromatin modification and transcription regulation","description":"These proteins appear linked to controlling gene expression via chromatin state, evidenced by multiple histone acetylation terms (H3, H4) and regulation of transcription. Supporting signals include TORC1 and SREBP pathways that influence transcription, plus mRNA transport and cell division as related facets of gene expression and cell cycle control. Overall, the cluster centers on chromatin modification and transcription regulation.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0043982","count":4},{"id":"GO:0035948","count":4}]},{"hash":"2222736813617030706","title":"Neuronal signaling and neurotransmitter regulation","description":"The cluster shows strong enrichment for ion transmembrane transport (Na+/K+), excitatory postsynaptic potential, GABA signaling, and dopamine secretion, pointing to core neuronal excitability and synaptic transmission. Additional terms like innervation and locomotory behavior support roles in neural circuit function and behavior, making a coherent theme around neuronal signaling and neurotransmitter regulation.","confidence":"High","size":27,"edges":37,"triangles":8,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0071805","count":26},{"id":"GO:0001661","count":26},{"id":"GO:0060079","count":26},{"id":"GO:0007214","count":26},{"id":"GO:0035725","count":26}]},{"hash":"804104790851145508","title":"Vascular and Hematopoietic Development","description":"This cluster is dominated by GO terms related to blood vessel formation and blood cell lineage processes: angiogenesis, hypoxia response, endothelial cell chemotaxis, megakaryocyte development, and KIT signaling, all of which point to vascular and hematopoietic development, especially under low-oxygen conditions. Some translation-related terms and a MAPK term appear as noise rather than core themes. Overall, the vascular/hematopoietic development signal is the strongest.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":3},{"id":"GO:0001666","count":3},{"id":"GO:0042331","count":2},{"id":"GO:0006426","count":2},{"id":"GO:0006420","count":2}]},{"hash":"1685468485400474249","title":"MAPK and GPCR signaling with immune and cardiovascular roles","description":"This cluster centers on regulated signal transduction: ERK/MAPK cascade, Rho signaling, and GPCR pathways are prominent, with immune and cardiovascular associations such as macrophage chemotaxis, LPS response, blood pressure regulation, and heart development. Neuronal signaling terms like pain and cocaine response suggest broader signaling cross-talk. Overall, the dominant theme is diverse signaling regulation linked to immune and cardiovascular functions, making this label representative though somewhat heterogeneous.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0070374","count":8},{"id":"GO:0019233","count":8},{"id":"GO:0007507","count":8},{"id":"GO:0022900","count":7},{"id":"GO:0035025","count":7}]},{"hash":"2208090563448321301","title":"Diverse Biosynthetic Metabolism","description":"The proteins annotated here span multiple biosynthetic pathways, including amino acid (threonine, homoserine, methionine), sugar (galacturonate, galactitol), and isoprenoid/cholesterol biosynthesis (IPP, FPP, cholesterol). Although one term references viral translation initiation, the overall theme is broad metabolic biosynthesis rather than a single pathway or complex. This label reflects the shared function of generating diverse biomolecules across pathways.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009088","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0046396","count":2},{"id":"GO:0042352","count":2},{"id":"GO:0010142","count":2}]},{"hash":"1856093721937551475","title":"Neuronal morphogenesis and signaling","description":"This cluster centers on GTPase activation/regulation and cytoskeletal remodeling (filopodium assembly; morphogenesis), with neural-specific processes like midbrain morphogenesis and myelination, alongside regulation of synaptic plasticity and intracellular trafficking, suggesting coordinated neuronal growth, morphology, and signaling.","confidence":"High","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090630","count":4},{"id":"GO:0000902","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0031914","count":4},{"id":"GO:0034499","count":3}]},{"hash":"829148500535988907","title":"Neural development and plasticity","description":"The top GO terms center on neural development and brain function: visual learning, long-term memory, social behavior, spinal cord development, myelination, and related signaling pathways (PI3K-Akt, Rho). These collectively point to neuronal growth, synaptic plasticity, and circuit modulation, with additional signaling terms supporting regulatory control. Despite one outlier term (cardiac contraction), the dominant theme is neural development and learning-related signaling.","confidence":"Medium","size":27,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0008542","count":4},{"id":"GO:0035176","count":4},{"id":"GO:0021510","count":4},{"id":"GO:0097011","count":4},{"id":"GO:0035023","count":4}]},{"hash":"2033707569312008229","title":"Detox and Oxidative Stress Response","description":"The majority of top GO terms point to redox balance and detoxification (cell redox homeostasis, glutathione metabolic process, response to UV, naphthalene catabolic process, cellular response to antibiotic). While a few terms touch on development or memory, the dominant signal is detoxification and oxidative stress handling.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071236","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0002003","count":3},{"id":"GO:0006749","count":2},{"id":"GO:1901170","count":2}]},{"hash":"1393462320222403629","title":"Mitochondrial respiration and apoptotic regulation","description":"The top GO terms cluster around mitochondrial function and apoptosis control: negative regulation of cytochrome c release from mitochondria, negative regulation of extrinsic apoptotic signaling, and assembly of mitochondrial respiratory complexes. This points to a theme of maintaining mitochondrial integrity and cell survival, with a few other terms related to glycosylation or membrane anchoring that may be less central to the core function of this cluster. Overall, the label captures the dominant mitochondrial and anti-apoptotic signals.","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0090201","count":3},{"id":"GO:0035269","count":2},{"id":"GO:0055114","count":2},{"id":"GO:1902042","count":2},{"id":"GO:0030307","count":2}]},{"hash":"639329176781444510","title":"Redox stress response and detoxification","description":"The cluster is enriched for redox-related processes (cell redox homeostasis, cellular oxidant detoxification) and stress responses (response to lipopolysaccharide, aluminum ion, and ethanol), with supporting metabolic pathways (thiamine and tetrahydrofolate metabolism). This pattern suggests proteins linked to managing oxidative stress and detoxification, rather than a single specific pathway.","confidence":"Medium","size":26,"edges":89,"triangles":151,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009228","count":9},{"id":"GO:0055114","count":9},{"id":"GO:0045454","count":8},{"id":"GO:0032496","count":7},{"id":"GO:0098869","count":7}]},{"hash":"2045802611486320672","title":"Cardiac development and growth-factor signaling","description":"These proteins are enriched for GO terms related to heart development and cardiovascular signaling, including heart development, VEGF response, insulin/IGF receptor signaling, and GPCR acetylcholine signaling, plus ECM remodeling via hyaluronan metabolism. The convergence on cardiac growth, vasculature signaling, and matrix dynamics suggests a cardio-developmental signaling cluster; the T cell activation term is likely incidental.","confidence":"High","size":26,"edges":25,"triangles":0,"max_degree":24,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030212","count":16},{"id":"GO:0002291","count":15},{"id":"GO:0035924","count":15},{"id":"GO:0010765","count":14},{"id":"GO:0007507","count":14}]},{"hash":"230229822526240692","title":"Vertebrate development and morphogenesis","description":"This cluster's GO terms cluster around developmental processes and tissue patterning (EMT regulation, neural tube patterning, chondrocyte differentiation, heart outflow tract morphogenesis) and related signaling (Wnt) and transcription. A few terms related to DNA repair or xenobiotic response appear, but the dominant theme is vertebrate development and morphogenesis.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032425","count":3},{"id":"GO:0007340","count":3},{"id":"GO:0090090","count":2},{"id":"GO:0010718","count":2},{"id":"GO:0003413","count":2}]},{"hash":"1876983977100827299","title":"Ubiquitin-Proteasome Regulation and ERAD","description":"The cluster's GO terms cluster around ubiquitin-related modification and degradation pathways: protein deubiquitination, sumoylation, ubiquitin-dependent ERAD, proteasomal regulation, autoubiquitination, and aggrephagy. This points to a cohesive role in protein quality control and turnover, particularly via ER-associated degradation and proteostasis networks; a minority term related to GnRH neuron development may reflect pleiotropy rather than core function.","confidence":"High","size":26,"edges":312,"triangles":2313,"max_degree":25,"top_function":null,"top_go_terms":[{"id":"GO:0016579","count":13},{"id":"GO:0016925","count":11},{"id":"GO:0030433","count":11},{"id":"GO:1904378","count":9},{"id":"GO:0033132","count":8}]},{"hash":"744387917305134755","title":"Drosophila oogenesis and meiosis regulation","description":"The cluster centers on oogenesis and meiotic control in the germarium, with strong signals for DNA replication, homologous recombination, spindle assembly checkpoint, oocyte karyosome formation, and established oocyte polarity (anterior/posterior and dorsal/ventral), indicating a cohesive theme of oocyte development and meiotic processes.","confidence":"High","size":26,"edges":246,"triangles":1253,"max_degree":25,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090267","count":13},{"id":"GO:0051260","count":13},{"id":"GO:0006260","count":12},{"id":"GO:0030717","count":11},{"id":"GO:0009951","count":11}]},{"hash":"249745076652059347","title":"Sensory tissue differentiation and microvilli/brush border assembly","description":"The cluster shows strong representation of sensory-related development (eye and balance organs) with structural membrane features, including lens fiber cell differentiation, photoreceptor differentiation, equilibrioception, and microvillus/brush border assembly, plus integrin-mediated adhesion. This suggests a cohesive role in forming and differentiating sensory epithelia and their specialized membrane protrusions, even though there are no reported network edges among the proteins. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0051835","count":9},{"id":"GO:0051497","count":9},{"id":"GO:0033628","count":9},{"id":"GO:1904970","count":9},{"id":"GO:0050957","count":9}]},{"hash":"1878294564636671267","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":10},{"id":"GO:0000278","count":9},{"id":"GO:0031954","count":9},{"id":"GO:0051028","count":9},{"id":"GO:0071456","count":9}]},{"hash":"268129472339312010","title":"Actin remodeling and endocytosis","description":"The cluster shows strong enrichment for actin-related processes (actin cortical patch assembly, Arp2/3-mediated actin nucleation regulation) and endocytic pathways (clathrin-dependent endocytosis, general endocytosis) plus trafficking to the vacuole. Together with GTPase activity regulation, these terms point to proteins coordinating actin dynamics to drive endocytosis and vesicle targeting, rather than a single isolated function. In short, actin-driven endocytosis and trafficking.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000147","count":11},{"id":"GO:0006897","count":9},{"id":"GO:0006915","count":9},{"id":"GO:0043547","count":9},{"id":"GO:0034316","count":8}]},{"hash":"15304311628177889","title":"Hair Follicle Development and Epithelial Signaling","description":"The cluster is dominated by epithelial adhesion and hair follicle placode formation terms, pointing to epidermal structuring and follicle initiation; accompanying signals involving JNK, axon guidance, Rap signaling, NF-kB regulation, and vesicle trafficking suggest coordinated signaling and trafficking processes supporting epithelial development and hair follicle formation.","confidence":"High","size":26,"edges":272,"triangles":1600,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090136","count":26},{"id":"GO:0060789","count":26},{"id":"GO:0046330","count":26},{"id":"GO:0045773","count":26},{"id":"GO:0071985","count":26}]},{"hash":"2042645017151097977","title":"Neuronal synapse development and axon guidance","description":"Top terms point to neuronal development and synapse formation (synapse organization, dendritic spine morphogenesis, neurogenesis, synapse assembly, adhesion, ROBO/axon guidance). PI3K/AKT signaling supports growth and survival; apoptosis may reflect developmental pruning. Overall, the cluster represents cohesive neuronal connectivity processes.","confidence":"High","size":26,"edges":11,"triangles":1,"max_degree":3,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050808","count":14},{"id":"GO:0060997","count":13},{"id":"GO:0045663","count":11},{"id":"GO:0022008","count":11},{"id":"GO:0006915","count":11}]},{"hash":"180707597423213958","title":"Cofactor and vitamin biosynthesis","description":"The Top Terms are dominated by biosynthetic processes for vitamins and cofactors (biotin, phylloquinone/K1, menaquinone/K2, heme precursor protoporphyrinogen IX) and related metabolic activities (one-carbon metabolism, fatty acid beta-oxidation), with some related antibiotic biosynthesis signals. This points to a functional cluster centered on synthesis of cofactors and vitamins and their associated metabolic pathways, rather than a single specific pathway.","confidence":"Medium","size":26,"edges":182,"triangles":731,"max_degree":24,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019878","count":6},{"id":"GO:0006574","count":5},{"id":"GO:0009234","count":5},{"id":"GO:0017000","count":4},{"id":"GO:0042372","count":4}]},{"hash":"1802866118453874716","title":"Immune Activation and Signaling","description":"The cluster is enriched for immune-related GO terms: cellular response to fungal origin, response to lipopolysaccharide, adaptive immune response, B cell receptor signaling, Fc-epsilon receptor signaling, and neutrophil chemotaxis, together with integrin-mediated signaling that supports leukocyte adhesion and migration. Positive regulation of IL-2 production points to T cell help and proliferation. While a couple of terms like face morphogenesis and cartilage condensation appear, the dominant pattern is immune cell activation and signaling, suggesting the proteins function in coordinated immune responses.","confidence":"High","size":26,"edges":12,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":19},{"id":"GO:0007229","count":14},{"id":"GO:0060325","count":13},{"id":"GO:0032496","count":13},{"id":"GO:0002250","count":13}]},{"hash":"1936175562578567696","title":"Rho GTPase\u2013driven actin remodeling and migration","description":"The cluster is dominated by terms related to actin cytoskeleton organization, lamellipodium assembly, small GTPase signaling and regulation, and cell migration, all pointing to actin dynamics controlled by Rho family GTPases driving morphogenetic processes. Heart and multicellular organism development terms support a link to morphogenesis where such cytoskeletal remodeling and movement are key.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007507","count":5},{"id":"GO:0035023","count":5},{"id":"GO:0051016","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0043547","count":4}]},{"hash":"1843063743932797490","title":"Neural Development and Synaptic Signaling","description":"It points to neural development and synaptic signaling, highlighted by axonogenesis, Schwann cell development, excitatory postsynaptic potential, and long-term synaptic potentiation, with supporting signals in cell cycle and apoptotic regulation suggesting broader developmental control.","confidence":"Medium","size":26,"edges":325,"triangles":2600,"max_degree":25,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0009738","count":21},{"id":"GO:0000278","count":21},{"id":"GO:0000086","count":21},{"id":"GO:0060079","count":21},{"id":"GO:0043065","count":21}]},{"hash":"916894348449127323","title":"Cytoskeleton Dynamics and Vesicle Trafficking","description":"Top GO terms cluster around cytoskeletal remodeling in response to mechanical cues (cellular response to mechanical stimulus; positive regulation of stress fiber assembly; regulation of focal adhesion assembly) and intracellular/vesicle trafficking (endosome to lysosome transport; intracellular protein transport; regulation of synaptic vesicle exocytosis). This suggests a cohesive module linking mechanotransduction with cytoskeletal changes and vesicle movement, possibly coordinating adhesion sites with endosomal/vesicular pathways. Despite some diversity, the common theme is cytoskeleton-driven signaling and intracellular transport.","confidence":"High","size":26,"edges":2,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0071260","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0008333","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0010745","count":3}]},{"hash":"2231170652524485470","title":"Transcriptional Regulators in Heart and Neural Development","description":"The cluster325 appears enriched for transcription-related GO terms (RNA polymerase II transcription, both activation and repression) and several development terms spanning heart, hindbrain segments, brain regions, and eye/retina development, suggesting a set of regulators coordinating transcription with heart and neural/eye development.","confidence":"High","size":26,"edges":291,"triangles":1873,"max_degree":25,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":11},{"id":"GO:0006351","count":8},{"id":"GO:2000288","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0007507","count":7}]},{"hash":"1878611914731332867","title":"Developmental Signaling and Morphogenesis","description":"The top GO terms point to a network of signaling pathways across immune (T cell receptor), cell surface signaling (integrin, growth hormone receptor), and diverse development-related processes (bone mineralization, neuron development, dendritic spine morphogenesis, kinetochore localization). This suggests proteins are involved in multiple signaling cascades that guide development and morphogenesis rather than a single, narrow function. Therefore, a concise label like Developmental Signaling and Morphogenesis captures the overarching theme and avoids overcommitment to any one pathway.","confidence":"Medium","size":26,"edges":260,"triangles":1341,"max_degree":24,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050852","count":21},{"id":"GO:0008285","count":21},{"id":"GO:0007172","count":20},{"id":"GO:0030500","count":20},{"id":"GO:0048666","count":20}]},{"hash":"667013368722521464","title":"Developmental growth and cell cycle regulation","description":"These proteins cluster around developmental processes (heart development, multicellular organism development, growth) and core cell cycle functions (mitotic cell cycle, mitotic sister chromatid segregation) as well as transcription regulation. Additional signals for GTPase activity, protein autophosphorylation, ribosome biogenesis, and actin filament capping suggest coordination of signaling, protein synthesis, and cytoskeletal dynamics during growth and division. Overall, the theme is growth/development intertwined with cell cycle control.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043547","count":6},{"id":"GO:0031954","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0000070","count":3}]},{"hash":"1638697513331363585","title":"Nuclear ribosome biogenesis and chromatin dynamics","description":"The top GO terms cluster around ribosome assembly and export (ribosome biogenesis; ribosomal large subunit export from nucleus; mRNA export), along with transcription regulation and chromatin-related processes (DNA-templated transcription; CENP-A chromatin assembly), and cell division. This points to a coherent nuclear program coordinating ribosome production with chromatin organization during the cell cycle, with minor involvement of vesicle trafficking that is less central to the core theme.","confidence":"High","size":26,"edges":287,"triangles":1869,"max_degree":25,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0006406","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0043547","count":5}]},{"hash":"1552649883465415450","title":"Inner ear cartilage formation and inflammation","description":"The Top Terms point to inner ear development and cartilage formation (ear structures, chondrocyte differentiation, cartilage condensation, otolith morphogenesis), while numerous terms reflect inflammatory signaling (TNF production, LPS response, complement activation, ERK cascade). This suggests a coherent cluster of proteins involved in ear cartilage morphogenesis that also engages immune/inflammatory pathways.","confidence":"Medium","size":26,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":4},{"id":"GO:0050729","count":3},{"id":"GO:0002062","count":3},{"id":"GO:0071639","count":3},{"id":"GO:0001502","count":3}]},{"hash":"2022412686456107714","title":"Secretory Trafficking and Apoptosis Regulation","description":"Genes in this cluster prominently feature intracellular transport and secretion processes (Golgi to vacuole transport, endosome to lysosome transport, insulin secretion, glucose transmembrane transport) alongside apoptosis regulation (apoptotic process, negative regulation of neuron apoptotic process), suggesting a theme centered on secretory/trafficking machinery with links to cell survival. Some terms also touch on differentiation (megakaryocyte/platelet development, keratinocyte differentiation), but the core signal appears to be trafficking and secretion coupled with apoptosis regulation.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006915","count":3},{"id":"GO:0006896","count":3},{"id":"GO:0043524","count":3},{"id":"GO:0030220","count":3},{"id":"GO:0035855","count":3}]},{"hash":"1906885312337144000","title":"Diverse secondary metabolite biosynthesis","description":"The cluster shows enrichment for multiple biosynthetic GO terms spanning antibiotics, alkaloids, retinoids, lipids (mycolic acid, sphinganine), PHB, and related small-molecule pathways, suggesting proteins involved in producing various natural products and related metabolites rather than a single, cohesive pathway. Thus, a label focusing on secondary metabolite biosynthesis captures the common theme.","confidence":"Medium","size":26,"edges":141,"triangles":265,"max_degree":20,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":22},{"id":"GO:0042619","count":19},{"id":"GO:0006355","count":18},{"id":"GO:0017000","count":18},{"id":"GO:0009710","count":18}]},{"hash":"1294730377130680187","title":"Neural and vascular development signaling","description":"The top GO terms converge on neural development (substantia nigra development; peripheral nervous system myelin maintenance) and vascular/angiogenic regulation (VEGF and PDGF production), plus related developmental processes (cell migration in heart development). Together these suggest a theme of developmental signaling affecting neural and vascular/muscle contexts, with some ancillary terms likely from broader functional annotations. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0042952","count":8},{"id":"GO:0098869","count":5},{"id":"GO:0010574","count":5},{"id":"GO:0090232","count":5},{"id":"GO:0032287","count":5}]},{"hash":"1284803414865721936","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around differentiation and morphogenesis in embryonic contexts\u2014trophoblast giant cell differentiation, placenta development, left-right pattern formation, heart-related EMT, and cartilage morphogenesis\u2014indicating a developmental and tissue-formation theme. Endocrine system and pancreatic cell development further support broad developmental roles. Some RNA processing and ribosome/export terms likely reflect general gene-expression machinery active during development. Overall, the dominant signal is embryonic development and morphogenesis.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":16},{"id":"GO:0060806","count":13},{"id":"GO:0060536","count":13},{"id":"GO:0035270","count":13},{"id":"GO:0060972","count":13}]},{"hash":"435118091829168152","title":"Detoxification and broad metabolic catabolism","description":"Top GO terms indicate responses to toxic substances and a variety of catabolic processes, including degradation of aromatic compounds and lipids, along with broader metabolic activities such as biotin biosynthesis and nitrogen utilization. The clustering suggests proteins involved in detoxification and general metabolism rather than a single specific pathway, justifying a label around detoxification and broad metabolism.  ","confidence":"Medium","size":26,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0009636","count":17},{"id":"GO:0055114","count":17},{"id":"GO:2000124","count":16},{"id":"GO:0019433","count":16},{"id":"GO:0017000","count":15}]},{"hash":"1663319101766998329","title":"Neural adhesion and synapse development","description":"The top GO terms are dominated by cell-cell adhesion (heterophilic and homophilic) and neural wiring processes such as axonal fasciculation, central nervous system development, and positive regulation of synapse assembly. This points to a cluster of proteins involved in neural tissue organization and synapse formation. Immune-related terms (complement activation, T cell costimulation) appear but are less central to the core theme. Some terms like skeletal system development may reflect broader developmental roles of the proteins, but the dominant signal is neural adhesion and synapse connectivity.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":13},{"id":"GO:0007413","count":13},{"id":"GO:0001501","count":13},{"id":"GO:0007156","count":12},{"id":"GO:0006958","count":12}]},{"hash":"141217808030734409","title":"Ribosome Biogenesis and Translation","description":"The top terms are strongly dominated by ribosome biogenesis and translation (ribosome assembly, small subunit biogenesis, translation, and translational termination), indicating the proteins cluster around protein synthesis machinery. Additional terms related to transcription and cell division suggest co-regulation with growth, while stress-related responses (antibiotic) and phosphorylation hint at regulatory signaling tied to ribosome function. Overall, the cluster appears to reflect ribosome formation and translational activity.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":6},{"id":"GO:0042274","count":5},{"id":"GO:0006351","count":4},{"id":"GO:0051301","count":4}]},{"hash":"281388492647759935","title":"Embryonic eye morphogenesis and development regulators","description":"This cluster centers on embryonic development with a strong emphasis on eye formation, including embryonic eye morphogenesis and camera-type eye development, plus in utero embryonic development and primitive streak formation. It also spans broader organogenesis and morphogenesis in other tissues (lung, nervous system, heart). The presence of transcription-related GO terms suggests these proteins act as regulators coordinating developmental programs. Overall, it appears to be a cohesive set of proteins involved in embryonic development and organogenesis, notably eye development.","confidence":"High","size":26,"edges":99,"triangles":72,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0048048","count":10},{"id":"GO:0006366","count":10},{"id":"GO:0043010","count":9},{"id":"GO:0060441","count":9}]},{"hash":"225996036664620113","title":"GTPase-regulated endosomal trafficking","description":"The cluster's strongest terms center on positive regulation of GTPase activity and endosomal transport (endosome to lysosome; early vs late endosome), plus regulation of Rho signaling. Together these point to a core theme of GTPase-controlled vesicle trafficking and cytoskeletal modulation, with some unrelated terms likely representing noise. ","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0008333","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0016126","count":3},{"id":"GO:0045022","count":3}]},{"hash":"1145653330894201917","title":"Base-Excision Repair and Chemical Stress Response","description":"The cluster centers on base-excision repair processes (depurination/depyrimidination) and DNA damage signaling (including regulation of DSB repair), with additional enrichment for cellular responses to xenobiotic stimuli (ethanol, estradiol, folic acid). This suggests a cohesive theme of DNA repair activity linked to chemical stress responses.","confidence":"High","size":26,"edges":165,"triangles":653,"max_degree":22,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":6},{"id":"GO:0042493","count":6},{"id":"GO:0007568","count":6},{"id":"GO:1901291","count":5},{"id":"GO:0033158","count":5}]},{"hash":"662228036749693878","title":"Embryonic Craniofacial and Mesodermal Development","description":"The cluster is enriched for GO terms related to embryonic development across craniofacial and mesodermal lineages (palate and cartilage morphogenesis, hair follicle morphogenesis, mesoderm development, EMT in endocardial cushion formation, left-right patterning, placenta/endocrine system development), indicating a coherent role in early organogenesis rather than a single tissue type.","confidence":"High","size":26,"edges":17,"triangles":0,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":20},{"id":"GO:0031069","count":18},{"id":"GO:0007498","count":18},{"id":"GO:0003198","count":18},{"id":"GO:0060806","count":18}]},{"hash":"2220527844640807945","title":"Epigenetic Regulation and Signaling in Development","description":"The cluster is enriched for protein methylation and arginine methylation, plus NF-kappaB signaling regulation and cytokinesis control, all pointing to regulatory and signaling roles rather than a single metabolic pathway. The presence of heart development and xenobiotic response terms suggests involvement in developmental and stress-response contexts, supporting a broad regulatory theme. Overall, the strongest common thread is regulation of gene expression and signaling via methylation during development, with moderate confidence due to term diversity.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0035690","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0009236","count":4},{"id":"GO:0019919","count":4}]},{"hash":"1666762220279947130","title":"Innate immunity, inflammation, and ubiquitin-regulated apoptosis","description":"The top GO terms show strong signals for innate immune processes (innate immune response, defense response to virus) and inflammatory pathways (pyroptotic inflammatory response, inflammatory response), along with apoptosis and ubiquitin-related protein turnover (protein ubiquitination, SCF-dependent proteasomal ubiquitin-dependent protein catabolic process). These together suggest a functional cluster centered on innate immune signaling and tightly regulated cell death, with cytoskeletal involvement (actin filament network formation) likely supporting immune responses. Thus, a concise label capturing innate immunity, inflammation, and ubiquitin-regulated apoptosis fits these proteins well.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0090307","count":13},{"id":"GO:0045087","count":13},{"id":"GO:0070269","count":12},{"id":"GO:1990001","count":12},{"id":"GO:0016567","count":12}]},{"hash":"1457012363422912961","title":"Embryonic organ morphogenesis","description":"The top GO terms cover diverse organ development and morphogenesis processes (urinary tract branching, palate, inner ear, forebrain, pancreas, gonads, vasculature, pregnancy) plus transcriptional regulation, suggesting a cohesive theme of genes coordinating embryonic organ formation and developmental programming.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0090190","count":9},{"id":"GO:0003323","count":8},{"id":"GO:0060021","count":8},{"id":"GO:0048839","count":8}]},{"hash":"1425029991018734653","title":"Endocytosis and neuronal membrane trafficking with polarity","description":"The top GO terms cluster around endocytosis and synaptic vesicle budding, with related signals for nervous system development and locomotion, indicating a neural membrane-trafficking program. Additional terms on epithelial polarity and actin-driven remodeling (lamellipodium assembly, cell spreading) suggest broader membrane dynamics tied to polarity and motility. Taken together, these terms point to endocytosis-linked membrane remodeling influencing neural development and cell polarity.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":5},{"id":"GO:0090162","count":3},{"id":"GO:0007399","count":3},{"id":"GO:0046580","count":3},{"id":"GO:0016185","count":3}]},{"hash":"502774547503545072","title":"Neuronal development and GPCR-mediated immune signaling","description":"The cluster prominently includes neural development terms (axonogenesis, regulation of neuron maturation) alongside GPCR signaling and immune-related signaling (Th1 response, cytokine signaling, response to LPS). Lipid-related processes (glycosphingolipid biosynthesis, phosphatidylinositol dephosphorylation) suggest membrane context for these signaling pathways. This points to a theme of neuronal signaling with immune and lipid metabolism aspects, though the overlap is broad.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046856","count":4},{"id":"GO:0014041","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0042088","count":3},{"id":"GO:0007186","count":3}]},{"hash":"1485237517382331472","title":"Mitochondrial Metabolism and Transport","description":"The cluster shows strong hints of mitochondrial function, with GO terms for mitochondrial ribosome assembly and mitochondrial electron transport, cytochrome c to oxygen. AdditionalTerms reflect metabolic and transport activities (ethanol metabolism, phospholipid catabolism, acetylcholine biosynthesis, biotin and myo-inositol transport), suggesting a general theme of mitochondrial-associated metabolism and membrane transport. However, the terms are relatively diverse and there are no edges, so the assignment is moderately confident.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071356","count":2},{"id":"GO:0006067","count":2},{"id":"GO:0061668","count":2},{"id":"GO:0009395","count":2},{"id":"GO:0006509","count":2}]},{"hash":"764773546818370311","title":"RNA processing and translational control","description":"The cluster is dominated by GO terms tied to mRNA processing (splicing, polyadenylation, modification), mRNA regulation, and initiation/reinitiation of translation (including viral IRES-driven mechanisms and preinitiation complex formation), pointing to a cohesive theme of post-transcriptional RNA processing and control of protein synthesis.","confidence":"High","size":26,"edges":228,"triangles":945,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":22},{"id":"GO:0045292","count":20},{"id":"GO:0075525","count":19},{"id":"GO:1900363","count":19},{"id":"GO:0075522","count":19}]},{"hash":"232219572302536670","title":"Ubiquitin-Mediated Immune Response","description":"Top GO terms point to ubiquitin-dependent protein catabolic processes and protein ubiquitination, coupled with innate and adaptive immune responses (defense against virus, V(D)J recombination). This suggests a cohesive role for these proteins in ubiquitin-driven regulation of immune signaling and protein turnover across both innate and adaptive immunity. While some obsolete histone modification terms appear, they do not change the primary theme. Confidence in this label is High.","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0016567","count":8},{"id":"GO:0051865","count":7},{"id":"GO:0090073","count":7},{"id":"GO:0051607","count":7}]},{"hash":"460079664455652836","title":"Unknown","description":"Unknown","confidence":"","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000447","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0042220","count":2},{"id":"GO:0007420","count":2}]},{"hash":"1502988561148297568","title":"MAPK signaling and neuronal morphogenesis regulation","description":"The top GO terms cluster around positive regulation of JNK and ERK cascades, axon extension/dendrite morphogenesis, and regulation of focal adhesion assembly and protein stability. This points to a coherent theme of MAPK-mediated signaling driving neuronal growth and morphology, with some general signaling components also appearing in other pathways (e.g., T cell receptor signaling). The cluster is best described as MAPK-regulated neuronal growth and morphogenesis.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":21},{"id":"GO:0045773","count":21},{"id":"GO:0070374","count":21},{"id":"GO:0000278","count":21},{"id":"GO:0051893","count":21}]},{"hash":"2187496586379759017","title":"Actin remodeling and mechanosensing","description":"Proteins in this cluster show strong representation of actin-related processes (actin filament bundle assembly, actin cytoskeleton reorganization, barbed-end capping) and functions linked to cell migration and mechanosensation (detection of mechanical stimulus, response to muscle stretch), suggesting a cohesive role in actin dynamics driving mechanotransduction and movement. Some vesicle trafficking terms are present but are likely secondary to the main cytoskeletal theme.","confidence":"High","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051017","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0016477","count":3},{"id":"GO:0050966","count":3}]},{"hash":"232662320350862149","title":"Transcriptional Regulation and ER Stress\u2013Linked Growth Signaling","description":"The dominant terms point to transcriptional regulation (DNA-templated transcription, mRNA processing), while ER stress\u2013related processes and growth-control signals (hippo pathway, angiogenesis, organ growth) imply a cohesive theme of linking gene expression with stress and growth signaling; deubiquitination terms further suggest regulation of these pathways.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0014068","count":8},{"id":"GO:0006351","count":6},{"id":"GO:0006397","count":6},{"id":"GO:0045766","count":6},{"id":"GO:0035523","count":5}]},{"hash":"1363443191697276560","title":"MAPK/PI3K/NFAT-Dependent Transcription Regulation","description":"The GO terms center on regulation of DNA-templated transcription and positive regulation of ERK/MAPK, PI3K, and calcineurin-NFAT signaling, with supporting hints from mRNA splicing and phosphorylation. This points to proteins that link signaling cascades to transcriptional control (and related post-transcriptional processes), rather than a single enzyme complex.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0014068","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0051533","count":2}]},{"hash":"63051823134067718","title":"Neural development and synapse assembly","description":"The top GO terms cluster around nervous system development and function: motor neuron axon fasciculation, regulation of synapse assembly, equilibrioception, and vocalization behavior. Some terms like spindle or brush-border assembly are less directly related but may reflect broader developmental roles. Overall, the cluster points to neural connectivity and sensory processing.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0097156","count":4},{"id":"GO:0051965","count":4},{"id":"GO:0045617","count":4},{"id":"GO:0048701","count":4},{"id":"GO:1904970","count":3}]},{"hash":"348479665141962731","title":"Cytoskeletal remodeling and cell movement","description":"The cluster centers on cytoskeleton-related processes\u2014cell migration, Rho signaling regulation, dendritic spine morphogenesis, centriole/ciliogenesis, and clathrin-mediated trafficking\u2014covering how cells reorganize their cytoskeleton to move and differentiate. Some innate immune and apoptotic terms appear but are likely secondary to the core themes of cytoskeletal dynamics and movement.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016477","count":4},{"id":"GO:0048268","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0048666","count":3}]},{"hash":"2030935963148460421","title":"Cardiovascular development and angiogenesis","description":"The cluster shows enrichment for heart development, angiogenesis, and platelet activation, plus cell migration, pointing to vascular development and remodeling as the core theme. Some terms (thyroid hormone generation, vocalization) and obsolete GO entries are less coherent with this theme, but the dominant signals support a cardiovascular/vascular function.","confidence":"Medium","size":26,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010572","count":4},{"id":"GO:0006590","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0014068","count":4},{"id":"GO:2001275","count":4}]},{"hash":"1951318576757486211","title":"Unknown","description":"The terms span diverse biological processes\u2014from coagulation and signaling to viral attachment, vision, osmoregulation, apoptosis, development, and mechanosensing\u2014showing no single cohesive function binding the cluster. Therefore, a reliable, specific label cannot be assigned beyond Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007597","count":2},{"id":"GO:0014068","count":2},{"id":"GO:0051281","count":2},{"id":"GO:0046813","count":2},{"id":"GO:0090528","count":2}]},{"hash":"1149155557338472752","title":"Oxidative Stress Response and Redox Homeostasis","description":"A large portion of the top GO terms point to oxidation-reduction processes, redox balance, and detoxification of oxidants, indicating the cluster centers on managing oxidative stress. Some terms are obsolete, but the core theme remains redox regulation and response to oxidative challenges (e.g., gamma radiation) with ancillary notes on protein repair and transcriptional regulation.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":8},{"id":"GO:0045454","count":6},{"id":"GO:0009972","count":6},{"id":"GO:0098869","count":5},{"id":"GO:0010332","count":4}]},{"hash":"1583585906202216894","title":"NF-\u03baB\u2013Mediated Immune Signaling","description":"The cluster centers on NF-\u03baB\u2013related processes, with terms for canonical NF-kappaB signaling, lipopolysaccharide-mediated signaling, and B cell receptor signaling, plus related regulation of autophagy, apoptosis, and PI3K/AKT pathways. This suggests a cohesive theme around inflammatory and immune-activation signaling and cell survival, with additional links to angiogenesis and barrier-associated processes that can accompany inflammation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070830","count":6},{"id":"GO:0051092","count":5},{"id":"GO:0031663","count":5},{"id":"GO:0045766","count":5},{"id":"GO:0051897","count":5}]},{"hash":"1578416234153946293","title":"Microtubule Dynamics and Transport","description":"The cluster is dominated by GO terms related to microtubule structure, polarity, and movement (plus- and minus-end directed transport, regulation of microtubule-based processes, nuclear migration along microtubules, and maintenance of cytoskeletal polarity), as well as vesicle transport along microtubules. Additional terms about stress granule disassembly and adherens junction maintenance suggest integration of cytoskeletal dynamics with cellular architecture, particularly in neuronal contexts like cerebellar granule layers. This cohesive theme points to microtubule-driven transport and organization as the core function.","confidence":"High","size":25,"edges":25,"triangles":19,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":23},{"id":"GO:0031534","count":23},{"id":"GO:0072383","count":23},{"id":"GO:0000743","count":23},{"id":"GO:0035617","count":23}]},{"hash":"1779086086389241097","title":"Cardiovascular signaling and development","description":"The most enriched terms point to heart development, regulation of cardiac contraction, blood pressure, calcium signaling, and GPCR pathways, suggesting a cardiovascular signaling and developmental theme for this cluster. Some visual-system terms appear as well, likely due to shared or overlapping annotations, but the core signal is cardiovascular. ","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007601","count":12},{"id":"GO:0007507","count":12},{"id":"GO:0019233","count":11},{"id":"GO:0008542","count":11},{"id":"GO:0022900","count":11}]},{"hash":"522505216235604391","title":"Cell cycle and developmental signaling","description":"The proteins appear enriched for processes related to cell division (mitotic cell cycle, cell division) and multiple signaling pathways (Wnt signaling, GTPase regulation) as well as developmental contexts (forebrain development, mating projection growth, neuron survival). This suggests a broad role in coordinating cell proliferation with various signaling and developmental cues rather than a single, cohesive pathway. Therefore the label \"Cell cycle and developmental signaling\" best captures the overarching theme, acknowledging its breadth.","confidence":"Medium","size":25,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":10},{"id":"GO:0090263","count":10},{"id":"GO:0010796","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0031384","count":8}]},{"hash":"175514375348912810","title":"Wnt signaling regulators in neural and cranial development","description":"The cluster shows strong enrichment for terms related to regulating canonical Wnt signaling and developmental processes in neural/cranial tissues (e.g., cranial ganglion development, CNS vasculogenesis, hair follicle placode formation, and negative regulation of Wnt signaling). Although a few terms are obsolete or less connected (e.g., indole-3-methanol response), the dominant theme is modulation of Wnt pathways during development, suggesting these proteins function together in developmental signaling contexts.","confidence":"Medium","size":25,"edges":258,"triangles":1514,"max_degree":24,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0086019","count":13},{"id":"GO:0060789","count":13},{"id":"GO:0090090","count":13},{"id":"GO:0044334","count":13},{"id":"GO:0044336","count":13}]},{"hash":"934736943098960870","title":"Neuronal development and axon guidance","description":"The cluster is dominated by terms related to nervous system development, dendrite development, and neuronal migration, including ROBO signaling (axon guidance) and tangential migration from the subventricular zone to the olfactory bulb. While there are some peripheral terms (bone ossification, T cell signaling), the core signal points to neural differentiation and axon/dendrite navigation, justifying a neural development and axon guidance label.","confidence":"High","size":25,"edges":167,"triangles":483,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0010628","count":14},{"id":"GO:0055091","count":13},{"id":"GO:0035385","count":13},{"id":"GO:0090051","count":13},{"id":"GO:0050852","count":13}]},{"hash":"394158635444134767","title":"Embryonic and Organ Development Across Tissues","description":"This cluster\u2019s GO terms largely point to development and differentiation across multiple organs and systems (uterus, heart, placenta, forebrain, inner ear, and visual perception), plus peripheral nervous system development and primitive streak formation. A related transcriptional regulation term suggests gene expression control during development. The common theme is broad, multi-tissue developmental processes rather than a single pathway, so a cross-tissue development label fits well.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0060065","count":4},{"id":"GO:0007601","count":4},{"id":"GO:0048935","count":4},{"id":"GO:0090009","count":4}]},{"hash":"2178601762166031252","title":"GPCR-driven cAMP and cGMP signaling","description":"This cluster is dominated by GO terms for GPCR signaling pathways, especially adenylate cyclase-activating pathways and adenosine receptor signaling, along with cGMP biosynthesis and receptor guanylyl cyclase signaling. Additional terms for intracellular signal transduction, forskolin response, blue light signaling, and hypoxia detection point to a cohesive theme of GPCR-mediated regulation of cAMP/cGMP signaling with links to light and oxygen-sensing responses, and downstream transcriptional regulation.","confidence":"High","size":25,"edges":16,"triangles":5,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":20},{"id":"GO:0006182","count":20},{"id":"GO:1900194","count":20},{"id":"GO:0070483","count":20},{"id":"GO:0071880","count":20}]},{"hash":"775086028803631995","title":"Embryonic neural-endocrine development","description":"This cluster centers on early development processes such as in utero embryonic development and gastrulation, plus neural-endocrine differentiation elements like neuron maturation, pituitary gland development, and dopamine metabolism. The inclusion of hematopoietic differentiation signals (megakaryocytes, erythrocytes) and redox/ethanol response suggests a broad developmental program with tissue-specific differentiation cues. Overall, the shared theme is embryonic development with concurrent neural and endocrine differentiation across multiple lineages.","confidence":"Medium","size":25,"edges":39,"triangles":27,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0001701","count":13},{"id":"GO:0042551","count":13},{"id":"GO:0045654","count":10},{"id":"GO:0043046","count":10},{"id":"GO:0021983","count":10}]},{"hash":"1673805521760908485","title":"Angiogenesis, heart development, and synaptic plasticity","description":"The cluster shows strong representation of angiogenesis and heart development, along with general multicellular development, and neural activity terms like long-term potentiation and excitatory postsynaptic potential. This suggests roles in organogenesis and maturation of neural circuits, potentially coordinating vascular and neural development. Some terms (e.g., abscisic acid-activated signaling) are plant-related and may reflect annotation noise, but the prevailing signals point to developmental and neural functions. ","confidence":"Medium","size":25,"edges":39,"triangles":9,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001525","count":10},{"id":"GO:0014850","count":10},{"id":"GO:0009738","count":10},{"id":"GO:0000278","count":10},{"id":"GO:0000086","count":10}]},{"hash":"1291590176131622635","title":"Mitotic actin remodeling with Rho GTPase signaling","description":"Top terms indicate coordinated mitotic progression and actin cytoskeleton dynamics, driven by Rho GTPase regulation and phosphatidylinositol signaling, including contractile ring assembly and membrane remodeling. This cohesive theme across mitosis-related and cytoskeletal GO terms supports a role in actin remodeling during cell division, with membrane trafficking aligned to these processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0043087","count":3},{"id":"GO:0048015","count":3},{"id":"GO:0006886","count":3},{"id":"GO:0097320","count":3}]},{"hash":"1837953095291906515","title":"Lipid and Carbohydrate Metabolism with Detox","description":"The GO terms show a cohesive theme of lipid metabolism (fatty acid metabolism, depalmitoylation) and carbohydrate metabolism (carbohydrate metabolic process, PPP, UDP-N-acetylglucosamine biosynthetic process) along with detox and stress responses (response to xenobiotic stimulus, cellular oxidant detoxification) and protein turnover (proteolysis), indicating a cluster of metabolic processing linked to detoxification and protein regulation.","confidence":"Medium","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0006631","count":4},{"id":"GO:0042997","count":4},{"id":"GO:0002084","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0098869","count":3}]},{"hash":"1208792485679537103","title":"Diverse Biosynthetic Pathways","description":"The top GO terms are dominated by biosynthetic and metabolic processes across a range of compounds (antibiotics, tropane alkaloids, retinoids, retinal, mycolic acids, tetrahydrobiopterin, sphinganine), suggesting a cluster of proteins involved in producing or processing diverse metabolites rather than a single pathway. A transcriptional regulation term is present but secondary to the broad biosynthesis theme.","confidence":"High","size":25,"edges":243,"triangles":1282,"max_degree":24,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":17},{"id":"GO:0006355","count":14},{"id":"GO:0017000","count":14},{"id":"GO:0009710","count":14},{"id":"GO:0045150","count":14}]},{"hash":"1799436153939707792","title":"Golgi- and Synaptic Vesicle Trafficking","description":"The top GO terms cluster around vesicle transport and fusion tied to the Golgi (ER-to-Golgi transport, intra-Golgi transport, Golgi ribbon formation) and SNARE complex assembly, plus exocytic insertion of postsynaptic receptors and long-term potentiation. This points to a coherent function in Golgi-to-plasma membrane vesicle trafficking and SNARE-mediated fusion, particularly in synaptic contexts. Some terms (lens maintenance, spindle regulation, filamentous growth) are peripheral and do not override the main trafficking theme.","confidence":"High","size":25,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048280","count":7},{"id":"GO:0098967","count":7},{"id":"GO:0035493","count":7},{"id":"GO:0090161","count":6},{"id":"GO:0006888","count":6}]},{"hash":"1985359722910205719","title":"Neural and eye development with transcriptional regulation","description":"This cluster combines strong signals for neural/brain and eye morphogenesis (brain development, eye morphogenesis, rhombomere development, primitive streak formation, brain segmentation) with transcriptional control by RNA polymerase II, suggesting coordinated developmental programs governed at the transcriptional level.","confidence":"High","size":25,"edges":135,"triangles":235,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":15},{"id":"GO:0006366","count":14},{"id":"GO:0043010","count":12},{"id":"GO:0060441","count":12},{"id":"GO:0048048","count":12}]},{"hash":"226747410568446643","title":"Vertebrate embryonic organogenesis","description":"The top GO terms cluster around embryonic development across multiple organs, with strong signals for eye morphogenesis (camera-type eye, embryonic eye morphogenesis), neural crest\u2013derived processes, odontogenesis, hypothalamus development, and other organogenesis pathways, suggesting a general theme of vertebrate organ formation and patterning.","confidence":"Medium","size":25,"edges":194,"triangles":615,"max_degree":21,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0043010","count":12},{"id":"GO:0060441","count":12},{"id":"GO:0048048","count":12},{"id":"GO:0006366","count":12}]},{"hash":"1286400347927971820","title":"RNA processing and translation regulation","description":"The top GO terms cluster around post-transcriptional control: mRNA splicing via the spliceosome, regulation of mRNA stability and polyadenylation, regulatory ncRNA-mediated gene silencing, and multiple aspects of translation initiation/reinitiation and the formation of the translation preinitiation complex, including viral translation processes. This points to a cohesive group of proteins involved in mRNA maturation and the regulation of translation, spanning both splicing/processing and ribosome recruitment. ","confidence":"High","size":25,"edges":300,"triangles":2300,"max_degree":24,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":22},{"id":"GO:0048026","count":16},{"id":"GO:0031047","count":16},{"id":"GO:0006378","count":16},{"id":"GO:0045292","count":16}]},{"hash":"638033171166218765","title":"Neural tube and sensory organ development with ciliogenesis","description":"These proteins dominantly group around embryonic development, especially neural tube formation and patterning (dorsal/ventral patterning, somatic motor neuron differentiation) and sensory organ development (inner ear). Collagen fibril organization suggests morphogenetic ECM remodeling, while localization to the ciliary transition zone points to ciliogenesis, a process linked to neural and sensory development. A few terms (e.g., lipopolysaccharide signaling) seem less central and may reflect broader immune signaling, but the core theme is neural/sensory organ development and ciliogenesis.","confidence":"High","size":25,"edges":23,"triangles":0,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:0021904","count":4},{"id":"GO:0048839","count":3},{"id":"GO:0031663","count":3},{"id":"GO:0048566","count":3}]},{"hash":"1865505623716632004","title":"Vertebrate Embryogenesis and Organ Morphogenesis","description":"The proteins show enrichment for embryonic development and organ formation across multiple tissues (gonads, pituitary, eye, palate, heart), plus regulatory activity (negative regulation of transcription). This points to a general set of developmental regulators driving tissue morphogenesis rather than a single tissue-specific pathway.","confidence":"Medium","size":25,"edges":9,"triangles":0,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":10},{"id":"GO:0000122","count":9},{"id":"GO:0003148","count":9},{"id":"GO:0021983","count":9},{"id":"GO:0048048","count":9}]},{"hash":"263857092053151608","title":"Developmental signaling and tissue remodeling","description":"The top GO terms point to developmental regulation (Wnt signaling, midbrain development, trophoblast differentiation, transcription regulation by RNA Pol II) as a core theme, while elastin and collagen catabolic processes and fibrinolysis indicate extracellular matrix remodeling. Immune-related terms (response to LPS, neutrophil killing) suggest broader regulatory roles in inflammation. Overall, the cluster appears to center on developmental signaling coupled with tissue remodeling rather than a single narrow function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":8},{"id":"GO:0032496","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0045944","count":4}]},{"hash":"1370574340746679750","title":"Neurodevelopment and sensory organ development","description":"This cluster is dominated by terms tied to development of neural and sensory structures (midbrain development, inner ear development, trigeminal ganglion development) with supporting signals like the Wnt pathway. Transcription regulation terms are present but secondary, suggesting these proteins participate in developmental gene regulation rather than a single non-development function.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":7},{"id":"GO:0007596","count":6},{"id":"GO:0006958","count":6},{"id":"GO:0048839","count":6}]},{"hash":"1113210285908575172","title":"Neural development and sensory function","description":"The top GO terms cluster around nervous system and sensory biology (sensory perception of sound, nervous system development, in utero embryonic development) with transcriptional regulation implicated in developmental control, suggesting the proteins collectively relate to neural development and sensory capabilities. Some other terms like ion transport and secretion are present but appear less central to the main theme.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007605","count":5},{"id":"GO:0048240","count":4},{"id":"GO:0007399","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0006355","count":3}]},{"hash":"834015341869598780","title":"Synaptic plasticity and immune signaling","description":"The strongest terms point to neuronal regulation: dendritic spine maintenance and long-term synaptic depression indicate synaptic plasticity. Additional terms relate to immune responses (lipopolysaccharide response, defense against virus) and general cellular signaling (apoptosis, cell cycle regulation), suggesting a cluster of proteins that links synaptic function with immune signaling and cell-cycle control. The mix implies a function in neural-immune signaling cross-talk rather than a single, narrow process.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007205","count":4},{"id":"GO:0071222","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0097062","count":3},{"id":"GO:0060292","count":3}]},{"hash":"1705247076003001344","title":"Mitochondrial Translation and Respiration","description":"This cluster is dominated by GO terms for mitochondrial translation (elongation and termination) and mitochondrial electron transport, pointing to proteins involved in mitochondrial gene expression and energy production. Additional terms like sodium ion transport and molybdopterin cofactor biosynthesis appear less central and may reflect broader metabolic roles or annotation noise. Overall, the strongest shared function is mitochondrial protein synthesis linked to respiration, so this label captures the core theme.","confidence":"Medium","size":25,"edges":288,"triangles":2040,"max_degree":24,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0070125","count":2},{"id":"GO:0070126","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0006123","count":2}]},{"hash":"2121945851141661794","title":"Innate immune signaling and cytoskeletal remodeling","description":"The cluster is enriched for innate immune pathways (innate immune response, LPS response, IL-1 signaling, NF-kB activation) and cytoskeletal regulatory processes (actin cytoskeleton reorganization, microtubule depolymerization regulation, Rho signaling, GTPase activity). This combination suggests proteins that coordinate inflammatory signaling with cytoskeletal remodeling, a common theme during immune cell activation.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":4},{"id":"GO:0007026","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0046626","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1822333211483745456","title":"Protein Synthesis and Ribosome Biogenesis","description":"Most terms cluster around translation (GO:0006412) and ribosome biogenesis (GO:0042254), indicating these proteins are mainly involved in protein synthesis machinery. Other terms point to antiviral regulation and stress responses, and a few relate to neural development, but the dominant theme is translation/ribosome assembly. Confidence reflects the clear core signal with some peripheral annotations.","confidence":"High","size":25,"edges":299,"triangles":2277,"max_degree":24,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":17},{"id":"GO:0045071","count":7},{"id":"GO:0009636","count":7},{"id":"GO:0042254","count":7},{"id":"GO:0071549","count":5}]},{"hash":"1336011648344719381","title":"Ribosome biogenesis and RNA processing","description":"The cluster shows strong enrichment for translation and ribosome biogenesis terms (cytoplasmic translation, ribosome biogenesis, preinitiation complex formation) alongside RNA splicing and mRNA processing (spliceosome assembly, cis splicing). This points to a cohesive group involved in core gene-expression machinery, spanning ribosome assembly and mRNA maturation/processing.","confidence":"High","size":25,"edges":41,"triangles":81,"max_degree":10,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":8},{"id":"GO:0002181","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0008380","count":5},{"id":"GO:0000244","count":5}]},{"hash":"1552724606784523170","title":"Actin Cytoskeleton Remodeling and Membrane Repair","description":"This cluster is dominated by GO terms tied to actin dynamics (filopodium assembly, actin filament regulation, contractile ring assembly), vesicle transport along actin, and plasma membrane repair, indicating a cohesive theme of cytoskeleton remodeling and membrane-associated trafficking. Some terms like hair follicle maturation or angiogenesis are peripheral and less representative.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001778","count":5},{"id":"GO:0051489","count":4},{"id":"GO:0043087","count":4},{"id":"GO:0016525","count":3},{"id":"GO:1902405","count":3}]},{"hash":"1859961817144524533","title":"Developmental signaling and epithelial morphogenesis","description":"The cluster is enriched for GO terms tied to tissue morphogenesis and development (such as epithelium morphogenesis and kidney development) and accompanied by signaling and trafficking processes (Rho/GTPase regulation, thrombin receptor signaling, and receptor recycling) that typically coordinate morphogenetic events. This combination suggests a theme around developmental signaling that shapes epithelial tissues.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006663","count":6},{"id":"GO:0035023","count":3},{"id":"GO:0002009","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0043547","count":2}]},{"hash":"768537786024030738","title":"Mitochondrial Transport and Energy Metabolism","description":"The GO terms cluster around mitochondrial transport (ADP, citrate, phosphate, ornithine, Mn2+), the malate-aspartate shuttle, and energy-related processes like adaptive thermogenesis. Additional terms related to fatty acid response and insulin signaling support a mitochondria-centered metabolic theme, suggesting these proteins function in mitochondrial transport and energy production.","confidence":"High","size":25,"edges":12,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":15},{"id":"GO:0032869","count":12},{"id":"GO:0035435","count":12},{"id":"GO:0043490","count":12},{"id":"GO:0015866","count":12}]},{"hash":"1162640996841882893","title":"Rho-regulated cytoskeletal remodeling and adhesion","description":"The top GO terms cluster around actin-based structures (filopodium and podosome assembly), Rho signaling, integrin activation and signaling, cell polarity establishment, and EMT, all pointing to cytoskeletal remodeling and cell adhesion processes driving migration/invasion. Some terms like neuron development appear incidental but do not dominate the theme.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0035023","count":8},{"id":"GO:0046847","count":6},{"id":"GO:0030500","count":6},{"id":"GO:0021744","count":6},{"id":"GO:0033622","count":5}]},{"hash":"2177375706278158566","title":"Cardiac morphogenesis and signaling","description":"The top GO terms cluster around heart development and signaling pathways, notably Wnt and Notch, with specific references to cardiac right atrium morphogenesis and venous endothelial differentiation, plus mechanical stimulus response and cell migration, indicating a module focused on cardiac morphogenesis and its signaling processes.","confidence":"High","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0016055","count":13},{"id":"GO:0050728","count":13},{"id":"GO:0071260","count":12},{"id":"GO:0003270","count":12},{"id":"GO:0003213","count":12}]},{"hash":"1122581000784259554","title":"Ubiquitin-Dependent Regulation of Circadian and Immune Signaling","description":"The top GO terms are dominated by ubiquitination and ubiquitin-dependent protein catabolic processes, with additional signals for circadian rhythm regulation and innate immune defense, suggesting a functional module of proteins that modulate signaling via ubiquitin tagging and turnover in both circadian and immune contexts.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0000209","count":8},{"id":"GO:0051865","count":7},{"id":"GO:0042752","count":6},{"id":"GO:0045087","count":6}]},{"hash":"739822333195744044","title":"Transcription and Cell Cycle Regulation","description":"The cluster is dominated by GO terms for DNA-templated transcription and the mitotic cell cycle, with supporting chromatin modification (histone methylation) and ubiquitin-dependent protein catabolism, pointing to a core theme of gene expression control during cell division and related protein homeostasis. Other terms like intracellular transport and gravitropism are peripheral, suggesting additional regulatory roles but not defining the cluster.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000278","count":3},{"id":"GO:0051568","count":3},{"id":"GO:0034729","count":3},{"id":"GO:0043547","count":3}]},{"hash":"2102409222104364811","title":"Mitotic cell cycle control with innate immunity","description":"This cluster is driven by strong enrichment for cell division and mitotic cell cycle terms (cell division, mitotic cell cycle, positive regulation of mitotic metaphase/anaphase transition), supported by related processes such as protein ubiquitination and homooligomerization that regulate cell-cycle machinery. Innate immune response and defense against virus appear as secondary themes but do not dominate. Overall, the dominant signal points to mitotic control and protein regulation, with a peripheral link to antiviral signaling, justifying a label that highlights mitotic regulation with an immune component.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":8},{"id":"GO:0000278","count":7},{"id":"GO:0035556","count":5},{"id":"GO:0051607","count":5},{"id":"GO:0045444","count":4}]},{"hash":"950154703774107295","title":"Cardiac signaling and cell migration","description":"The cluster includes heart development as a key term and a collection of signaling pathways (GPCRs for acetylcholine and tachykinin; insulin/IGF receptor signaling; PI3K-Akt; Rho/small GTPase signaling) plus lamellipodium assembly, suggesting a cohesive module governing cardiac signaling together with cytoskeletal dynamics and cell movement.","confidence":"Medium","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007213","count":4},{"id":"GO:0048009","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0008286","count":4},{"id":"GO:0035023","count":4}]},{"hash":"2051272392659067524","title":"Unknown","description":"The top GO terms are diverse, including transcriptional regulation (DNA-templated transcription, negative regulation of RNAP II), immune signaling (NK cell activation), hormonal response (response to dexamethasone), intracellular trafficking (endosome transport, endocytic recycling), and neural development/plasticity (spinal cord development, synaptic plasticity). The lack of a single cohesive biological theme across these processes makes it hard to assign a specific, representative function for the cluster, so I label it Unknown.","confidence":"","size":25,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":4},{"id":"GO:0000122","count":3},{"id":"GO:0002323","count":2},{"id":"GO:0071549","count":2},{"id":"GO:0033138","count":2}]},{"hash":"2236396238094394787","title":"Membrane signaling, adhesion, and vesicle trafficking","description":"The cluster is characterized by GO terms linking plasma membrane signaling (integrin signaling, receptor signaling, VEGF signaling) with junction assembly (paranodal and smooth septate junctions) and vesicle trafficking (receptor internalization, lysosome/vacuole localization, protein turnover). This suggests a cohesive module coordinating cell adhesion, cell\u2013cell junctions, and membrane trafficking rather than a single isolated function.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":5},{"id":"GO:0030913","count":5},{"id":"GO:1900746","count":4},{"id":"GO:0090528","count":4},{"id":"GO:0061462","count":4}]},{"hash":"2055889439545781702","title":"Skeletal muscle sarcomere organization and actin assembly","description":"It is dominated by sarcomere organization and actin assembly terms (sarcomere organization, skeletal muscle thin filament assembly, actin filament bundle assembly), plus calcium response, pointing to muscle cytoskeleton and contraction-related processes.","confidence":"High","size":24,"edges":270,"triangles":1897,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":11},{"id":"GO:0051017","count":11},{"id":"GO:0043982","count":11},{"id":"GO:0045214","count":11},{"id":"GO:0030240","count":11}]},{"hash":"1711786651234948763","title":"mRNA splicing and translation initiation regulation","description":"The terms cluster around RNA processing and translation control, notably mRNA splicing via spliceosome (splicing, splice site recognition, polyadenylation-related terms) and translation initiation/reinitiation processes (preinitiation complex formation, translation reinitiation), with some ncRNA-mediated regulatory activity, indicating a unit coordinating RNA maturation with translation steps.","confidence":"High","size":24,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":13},{"id":"GO:0045292","count":13},{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0002188","count":12}]},{"hash":"969322998011808400","title":"Host-cell transformation and epithelial growth signaling","description":"This cluster is enriched for GO terms related to symbiont-mediated transformation of host cells, epithelial cell proliferation and development (mammary and lung morphogenesis), and growth-related signaling pathways (VEGF response, PI3K-AKT, JNK), plus transcytosis. The shared theme appears to be interactions that modify host cells and promote epithelial growth and trafficking, rather than a single specific process.","confidence":"Medium","size":24,"edges":239,"triangles":1354,"max_degree":23,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":24},{"id":"GO:0090188","count":24},{"id":"GO:0035924","count":24},{"id":"GO:0046330","count":24},{"id":"GO:0045056","count":24}]},{"hash":"2144667002723382663","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0000398","count":7},{"id":"GO:0006378","count":6},{"id":"GO:0045292","count":6},{"id":"GO:0002188","count":6},{"id":"GO:0001731","count":6}]},{"hash":"478854729734312712","title":"Unknown","description":"Unknown","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000480","count":14},{"id":"GO:0000447","count":14},{"id":"GO:0000472","count":14},{"id":"GO:0000278","count":12},{"id":"GO:0031954","count":12}]},{"hash":"103223527732742174","title":"Adaptive Immunity and Phagocyte Activation","description":"The terms cluster around adaptive immune functions (T and B cell activation, T cell costimulation, regulation of T cell proliferation, and immune response) together with phagocytic processes (phagocytosis/engulfment) and innate/trafficking aspects (neutrophil extravasation). The inclusion of proteolysis suggests antigen processing, linking innate and adaptive responses. Overall, this set points to a coordinated immune activation and regulation program involving both lymphocytes and phagocytes.","confidence":"High","size":24,"edges":10,"triangles":2,"max_degree":7,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0006508","count":8},{"id":"GO:0002250","count":7},{"id":"GO:0046718","count":7},{"id":"GO:1905404","count":7},{"id":"GO:0006911","count":7}]},{"hash":"977327272079393401","title":"Actin Cytoskeleton Remodeling and Immune Activation","description":"The dominant GO terms are filopodium and lamellipodium assembly, GTPase activation, and cell spreading, indicating actin-based cytoskeleton dynamics and adhesion. Immune-related terms like T cell activation and neutrophil degranulation regulation co-occur, suggesting the cluster links cytoskeletal remodeling to immune signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0046847","count":18},{"id":"GO:0030032","count":17},{"id":"GO:0043314","count":17},{"id":"GO:1904693","count":17},{"id":"GO:0090630","count":17}]},{"hash":"749358432930134778","title":"Mammary Epithelial Cell Cycle Regulation","description":"The cluster is dominated by mitosis- and cell cycle-related GO terms (G1/S and G2/M transitions, spindle pole separation, chromosome condensation) and transcription regulation, with accompanying mammary gland development signals, indicating proteins that coordinate cell cycle progression in mammary epithelial cells.","confidence":"High","size":24,"edges":22,"triangles":7,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000082","count":17},{"id":"GO:0006351","count":16},{"id":"GO:0045737","count":16},{"id":"GO:0033598","count":15},{"id":"GO:0046626","count":15}]},{"hash":"2024786497380296413","title":"Translation initiation and reinitiation","description":"Top GO terms center on translation initiation and reinitiation, including translation reinitiation, formation of the translation preinitiation complex, IRES-dependent initiation, termination-reinitiation, and regulation of translational initiation. While a few RNA processing terms appear, they are secondary to the dominant translation-related signals, justifying a label around translation initiation and reinitiation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0002188","count":12},{"id":"GO:0001731","count":12},{"id":"GO:0075522","count":10},{"id":"GO:0075525","count":10},{"id":"GO:0006446","count":10}]},{"hash":"56846966665298181","title":"Developmental Regulation and Cilium Assembly","description":"Reasoning: the strongest terms describe development (forebrain development, skin development, gastrulation, multicellular organism development) and cell cycle regulation (mitotic cell cycle, negative regulation of cytokinesis), with notable mentions of cilium assembly. This points to a cluster of developmental regulators tied to cell division and ciliogenesis, rather than a single pathway. Therefore the label Developmental Regulation and Cilium Assembly fits.","confidence":"Medium","size":24,"edges":20,"triangles":7,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0030900","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0032466","count":5},{"id":"GO:0007275","count":4}]},{"hash":"450242393924760356","title":"Developmental patterning and organ morphogenesis","description":"The top GO terms center on developmental processes, including midbrain development, left/right pattern formation, pancreas morphogenesis and pancreatic cell development, EMT in heart development, and Wnt signaling. This suggests a coherent theme of embryonic patterning and organ formation, with signal transduction (Wnt) guiding morphogenesis, despite a few immune-related terms that may reflect gene reuse in defense responses. Overall, the cluster appears to reflect developmental patterning and organogenesis functions.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0035264","count":5},{"id":"GO:0060972","count":4}]},{"hash":"1077105603437795625","title":"Ribosome Biogenesis and Cell Division","description":"The cluster is enriched for ribosome biogenesis and ribosomal subunit biogenesis, along with cell division and centromere-associated chromatin assembly, which together point to a coordinated program for protein synthesis and mitotic processes. Additional terms related to microtubule dynamics and vesicle trafficking suggest broader assembly and transport activities supporting growth and division. Overall, these proteins seem to function in coordinating ribosome production with mitosis and chromosomal maintenance.","confidence":"Medium","size":24,"edges":75,"triangles":110,"max_degree":14,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":5},{"id":"GO:0051301","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0045899","count":3},{"id":"GO:0006888","count":3}]},{"hash":"521922447759067715","title":"RNA processing and translational regulation","description":"The top GO terms center on mRNA maturation (splicing, polyadenylation) and complex regulation of translation (initiation, preinitiation complex formation, IRES-dependent initiation, and reinitiation), with supporting terms for mRNA stability under stress and regulatory ncRNA-mediated silencing. This suggests a cohesive cluster of proteins involved in post-transcriptional processing and control of translation, including viral translation-related processes.","confidence":"High","size":24,"edges":234,"triangles":1286,"max_degree":23,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":16},{"id":"GO:0045292","count":15},{"id":"GO:0075522","count":13},{"id":"GO:0002188","count":13},{"id":"GO:0075525","count":13}]},{"hash":"1168182136445525484","title":"Ribosome synthesis and energy metabolism under stress","description":"The top terms are dominated by translation and ribosomal large subunit assembly, with the TCA cycle also represented, pointing to core protein synthesis and central metabolism. The presence of stress-related terms (response to antibiotic, starvation, SOS) along with development and dexamethasone responses suggests a cluster of components tied to basic cellular machinery and broad stress adaptation rather than a single specific pathway.","confidence":"Medium","size":24,"edges":247,"triangles":1503,"max_degree":23,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0006099","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0000027","count":2},{"id":"GO:0046677","count":2}]},{"hash":"2080406122229004969","title":"Unknown","description":"The top GO terms are extremely diverse, spanning telomere maintenance/capping, adipogenesis, immune signaling, heat response, vesicle trafficking regulation, chloroplast protein import, and an obsolete GPCR pathway term. There is no single coherent biological process or function grouping all these terms, suggesting heterogeneous or noisy annotations. Therefore, a generic Unknown label with None confidence is appropriate.","confidence":"","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0032212","count":8},{"id":"GO:0045444","count":8},{"id":"GO:0010745","count":8},{"id":"GO:0007205","count":7},{"id":"GO:0009408","count":7}]},{"hash":"2175381792178245972","title":"Notch signaling and developmental patterning","description":"The top GO terms are dominated by Notch signaling regulation (positive and roles in somitogenesis) and broad developmental patterning processes (imaginal disc leg segmentation, compartment pattern specification, and organ development), suggesting a cluster of proteins involved in Notch-mediated development and tissue patterning across species.","confidence":"High","size":24,"edges":24,"triangles":3,"max_degree":7,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0032092","count":6},{"id":"GO:0007143","count":6},{"id":"GO:0036011","count":6},{"id":"GO:1902367","count":6},{"id":"GO:0007386","count":6}]},{"hash":"1683412454807230029","title":"Complement Activation and Coagulation Proteins","description":"Top GO terms show strong enrichment for complement activation (classical and lectin pathways) and blood coagulation, with supporting signals for immune defense and extracellular matrix remodeling (collagen catabolic process). This suggests a coherent cluster of secreted/extracellular factors involved in innate immunity and hemostasis, despite lack of observed network edges.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0001867","count":7},{"id":"GO:0045944","count":6},{"id":"GO:0031214","count":5},{"id":"GO:0030194","count":5}]},{"hash":"46459118025820566","title":"Neural development and synapse formation","description":"The cluster is enriched for neural development and synapse-related processes, including synapse assembly, brain development, Purkinje cell development, and PSD-95 clustering, suggesting the proteins function together in neuronal development and synaptic organization. Some terms such as nephron development or hair cycle regulation may reflect broader or pleiotropic annotations, but the strongest signals point to neural development and synaptic processes.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":24},{"id":"GO:0072006","count":24},{"id":"GO:0072137","count":24},{"id":"GO:0048023","count":24},{"id":"GO:0060901","count":24}]},{"hash":"1192989341361960601","title":"RNA transcription and ribosome biogenesis","description":"This cluster is strongly enriched for GO terms tied to RNA polymerase II\u2013driven transcription, RNA-templated transcription, and transcription initiation, along with ribosome biogenesis, pointing to core functions in gene expression and ribosome assembly. The presence of vesicle trafficking and exosomal-related terms suggests additional, potentially dual roles in protein routing and secretion, but the dominant signal centers on transcription and ribosome formation.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001172","count":4},{"id":"GO:0006366","count":4},{"id":"GO:0006888","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0006367","count":3}]},{"hash":"2218432926046859141","title":"Plant Golgi Sugar Transporters and Glycosylation","description":"The cluster is enriched for GO terms tied to transport of sugar nucleotides into the Golgi (e.g., UDP-glucose), as well as glycosylation processes (N- and O-linked fucosylation) and related transmembrane transport of glycolytic intermediates into Golgi, which together point to Golgi-localized sugar nucleotide transporters and glycosylation enzymes in plants. Some plant development terms (root hair and lateral root development) may reflect downstream phenotypes or broader biological contexts. ","confidence":"Medium","size":24,"edges":24,"triangles":1,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0015786","count":3},{"id":"GO:0036071","count":3},{"id":"GO:0036066","count":3},{"id":"GO:1990536","count":3}]},{"hash":"561576130161753608","title":"Insulin signaling and actin remodeling","description":"The cluster is strongly enriched for insulin receptor signaling pathway terms and Rho/GTPase\u2013mediated signaling, along with lamellipodium and podosome assembly, indicating a core theme where insulin signaling interfaces with actin cytoskeleton remodeling and cell motility. Some terms like heart development and apoptosis may reflect broader roles, but the dominant pattern links metabolic signaling to cytoskeletal dynamics, supporting this label as representative.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0008286","count":17},{"id":"GO:0043046","count":12},{"id":"GO:0035023","count":12},{"id":"GO:0071800","count":12},{"id":"GO:0030032","count":12}]},{"hash":"1225344048251959126","title":"GTPase Signaling and Vesicle Trafficking","description":"This cluster centers on GO terms related to GTPase activity regulation, phosphoinositide signaling, lipid signaling (phosphatidic acid), and vesicle trafficking (endosome\u2013lysosome transport; dense core granule maturation) along with centrosome localization and cell migration, pointing to a cohesive theme of intracellular signaling and membrane/coordinator trafficking rather than a single metabolic pathway. Some broader developmental/regulatory terms are present but do not dominate the set.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0006930","count":2},{"id":"GO:1904179","count":2},{"id":"GO:0048015","count":2},{"id":"GO:0071539","count":2}]},{"hash":"1336693944570437468","title":"Meiosis: chromatid cohesion and spindle dynamics","description":"The proteins are strongly enriched for meiotic processes such as centromeric and sister chromatid cohesion, meiotic spindle elongation, and meiotic nuclear division, pointing to roles in chromosome segregation during meiosis. A few terms relate to broader signaling or regulatory processes, but the dominant theme is meiotic chromosome dynamics.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051754","count":7},{"id":"GO:0043547","count":6},{"id":"GO:1903538","count":5},{"id":"GO:0051306","count":5},{"id":"GO:2001241","count":5}]},{"hash":"744658637987329243","title":"Organismal Development","description":"The top GO terms span multiple developmental processes across tissues and organs (lens fiber differentiation, midbrain development, uterus and pancreas development, ventricular morphogenesis, EMT regulation, and general multicellular organism development), indicating a shared theme of organismal development rather than a single pathway. Despite some outdated/regulatory terms, the overall pattern supports labeling as Organismal Development.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0070306","count":5},{"id":"GO:0030901","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0051573","count":4},{"id":"GO:0008284","count":4}]},{"hash":"315060637070092146","title":"Developmental Organogenesis and Patterning","description":"The cluster is enriched for organ morphogenesis and developmental patterning terms (cochlea, heart, cranial skeleton, uterus development; anterior/posterior patterning; Wnt signaling regulation), along with broader multicellular organism development and related differentiation processes, indicating a cohesive theme of embryonic development and organogenesis.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090103","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0007507","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0010001","count":4}]},{"hash":"134212807682070123","title":"GPCR signaling and blood pressure regulation","description":"The dominant GO terms point to adenylate cyclase-activating GPCR signaling (GO:0010579) and activation of adenylate cyclase (GO:0007190), along with positive regulation of blood pressure (GO:0045777) and related regulatory processes. This suggests a core theme of GPCR-mediated signaling that modulates cAMP pathways and vascular function. Additional terms reflect broader signaling regulation (e.g., GTPase activity) and immune\u2013vascular interactions (monocyte chemotaxis), while the electron transport chain term appears as a less central annotation. Overall, the cluster is best characterized by GPCR-cAMP signaling intertwined with cardiovascular regulation, with some functional diversity among members.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010579","count":6},{"id":"GO:0022900","count":5},{"id":"GO:0007190","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0043547","count":5}]},{"hash":"789744605279891570","title":"Xenobiotic and Nutrient Membrane Transporters","description":"Based on the dominant GO terms, this cluster centers on transmembrane transport of xenobiotics, vitamins, sugars, and ions (xenobiotic transport; vitamin transport; glucose import; D-xylose transport; potassium and organic anion transport), with a note of intestinal epithelial maintenance. This points to a cohesive group of membrane transporter proteins responsible for uptake and efflux of diverse solutes, rather than unrelated functions. Confidence: High","confidence":"","size":24,"edges":179,"triangles":594,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":23},{"id":"GO:0035461","count":23},{"id":"GO:0042908","count":20},{"id":"GO:0071805","count":19},{"id":"GO:0042891","count":14}]},{"hash":"851250932175875375","title":"Nuclear RNA processing and transcription regulation","description":"The proteins are enriched for nuclear RNA metabolism and transcriptional control: splicing regulation via the spliceosome, nonsense-mediated decay, and transcription by RNA polymerase II, with additional links to NF-kappaB signaling, apoptosis, and stem cell maintenance. This points to a cohesive theme of gene expression regulation at the RNA level and in the nucleus, rather than cytoplasmic pathways.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002669","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0006915","count":2},{"id":"GO:0031047","count":2},{"id":"GO:0043124","count":2}]},{"hash":"2069530073600759362","title":"Developmental Signaling and Growth Regulation","description":"This cluster is dominated by GO terms pointing to signaling pathways that govern growth and development: TORC1 signaling, GPCR-PLC signaling, regulation of GTPase activity and protein tyrosine kinase activity, plus developmental processes like brain development, gastrulation, and gonad formation. The defense response to Gram-positive bacterium stands out as a potential non-specific annotation or cross-talk, but overall the set reflects signaling networks guiding development rather than a single functional unit.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0050830","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0038202","count":6},{"id":"GO:0008584","count":6},{"id":"GO:0061099","count":6}]},{"hash":"1179110181584343115","title":"Neurite outgrowth and microtubule dynamics","description":"This cluster is dominated by GO terms tied to neuron projection development, axon extension, and multiple microtubule\u2013related processes (polymerization, sliding, bundle formation, and localization to synapses), indicating a cohesive theme of neuronal cytoskeleton remodeling and neurite outgrowth. Additional terms about cilium assembly and mitochondrial fission suggest related organelle dynamics in neurons, but the core signal centers on neuronal process outgrowth and microtubule regulation.","confidence":"High","size":24,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":4},{"id":"GO:1902856","count":3},{"id":"GO:1902474","count":3},{"id":"GO:0090258","count":3},{"id":"GO:0051012","count":3}]},{"hash":"1425816749672911123","title":"Ubiquitin-Dependent Innate Antiviral Defense","description":"The top GO terms point to ubiquitin-dependent protein catabolic processes, autoubiquitination, and ERAD, all tied to proteasomal degradation, alongside defense and innate immune responses to virus. This suggests a cluster of proteins involved in tagging and degrading proteins (including viral components) to regulate immune signaling, with some notes on vitamin D response and microtubule-associated localization. Overall, the theme is ubiquitin-mediated proteolysis linked to antiviral innate immunity.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0033280","count":10},{"id":"GO:0051607","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0051865","count":9}]},{"hash":"1871597930273492310","title":"Ubiquitin-Dependent Innate Immune Regulation","description":"The dominant term is ubiquitin-dependent protein catabolic process, with several terms pointing to defense against virus and innate immune response, as well as signaling pathways like TNF and JNK, plus ubiquitination of actin and other proteins. This pattern suggests a cohesive group of proteins involved in ubiquitin-mediated proteolysis that modulates innate immune signaling and antiviral responses.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":18},{"id":"GO:1903265","count":10},{"id":"GO:0051607","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0007026","count":9}]},{"hash":"568021321120851327","title":"Rho-Driven Migration and Immune Signaling","description":"This cluster centers on regulation of Rho signaling and cell migration, with supporting MAPK/ERK activation and innate immune responses, suggesting coordinated cytoskeletal/motility control linked to immune signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:2001275","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0071260","count":4}]},{"hash":"279584276431619128","title":"Filamentous growth and DNA maintenance in yeast","description":"The presence of terms for pseudohyphal growth, invasive growth in response to glucose limitation, and substrate adhesion-dependent cell spreading points to a filamentous growth program in response to nutrient stress. The concurrent DNA-related terms (DNA recombination, replication, repair) suggest maintenance of genome integrity during this morphogenetic response. Taken together, the cluster seems to represent yeast responses that couple stress-induced filamentous growth with DNA maintenance.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006310","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0002931","count":3},{"id":"GO:0032922","count":2},{"id":"GO:0006260","count":2}]},{"hash":"438648278425594715","title":"Rho-Actin Cytoskeletal Regulation","description":"The cluster centers on Rho signaling and actin filament organization, suggesting cytoskeletal remodeling as a core function. Related terms about vesicle trafficking (Golgi retention) and immune/platelet processes (B cell proliferation, platelet aggregation) align with cytoskeletal dynamics guiding transport and cell activation.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045053","count":3},{"id":"GO:2001240","count":3},{"id":"GO:0007266","count":3},{"id":"GO:0030890","count":3},{"id":"GO:0035023","count":3}]},{"hash":"106607271416850284","title":"Neural development and signaling","description":"The top GO terms are dominated by nervous system development and neuron-related processes: neuron projection development, CNS development, neural crest cell migration, sensory-related nervous system terms, and various neuron projection extensions. Coupled with regulation of PKC signaling and ERK1/2 cascade activation, the cluster appears to group proteins involved in neural development and intracellular signaling pathways that govern neuron connectivity and maturation. A couple of terms (spliceosome-mediated splicing, viral release) are less central and could reflect broader cellular processes or incidental annotations, but the main theme remains neural development and signaling.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031175","count":2},{"id":"GO:0090036","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0019076","count":2}]},{"hash":"146941989870809925","title":"Skeletal and muscle development with cell adhesion","description":"This cluster is dominated by GO terms for skeletal system development, ossification, myoblast differentiation, and smooth muscle proliferation, indicating programs of bone and muscle formation. It also features cell adhesion terms and, to a lesser extent, neural connectivity terms such as paranodal junction assembly and nerve impulse transmission, suggesting coordination between musculoskeletal development and neural/adhesive interactions. Overall, the shared theme is musculoskeletal development with related cell adhesion and neural connectivity aspects.","confidence":"High","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030913","count":12},{"id":"GO:0048661","count":11},{"id":"GO:0043931","count":11},{"id":"GO:0045663","count":11},{"id":"GO:0001501","count":11}]},{"hash":"23448669588670152","title":"NF-kB signaling and receptor trafficking","description":"The GO terms point to regulation of NF-kB signaling (canonical and non-canonical), cell surface receptor signaling and internalization, lysosome/vacuole localization, and protein catabolic processes, as well as VEGF signaling regulation. Together these suggest a cluster centered on signaling modulation at the membrane and subsequent endocytic/lysosomal trafficking, rather than a single enzymatic or structural function. Some cardiac action potential terms appear as peripheral annotations.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901223","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0086005","count":3},{"id":"GO:0086014","count":3},{"id":"GO:1900746","count":2}]},{"hash":"667197567682420629","title":"Cardiac SA Node Signaling and Mechanotransduction","description":"The prominent GO terms point to SA node cell communication and action potential regulation, along with cellular responses to mechanical stimuli and muscle stretch, suggesting a cardiac conduction and mechanotransduction theme. Immune-related terms and apoptosis are present but not central to the dominant cardiac signaling pattern, making this label a concise reflection of the cluster\u2019s core function. ","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002268","count":3},{"id":"GO:0045083","count":3},{"id":"GO:0097284","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0086070","count":3}]},{"hash":"406161040221143877","title":"Biosynthesis and RNA Modification","description":"Most terms point to metabolic biosynthesis (antibiotic, biotin, sterol, polyamine) and RNA processing/modification (m7G capping, guanine-N7 methylation, tRNA methylation), suggesting a functional cluster around biosynthetic pathways and RNA modification. Some terms like nodulation and xenobiotic response are more divergent, indicating heterogeneity within the set. Overall, the label reflects the dominant themes in the cluster.","confidence":"Medium","size":24,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":8},{"id":"GO:0009102","count":8},{"id":"GO:0006370","count":5},{"id":"GO:0036265","count":5},{"id":"GO:0016126","count":5}]},{"hash":"716097008374250476","title":"Bacterial central carbon metabolism and vitamin biosynthesis","description":"The terms center on core energy pathways (glycolysis, TCA cycle, fatty acid beta-oxidation) and amino acid catabolism (valine) alongside biosynthesis of vitamins such as menaquinone and phylloquinone, with an additional note of antibiotic biosynthesis. Together they suggest a bacterial metabolic cluster encompassing both primary energy metabolism and vitamin/secondary metabolite biosynthesis, supporting a cohesive label focused on metabolism and vitamin biosynthesis.","confidence":"High","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":10},{"id":"GO:0006635","count":9},{"id":"GO:0006574","count":9},{"id":"GO:0009234","count":9},{"id":"GO:0010124","count":9}]},{"hash":"1028617007392189611","title":"Mitotic Chromatin Regulation and Proliferation","description":"This cluster centers on mitosis and cell division (mitotic cell cycle, mitotic sister chromatid segregation) and cell proliferation, and is enriched for chromatin and epigenetic regulation (histone acetylation, histone methylation, imprinting regulation) as well as proteasome/ubiquitin-mediated protein turnover (SCF-dependent). The presence of developmental signaling (TGF-beta stimulus) and gastrulation terms further supports an integrated role in development where cell cycle control and chromatin state are coordinated. Overall, the proteins likely function in coordinating mitotic progression with epigenetic control during development and proliferation.","confidence":"High","size":23,"edges":78,"triangles":131,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071560","count":15},{"id":"GO:0007568","count":15},{"id":"GO:0031146","count":14},{"id":"GO:0008283","count":14},{"id":"GO:0000278","count":14}]},{"hash":"1636343031440515768","title":"DNA replication and centrosome cycle regulation","description":"Top GO terms show strong emphasis on DNA replication and centrosome cycle, indicating a core function in cell cycle control and DNA synthesis. While additional terms point to developmental signaling and morphogenesis, the dominant theme is regulation of cell cycle and replication, making this label representative of the cluster's primary function.","confidence":"High","size":23,"edges":170,"triangles":570,"max_degree":21,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010571","count":23},{"id":"GO:0007098","count":23},{"id":"GO:0006260","count":23},{"id":"GO:0048701","count":23},{"id":"GO:0020021","count":22}]},{"hash":"1055987551983043745","title":"Mitochondrial transport and energy metabolism","description":"The terms center on mitochondrial transport (ADP, citrate, ornithine, manganese), the malate-aspartate shuttle, and related energy processes, with links to adaptive thermogenesis and insulin-stimulated energy homeostasis, indicating a cohesive theme of mitochondrial transport and energy metabolism.","confidence":"High","size":23,"edges":19,"triangles":0,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":11},{"id":"GO:0032869","count":10},{"id":"GO:0035435","count":10},{"id":"GO:0043490","count":10},{"id":"GO:0015866","count":10}]},{"hash":"518094149463097522","title":"Phosphatase-regulated signaling and mitotic cell cycle","description":"This cluster is enriched for dephosphorylation of tyrosine and threonine residues, negative regulation of protein kinase activity, and ERK/MAPK signaling modulation, suggesting phosphatases as central regulators. Additionally, terms on cell cycle, kinetochore localization, and mitotic actomyosin contractile ring maturation point to a strong link to mitosis and cell division control, with a few immune signaling terms that are consistent with broader phosphatase-mediated regulation. Confidence: High","confidence":"","size":23,"edges":253,"triangles":1771,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":23},{"id":"GO:0000200","count":23},{"id":"GO:0070373","count":23},{"id":"GO:0035335","count":19},{"id":"GO:0007049","count":19}]},{"hash":"197617905851252686","title":"Neurodevelopment and epithelial organ morphogenesis","description":"The cluster appears to be enriched for developmental signaling focusing on nervous system development and epithelial organ morphogenesis. Top terms include nervous system development, substantia nigra development, negative regulation of neuron apoptosis, positive regulation of Wnt signaling and ERK cascade, hair follicle morphogenesis, and salivary gland and lung morphogenesis, suggesting a shared theme of neurodevelopment together with epithelial organ formation rather than a single tissue-specific function.","confidence":"Medium","size":23,"edges":250,"triangles":1709,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":9},{"id":"GO:0070374","count":8},{"id":"GO:0031532","count":8},{"id":"GO:0043524","count":7},{"id":"GO:0021762","count":7}]},{"hash":"1232011736130078476","title":"Neuronal Synaptic Plasticity and Signaling","description":"This cluster is dominated by terms related to neuronal function: long-term potentiation, memory, and axonogenesis point to synaptic plasticity and neuronal development. Additional phosphatidylinositol-mediated signaling and NF-kappaB\u2013related regulation support activity-dependent signaling and gene regulation in neurons, with glucocorticoid response reflecting stress-modulated synaptic function. While some terms (e.g., ABA signaling, heart contraction regulation) are less directly neural, the core pattern centers on synaptic signaling and plasticity.","confidence":"Medium","size":23,"edges":29,"triangles":15,"max_degree":9,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0060291","count":10},{"id":"GO:0007409","count":9},{"id":"GO:0048015","count":8},{"id":"GO:0051384","count":8},{"id":"GO:2001015","count":8}]},{"hash":"2165556562972400854","title":"Brain visual processing and dopaminergic signaling","description":"The top GO terms cluster around neural processing, especially vision (visual perception, visual learning) and dopaminergic synaptic transmission, with associated reward-related behavior (cocaine) and signaling pathways (ERK cascade, prostaglandin response). Additional terms hint at broader CNS signaling (pain perception, brain renin-angiotensin system) but the dominant theme remains brain/visual processing plus dopaminergic signaling.","confidence":"High","size":23,"edges":234,"triangles":1415,"max_degree":22,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0007601","count":13},{"id":"GO:0048148","count":13},{"id":"GO:0010759","count":13}]},{"hash":"1283124266309934437","title":"MAPK/ERK signaling regulation and phosphorylation control","description":"This cluster centers on phosphorylation control and MAPK/ERK pathway regulation, with terms for tyrosine/threonine dephosphorylation and negative regulation of ERK cascades, suggesting a set of signaling regulators modulating kinase activity. Also included are cell-cycle related terms like kinetochore localization and mitotic actomyosin maturation, indicating some overlap with cell division regulation. Overall, the main theme is modulation of MAPK signaling via phosphorylation status.","confidence":"Medium","size":23,"edges":249,"triangles":1690,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0035335","count":19},{"id":"GO:0050860","count":17},{"id":"GO:0000200","count":17},{"id":"GO:0070373","count":17},{"id":"GO:0034501","count":13}]},{"hash":"1901072206464250042","title":"Developmental Morphogenesis","description":"The top GO terms cluster around tissue formation and organ development across diverse lineages\u2014endocardial cushion EMT, placenta and endocrine system development, trophoblast and pancreatic cell differentiation, cartilage and hair follicle morphogenesis, and facial structure (roof of the mouth), as well as left-right patterning. This indicates a general role in embryonic morphogenesis across multiple tissues, justifying a concise label that captures the shared theme. A broad regulatory term appears among the terms, but it aligns with developmental control rather than contradicting the morphogenesis focus.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":17},{"id":"GO:0060806","count":17},{"id":"GO:0035270","count":17},{"id":"GO:0060707","count":17},{"id":"GO:0060536","count":17}]},{"hash":"902053402189295723","title":"Wnt-regulated development and epithelial morphogenesis","description":"Most terms point to developmental processes coordinated by Wnt signaling, including negative regulation of canonical Wnt signaling, cranial ganglion development, hair follicle placode formation, and regulation of epithelial-to-mesenchymal transitions in morphogenesis. The other terms (nuclear import, GTPase regulation, proton transport) may reflect ancillary regulatory roles common to signaling proteins, but the core signal relates to Wnt-controlled development and epithelial morphogenesis.","confidence":"Medium","size":23,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006607","count":7},{"id":"GO:0043547","count":7},{"id":"GO:0015991","count":6},{"id":"GO:0007050","count":6},{"id":"GO:0060789","count":5}]},{"hash":"1795442004430833335","title":"Circadian and Stress-Responsive Transcription Regulation","description":"Dominant terms are DNA-templated transcription and circadian regulation of gene expression, with strong links to hypoxia and xenobiotic responses, pointing to a transcription-regulatory module activated by environmental stress and circadian cues; additional terms on development and immune homeostasis fit within this broad transcriptional control framework.","confidence":"Medium","size":23,"edges":252,"triangles":1750,"max_degree":22,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":23},{"id":"GO:0032922","count":22},{"id":"GO:0061419","count":22},{"id":"GO:0021502","count":22},{"id":"GO:0009410","count":22}]},{"hash":"354709770167705761","title":"Neuroimmune Signaling","description":"This cluster combines strong innate immune terms (innate immune response, complement activation, phagocytosis, immunoglobulin production, mast cell degranulation) with neural/sensory terms (nerve impulse transmission, membrane depolarization, paranodal junction assembly, mechanosensory hearing). The proteins likely participate in neuroimmune communication and the regulation of neural activity, not solely immune or neural functions, suggesting a neuroimmune signaling theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045087","count":5},{"id":"GO:0050910","count":5},{"id":"GO:0019226","count":5},{"id":"GO:0043303","count":4},{"id":"GO:0006910","count":4}]},{"hash":"950717910036914873","title":"Neural development and synaptic signaling regulation","description":"The top GO terms emphasize brain development, dendritic spine morphogenesis, and regulation of synaptic vesicle exocytosis, with supporting signals from Rho and Ras pathway regulation, pointing to neuronal development and synaptic function as the core theme. While some terms involve broader regulatory processes, the neural-centric terms dominate, justifying this label.","confidence":"High","size":23,"edges":98,"triangles":108,"max_degree":15,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":7},{"id":"GO:0043314","count":6},{"id":"GO:0060313","count":6},{"id":"GO:0046580","count":6},{"id":"GO:0007420","count":6}]},{"hash":"888388929032663835","title":"Neuronal development and synaptic vesicle dynamics","description":"Based on the GO terms, the cluster centers on brain and nervous system development and processes of vesicle trafficking and synaptic exocytosis/fusion, suggesting proteins involved in neuronal development and synaptic function. Some terms are peripheral (e.g., cell division/aging) but do not alter the core theme.","confidence":"High","size":23,"edges":59,"triangles":22,"max_degree":13,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0051301","count":5},{"id":"GO:0010796","count":5},{"id":"GO:2000300","count":5},{"id":"GO:0031384","count":5}]},{"hash":"1431563758454810330","title":"Actin Remodeling in Immunity and Neural Development","description":"This cluster centers on innate immune response and defense against bacteria, alongside neural development processes such as axonal fasciculation, myelination, and synapse assembly, with an emphasis on actin filament severing. The common thread appears to be actin cytoskeleton remodeling, a core mechanism in both immune responses and neural development, suggesting these proteins collectively influence actin dynamics across these biological contexts.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0051014","count":6},{"id":"GO:0071222","count":5},{"id":"GO:0050829","count":5},{"id":"GO:0050830","count":5}]},{"hash":"20662202375777772","title":"Neuronal development, axon guidance, and synaptic plasticity","description":"The top GO terms point to neuron-focused processes: axon extension and guidance (GO:0045773, GO:0035385), synaptic structural plasticity (GO:0051835), memory (GO:0007613), and substantia nigra development (GO:0021762), indicating neuronal growth and plasticity. Additional terms related to endosomal sorting (GO:0071985) and actin cytoskeleton reorganization (GO:0031532) reflect cytoskeletal dynamics and vesicle trafficking critical for neuronal morphogenesis and synapse remodeling. While there is a mention of the mitotic cell cycle, the strongest signal is neuronal development and synaptic remodeling, making the overall theme coherent.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031532","count":5},{"id":"GO:0007613","count":5},{"id":"GO:0021762","count":4},{"id":"GO:1900026","count":4},{"id":"GO:1902187","count":4}]},{"hash":"299788258586865222","title":"Neural development signaling and cytoskeletal dynamics","description":"The top GO terms are dominated by neurogenesis and nervous system development, alongside regulation of Rho signaling and ERK cascades and actin cytoskeleton reorganization. This suggests a theme of neural development linked to cytoskeletal signaling and cell adhesion, rather than isolated immune or reproductive processes. Some unrelated terms appear, but the neural development signals are the strongest theme, justifying a consolidated label around neural development with cytoskeletal signaling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0070374","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0043552","count":4},{"id":"GO:0022008","count":4}]},{"hash":"1570963329065794765","title":"Mitochondrial Energy Metabolism and Translation","description":"The top GO terms cluster around mitochondrial energy production\u2014mitochondrial ATP synthesis coupled electron transport, mitochondrial translation, and assembly of complex III\u2014indicating a cohesive role in mitochondrial respiration and organellar protein synthesis. A few other terms (cytoskeletal dynamics and peripheral metabolic processes) appear as minor outliers, not defining the main function of the cluster.","confidence":"High","size":23,"edges":79,"triangles":48,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0042775","count":2},{"id":"GO:0061179","count":2},{"id":"GO:0070131","count":2},{"id":"GO:0034551","count":2},{"id":"GO:0046050","count":1}]},{"hash":"196059590912781300","title":"Neural signaling and thermogenesis","description":"This cluster centers on nervous system\u2013related functions (pain perception, locomotory behavior), GPCR-AC signaling, and temperature/thermogenic processes (cellular response to temperature, diet-induced thermogenesis) with supporting energy metabolism (electron transport chain). Together, these suggest neural regulation of metabolic and thermogenic responses and related cardiovascular actions, making the label representative.","confidence":"High","size":23,"edges":7,"triangles":4,"max_degree":3,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0002024","count":7},{"id":"GO:0022900","count":6},{"id":"GO:0010579","count":6}]},{"hash":"2125856719501630793","title":"AMPA receptor\u2013mediated synaptic plasticity regulation","description":"The dominant signal is regulation of AMPA receptor clustering and excitatory synaptic plasticity (EPSP regulation, LTP/LTD). Other terms point to cytoskeletal remodeling via Rho signaling and broader synapse modulation in fear and vocalization circuits, but the core theme centers on AMPA receptor\u2013mediated changes in synaptic strength.","confidence":"High","size":23,"edges":7,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0035023","count":14},{"id":"GO:0097117","count":13},{"id":"GO:2000822","count":13},{"id":"GO:1904717","count":13},{"id":"GO:1902498","count":13}]},{"hash":"229751212012176922","title":"Camera-type eye and neural development","description":"The cluster is dominated by terms tied to eye and neural development, notably camera-type eye development, retina development, and various brain development terms (forebrain/midbrain). While there are also terms for pancreas and gonad development, the strongest and most frequent signals point to ocular and neural differentiation, suggesting these proteins function together in eye/brain developmental programs, with regulatory transcription control as a supporting feature.","confidence":"Medium","size":23,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0043010","count":7},{"id":"GO:0007275","count":7},{"id":"GO:0008584","count":6},{"id":"GO:0030900","count":6},{"id":"GO:0007420","count":6}]},{"hash":"441381839868935510","title":"Developmental morphogenesis and actin remodeling","description":"Top terms point to developmental morphogenesis (seed morphogenesis, anterior head development, paramesonephric duct development) and actin cytoskeleton dynamics (actin filament bundle assembly, regulation of actin depolymerization), suggesting proteins coordinating tissue shape changes via actin remodeling during development. A few terms (transcription, ubiquitin-mediated protein catabolism) are ancillary, but the core signal is developmental cytoskeleton remodeling.","confidence":"High","size":23,"edges":45,"triangles":29,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0048317","count":14},{"id":"GO:2000691","count":14},{"id":"GO:0051017","count":14},{"id":"GO:0030579","count":14},{"id":"GO:0061205","count":14}]},{"hash":"726502881539823932","title":"Immune signaling and angiogenesis","description":"This cluster includes terms tied to immune regulation (negative IL-12 production, follicular dendritic cell differentiation), calcium- and phosphatidylinositol-mediated signaling, and angiogenesis, suggesting a broader role in immune-endothelial signaling and calcium-driven signal transduction. However, several terms are diverse (apoptosis, telomere capping, SNARE regulation) and do not point to a single cohesive function, so the label remains a best-fit general theme rather than a precise pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097284","count":5},{"id":"GO:0007205","count":4},{"id":"GO:0010745","count":4},{"id":"GO:0051209","count":4},{"id":"GO:0001525","count":4}]},{"hash":"1674716802222258330","title":"Diverse substrate membrane transporters","description":"GO terms indicate transmembrane transport of phosphate, nitrate, sugars, vitamins, xenobiotics, potassium, and other substrates, plus neurotransmitter loading into synaptic vesicles, pointing to a cluster enriched for diverse membrane transporter functions.","confidence":"High","size":23,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":7},{"id":"GO:0042128","count":7},{"id":"GO:0015706","count":7},{"id":"GO:0006855","count":7},{"id":"GO:0015757","count":7}]},{"hash":"228041501931381546","title":"Cardiac conduction and rhythm regulation","description":"The top GO terms are dominated by cardiac electrophysiology features: AV node cell action potential, regulation of atrial and ventricular membrane depolarization/repolarization, and regulation of heart rate by cardiac conduction. While there are a few neural development and ubiquitination terms, the recurring theme is cardiac electrical activity and rhythm control, suggesting proteins involved in heart rhythm regulation.","confidence":"High","size":23,"edges":22,"triangles":0,"max_degree":22,"top_function":null,"top_go_terms":[{"id":"GO:0021510","count":3},{"id":"GO:1902414","count":2},{"id":"GO:0086091","count":2},{"id":"GO:0060307","count":2},{"id":"GO:0086016","count":2}]},{"hash":"363118106079963047","title":"Pregnancy-related angiogenesis and coagulation","description":"This cluster centers on angiogenesis (positive regulation of angiogenesis), pregnancy (female pregnancy), coagulation and fibrinolysis, along with extracellular matrix remodeling (collagen fibril organization) and inflammatory signaling. Together these terms point to processes of vascular remodeling and coagulation regulation in pregnancy, driven by inflammatory cues and protease inhibition, which are key in placental development and maternal vascular adaptation. Therefore this label captures the shared function of the cluster.","confidence":"High","size":23,"edges":30,"triangles":8,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":6},{"id":"GO:0007565","count":4},{"id":"GO:2001238","count":4},{"id":"GO:0030308","count":4},{"id":"GO:0071347","count":4}]},{"hash":"1108750642959924369","title":"Neuronal development and morphogenesis signaling","description":"This cluster shows a blend of neuronal development cues (substantia nigra development; negative regulation of neuron apoptotic process), signaling pathway regulation (positive regulation of ERK cascade; positive regulation of GTPase activity; NF-kappaB-related term), cytoskeletal dynamics and cell shape/polarity (actin cytoskeleton reorganization; establishment/maintenance of cell polarity), and branching morphogenesis (blood vessel and gland). Together these terms point to proteins coordinating neuronal growth, survival signaling, and morphogenetic remodeling.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021762","count":5},{"id":"GO:0031532","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0001569","count":5},{"id":"GO:0006897","count":4}]},{"hash":"988387493559065668","title":"cGMP-Mediated Olfactory Signaling","description":"The highest-frequency GO terms cluster around cGMP signaling and smell perception (negative regulation of receptor guanylyl cyclase signaling, cellular response to cGMP, and sensory perception of smell), suggesting a shared role in cGMP-dependent olfactory signaling. Other terms like vesicle transport and cell division appear less tightly connected to this core theme, possibly reflecting broader cellular functions or annotation noise.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010754","count":9},{"id":"GO:0071321","count":9},{"id":"GO:0007608","count":9},{"id":"GO:0051260","count":8},{"id":"GO:0001824","count":7}]},{"hash":"2221160514644774535","title":"Ribosome Biogenesis and Translation Initiation","description":"This cluster centers on ribosome production and the early steps of translation. GO terms include ribosome biogenesis, maturation of SSU rRNA, and formation of the translation preinitiation complex, with supporting RNA processing (mRNA splicing) and related cell-cycle context. Together, these point to a cohesive group involved in assembling functional ribosomes and initiating translation.","confidence":"High","size":23,"edges":24,"triangles":4,"max_degree":16,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0035948","count":4},{"id":"GO:0042254","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0001731","count":4}]},{"hash":"673683643691300723","title":"Transcriptional Regulation and Tissue Morphogenesis","description":"The top GO terms show strong enrichment for transcriptional regulation by RNA polymerase II (positive and negative) together with morphogenesis and tissue remodeling terms (pancreas morphogenesis, trophoblast giant cell differentiation, endothelial barrier establishment, tissue remodeling). This suggests the cluster groups proteins involved in regulating gene expression that drive developmental and structural tissue changes across multiple tissues rather than a single pathway.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":8},{"id":"GO:1903142","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0060707","count":6},{"id":"GO:0097186","count":6}]},{"hash":"1082120222752103449","title":"RNA processing and translation","description":"This cluster is dominated by translation-related terms (translation, cytoplasmic translation, regulation of translational initiation) along with RNA processing activities (mRNA splicing via spliceosome, maturation of SSU-rRNA), suggesting a cohesive group of proteins involved in RNA metabolism and protein synthesis. A few chromatin modification terms are present but appear incidental to the main RNA/translation theme.","confidence":"Medium","size":23,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:2000270","count":2},{"id":"GO:0043486","count":2},{"id":"GO:0016569","count":2},{"id":"GO:0000398","count":2}]},{"hash":"1987632927020956546","title":"Rho GTPase\u2013Mediated Actin Remodeling","description":"Most top GO terms are centered on Rho signaling and actin cytoskeleton dynamics, including regulation/activation of Rho GTPases, actin cytoskeleton organization, and protrusion formation (lamellipodium/filopodium). This suggests a cluster of proteins involved in remodeling the actin cytoskeleton under Rho signaling, with some developmental morphogenesis terms reflecting cytoskeletal roles in tissue shaping.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":16},{"id":"GO:0061000","count":15},{"id":"GO:0007507","count":15},{"id":"GO:0090630","count":14},{"id":"GO:0030036","count":14}]},{"hash":"916118201935358982","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms tied to protein synthesis: cytoplasmic translation, translation, ribosome biogenesis, and ribosomal subunit assembly, plus maintenance of translational fidelity. While a couple terms touch on neuromuscular or cardiac processes, the overarching signal is ribosome function and ribosome assembly, suggesting these proteins collectively participate in the protein synthesis machinery.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0050884","count":3},{"id":"GO:1990145","count":3},{"id":"GO:0032790","count":3},{"id":"GO:0003281","count":2}]},{"hash":"414250723534226857","title":"Mitochondrial dynamics and metabolism","description":"The top GO terms point to mitochondrial processes: morphogenesis, inheritance, DNA replication, and stress-induced fusion, along with medium-chain fatty-acyl-CoA metabolic processes. These collectively indicate a focus on mitochondrial structural remodeling and energy metabolism. A few adhesion/membrane-related terms likely reflect broader membrane organization rather than a primary function of the cluster. Overall, the dominant theme is mitochondria and their dynamic metabolism.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070584","count":3},{"id":"GO:2000049","count":2},{"id":"GO:1903044","count":2},{"id":"GO:0090297","count":2},{"id":"GO:0000001","count":2}]},{"hash":"272971588337246485","title":"Neuropeptide signaling and energy balance","description":"The top terms cluster around neuropeptide signaling, appetite and eating behavior, and diet-induced thermogenesis, suggesting a coherent role in energy intake and expenditure. GPCR signaling and links to metabolic pathways (electron transport) support energy homeostasis and thermogenic regulation.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0007218","count":7},{"id":"GO:0022900","count":6}]},{"hash":"1778315416729255245","title":"Ubiquitin-Driven Circadian and Immune Regulation","description":"The top terms strongly point to ubiquitin-dependent protein degradation (including K48-linked ubiquitination) and circadian rhythm regulation, with notable representation of antiviral/innate immune responses. This suggests a module where proteostasis controls circadian timing and immune defense, with some shared cell-cycle/structural functions reflected by other GO terms. Confidence is medium due to some outlier terms (sarcomere organization, spindle midzone localization) that may reflect broader, multifunctional proteins rather than a single cohesive theme.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0042752","count":10},{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0045214","count":7}]},{"hash":"1232137865365861863","title":"Dopaminergic Neural Signaling and Pain/Temperature Response","description":"The cluster is enriched for GO terms tied to neural signaling and plasticity, including dopaminergic synaptic transmission, sensory perception of pain, visual learning, and behavioral response to cocaine, along with regulation of membrane potential and ERK signaling. These together point to a coherent theme of neural communication and learning. Some terms (macrophage chemotaxis, heart development) may reflect broader pleiotropy of certain signaling proteins but do not override the dominant neural theme.","confidence":"High","size":23,"edges":32,"triangles":1,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":19},{"id":"GO:0071502","count":17},{"id":"GO:0002024","count":17},{"id":"GO:0048148","count":15},{"id":"GO:0010759","count":15}]},{"hash":"579194166220500368","title":"Neural development and neurotransmitter signaling","description":"The top GO terms cluster around neural development (adenohypophysis and thalamus development, perineurial glial growth) and neurotransmission (serotonin secretion/uptake, glycine secretion and glycinergic transmission), plus dopamine catabolic processes and amino acid transport. This points to a cohesive role in brain development and neuromodulatory signaling across multiple neurotransmitter systems.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0021984","count":9},{"id":"GO:0014064","count":9},{"id":"GO:0051610","count":9},{"id":"GO:1905847","count":9},{"id":"GO:0021794","count":9}]},{"hash":"450307943424240155","title":"Growth factor signaling and angiogenesis regulation","description":"The set is dominated by GO terms for insulin-like growth factor receptor signaling, growth hormone receptor signaling, BMP secretion, and regulation of vascular permeability and sprouting angiogenesis, with some inflammatory (TNF production) signaling. This suggests a coherent theme of growth factor\u2013driven signaling pathways that modulate vascular development and permeability, despite a few outlier terms. ","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":4},{"id":"GO:0090334","count":4},{"id":"GO:1900144","count":4},{"id":"GO:0043114","count":4},{"id":"GO:0008272","count":4}]},{"hash":"459518932537132414","title":"Actin remodeling and cell migration","description":"Most prominent GO terms are about actin cytoskeleton organization, lamellipodium and filopodium assembly, and cell migration, pointing to a cohesive theme of actin-driven motility. There are also immune signaling terms and Ras regulation, which may reflect context-specific signaling in migratory cells, but the core signal centers on cytoskeleton remodeling and movement.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060368","count":3},{"id":"GO:0043984","count":3},{"id":"GO:2000675","count":2},{"id":"GO:0030032","count":2},{"id":"GO:0046847","count":2}]},{"hash":"1325418735150125682","title":"Ubiquitin-mediated immune signaling","description":"The proteins are enriched for ubiquitin-related processes (ubiquitin-dependent protein catabolic process; protein ubiquitination; regulation of ubiquitination) and immune pathways (defense response to virus; innate immune response; B cell receptor signaling), suggesting a cohesive role in ubiquitin-regulated immune signaling, with a few peripheral terms like vitamin D response and SA node regulation as less central associations.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":6},{"id":"GO:0098907","count":5},{"id":"GO:0033280","count":5},{"id":"GO:0050853","count":5},{"id":"GO:0051607","count":4}]},{"hash":"2099113092169503526","title":"Axon fasciculation and neural development","description":"The terms cluster around axon guidance, fasciculation, corticospinal tract morphogenesis, and broader nervous system development, suggesting these proteins participate in axon pathfinding and synapse formation during neural development; proteolysis appears less central to the core theme.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006508","count":5},{"id":"GO:0051965","count":5},{"id":"GO:0097156","count":4},{"id":"GO:0048671","count":4},{"id":"GO:0051497","count":4}]},{"hash":"1312154488599342788","title":"Nuclear transcriptional regulation and DNA methylation","description":"This cluster centers on nuclear DNA processes, with terms for DNA-templated transcription, regulation of transcription initiation, and DNA methylation, suggesting a cohesive role in transcription control and epigenetic regulation during development.","confidence":"High","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051457","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0010529","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0044026","count":2}]},{"hash":"373875506196201474","title":"Membrane Transport and Glycosylation","description":"The GO terms cluster around transport of amino acids and sugars across membranes (L-cystine transport, D-glucose transmembrane transport, intracellular amino acid homeostasis), vesicle trafficking (transcytosis), and dolichol-linked oligosaccharide biosynthesis (N-glycosylation), suggesting a core theme of membrane transport and glycosylation with some tissue-specific neural-eye terms (myelination, lens development) likely reflecting context rather than core function.","confidence":"Medium","size":23,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":2},{"id":"GO:0034488","count":2},{"id":"GO:0015811","count":2},{"id":"GO:0080144","count":2},{"id":"GO:0006488","count":2}]},{"hash":"938213930612128542","title":"Neuronal development and synaptic remodeling","description":"The terms cluster around brain development, synapse structural plasticity, and signaling pathways (Wnt, ERK, Rac) that govern cytoskeletal dynamics, neurite outgrowth, and membrane trafficking in neurons, suggesting a module focused on neural development and activity-dependent synaptic remodeling.","confidence":"Medium","size":22,"edges":6,"triangles":0,"max_degree":3,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0043552","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0097178","count":5},{"id":"GO:0051835","count":5},{"id":"GO:0090263","count":5}]},{"hash":"1590497912217425388","title":"Inflammation and barrier signaling cluster","description":"The terms largely point to host defense and inflammatory signaling (defense response to virus; negative regulation of TNF production; cellular response to prostaglandin E) and barrier-related functions (blood coagulation, mucus secretion), with supporting roles in signaling and vesicle trafficking (GTPase activity regulation, synaptic vesicle transport). Some terms are less clearly connected (mitosis, enteric nervous system development), but the dominant theme is inflammation and barrier function.","confidence":"Medium","size":22,"edges":76,"triangles":66,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0051607","count":3},{"id":"GO:0048484","count":3},{"id":"GO:0048490","count":3}]},{"hash":"421735910447496335","title":"mRNA Splicing and Translation Regulation","description":"These proteins are enriched for both spliceosome-mediated mRNA processing (positive/negative regulation of splicing) and various aspects of translation initiation and reinitiation, including IRES-dependent viral translation and translation preinitiation complex formation. The presence of stress-related mRNA stability regulation further supports a cohesive theme of post-transcriptional gene expression control at both RNA processing and translation levels, suggesting a coordinated module governing RNA fate from splicing through translation.","confidence":"High","size":22,"edges":21,"triangles":6,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":14},{"id":"GO:0031047","count":13},{"id":"GO:0001731","count":11},{"id":"GO:0075525","count":10},{"id":"GO:0075522","count":10}]},{"hash":"1328343872525460365","title":"Developmental Signaling and Adhesion","description":"The top GO terms point to coordinated signaling in epidermal/hair follicle development (hair placode formation, epithelial adhesion) and neural differentiation (axon extension, forebrain radial glial differentiation), with supporting pathways in JNK, Rap, NF-kB, and vesicle trafficking. This combination suggests a cohesive theme of development-related signaling coupled with cell adhesion, hence the label.","confidence":"High","size":22,"edges":15,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090136","count":22},{"id":"GO:0060789","count":22},{"id":"GO:0046330","count":22},{"id":"GO:0045773","count":22},{"id":"GO:0071985","count":22}]},{"hash":"1006751759869975133","title":"Developmental Signaling and Morphogenesis","description":"The cluster shows enrichment of GO terms tied to development and morphogenesis across multiple tissues: muscle (myoblast fusion), kidney and nervous system development, neuronal guidance (Roundabout pathway and dendrite self-avoidance), Hedgehog and Rho signaling, and cell adhesion (hemidesmosome). The convergence on diverse developmental signaling pathways and structural organization suggests a cluster of proteins involved in guiding cell differentiation and tissue shaping during development.","confidence":"High","size":22,"edges":175,"triangles":722,"max_degree":21,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007520","count":15},{"id":"GO:0035023","count":15},{"id":"GO:0035385","count":12},{"id":"GO:0001822","count":12},{"id":"GO:0007399","count":12}]},{"hash":"480197406866093417","title":"Epithelial proliferation and morphogenesis signaling","description":"The cluster is enriched for terms tied to epithelial growth and tissue morphogenesis \u2014 mammary gland and lung epithelium proliferation, VEGF-driven signaling, and downstream PI3K/AKT and JNK pathways. Transcytosis fits the epithelial/endothelial transport context. While neural development terms appear, the dominant pattern points to epithelial proliferation and morphogenesis via key signaling cascades.","confidence":"High","size":22,"edges":230,"triangles":1520,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":22},{"id":"GO:0090188","count":22},{"id":"GO:0035924","count":22},{"id":"GO:0046330","count":22},{"id":"GO:0045056","count":22}]},{"hash":"2001592340143737171","title":"Epithelial morphogenesis and VEGF signaling","description":"GO terms point to epithelial cell proliferation and morphogenesis (lung and mammary gland), coupled with VEGF response and PI3K/AKT/JNK signaling, and transcytosis. This combination suggests a cohesive theme of epithelial tissue development and associated growth factor signaling.","confidence":"High","size":22,"edges":184,"triangles":829,"max_degree":21,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":22},{"id":"GO:0090188","count":22},{"id":"GO:0035924","count":22},{"id":"GO:0046330","count":22},{"id":"GO:0045056","count":22}]},{"hash":"1201574081272856595","title":"Neural development and synaptic signaling","description":"This cluster is strongly enriched for brain development and synapse assembly, pointing to proteins involved in neural development and the formation of synaptic connections. While there are additional signaling-related terms (PI signaling, Ras regulation, B cell signaling) and membrane repair, the dominant themes center on neuronal development and synaptic function.","confidence":"Medium","size":22,"edges":162,"triangles":566,"max_degree":19,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0032024","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0007416","count":6},{"id":"GO:0001778","count":6},{"id":"GO:0046580","count":6}]},{"hash":"24734000119111531","title":"Retina phototransduction and dopaminergic signaling","description":"Most of the top GO terms point to retina development and phototransduction (visible light), with receptor-mediated signaling pathways (dopamine and adrenergic) and downstream PLC/PI biosynthesis activity. This pattern suggests a cohesive module centered on eye/retina signaling and development, with GTPase regulation aligning with signaling control. While there are mentions of heart development and cell proliferation, the dominant theme is retinal signaling and phototransduction.","confidence":"High","size":22,"edges":156,"triangles":527,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":22},{"id":"GO:0008283","count":20},{"id":"GO:0008284","count":20},{"id":"GO:0060041","count":20},{"id":"GO:0010513","count":19}]},{"hash":"1618868178173066675","title":"Ribosome biogenesis and translation","description":"The cluster shows strong enrichment for translation and ribosome biogenesis (GO:0006412, GO:0042254) with SSU-rRNA maturation (GO:0000462) and snoRNP/snoRNP assembly (GO:0000492), indicating a ribosome production and protein synthesis focus. Transcription-related terms appear secondary, supporting a primary ribosome/translation theme. Overall, the proteins likely participate in ribosome assembly and related translation machinery.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0035264","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0043981","count":2}]},{"hash":"298092359247571231","title":"Golgi vesicle trafficking and ER stress response","description":"The proteins in this cluster are dominated by GO terms describing Golgi-mediated vesicle transport (retrograde transport from Golgi to ER, Golgi-to-plasma membrane transport, and Golgi vesicle budding) and Golgi organization (asymmetric Golgi ribbon formation), plus a term for the endoplasmic reticulum unfolded protein response. This combination points to a coherent functional theme centered on Golgi-ER trafficking and ER stress response, with a few peripheral terms that may reflect broader trafficking roles to the plasma membrane. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":5},{"id":"GO:0043001","count":4},{"id":"GO:0060304","count":4},{"id":"GO:0048194","count":4},{"id":"GO:0010467","count":4}]},{"hash":"642518712971430202","title":"Cell Polarity and Vesicle Trafficking","description":"The top GO terms cluster around cellular organization and trafficking: establishment/maintenance of cell polarity, cytoskeleton remodeling, and Golgi-to-plasma membrane transport with regulated vesicle exocytosis. Additional pathways (mitotic spindle assembly, kidney development, and certain signaling pathways) point to broader roles in cell shape, movement, and communication. The common theme is proteins coordinating polarity, cytoskeletal dynamics, and vesicle trafficking, suggesting a cohesive functional group rather than unrelated processes.","confidence":"Medium","size":22,"edges":22,"triangles":1,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090307","count":8},{"id":"GO:0001822","count":8},{"id":"GO:0071963","count":7},{"id":"GO:0090324","count":7},{"id":"GO:0031532","count":7}]},{"hash":"62372276167959444","title":"Unknown","description":"The top GO terms span telomere maintenance, spindle assembly, and chromosome cohesion (nuclear/cell cycle processes) as well as neural synapse regulation and ephrin signaling, plus ADP-ribosylation and cold response, with no clear single biological theme connecting them. Zero edges/triangles further suggest a heterogeneous set, so there isn\u2019t a coherent function to name beyond Unknown.","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904355","count":3},{"id":"GO:1904908","count":3},{"id":"GO:1900383","count":3},{"id":"GO:1901187","count":3},{"id":"GO:1904743","count":3}]},{"hash":"2025647255867111799","title":"Neural and cardiac development signaling","description":"The top GO terms cluster around nervous system development (axonogenesis, Schwann cell development, visual perception) and heart development, with related muscle activity and general developmental processes (cell cycle, apoptosis). This suggests a group of proteins involved in coordinated development of neural and cardiac/muscular tissues. The abscisic acid-activated pathway is plant-specific and likely annotation noise, while the presence of mitotic and apoptotic terms fits developmental regulation overall. ","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":12},{"id":"GO:0007601","count":12},{"id":"GO:0007507","count":11},{"id":"GO:0014044","count":11},{"id":"GO:0014850","count":10}]},{"hash":"1404471420621543915","title":"Early neural patterning and inner ear morphogenesis","description":"Top GO terms point to neural development (brain segmentation; motor neuron axon guidance; peripheral nervous system neuron development) and inner ear morphogenesis, with early patterning processes like rhombomere development and primitive streak formation. This suggests a cohesive set of genes regulating neural specification and sensory organ morphogenesis during early development, rather than a single functional category.","confidence":"Medium","size":22,"edges":36,"triangles":4,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0006366","count":9},{"id":"GO:0035284","count":8},{"id":"GO:0008045","count":7},{"id":"GO:0048839","count":7}]},{"hash":"1386863914884148427","title":"Neuronal vesicle trafficking and insulin-regulated metabolism","description":"Top GO terms show neuronal vesicle trafficking (synaptic vesicle budding; Golgi-to-ER transport) and metabolic signaling (insulin/IGF pathways; glycogen and fatty acid metabolism), plus Rac-mediated signaling and locomotory behavior. This suggests a cohesive theme of neural vesicle dynamics coupled with insulin-regulated metabolism.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0016185","count":3},{"id":"GO:1901998","count":3},{"id":"GO:0008344","count":3},{"id":"GO:0006890","count":3},{"id":"GO:0010748","count":3}]},{"hash":"1094152542919672136","title":"Cardiac signaling and heart development","description":"The cluster centers on cardiac signaling; there is strong representation of GO terms tied to heart function and development, including regulation of cardiac muscle contraction, heart development, calcium ion release into the cytosol, and GPCR/cAMP pathways (adenylate cyclase activation and cAMP signaling). Protein phosphorylation and GTPase regulation further support dynamic signaling control, and regulation of opsin-mediated signaling suggests broader GPCR signaling involvement. Together, these terms point to a cardiac excitation-contraction signaling module.","confidence":"High","size":22,"edges":217,"triangles":1287,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008284","count":20},{"id":"GO:0006468","count":19},{"id":"GO:0051281","count":19},{"id":"GO:0055117","count":19},{"id":"GO:0007190","count":19}]},{"hash":"848239868757736713","title":"Sugar catabolic pathways (pentose/hexose sugars)","description":"The top GO terms cluster around the catabolism of a variety of sugars (D-xylose, rhamnose, L-fucose, L-arabinose, xylulose, D-gluconate, glucuronate) and related carbohydrate metabolism steps like phosphorylation and glycerol-3-phosphate biosynthesis, indicating a cohesive theme of carbohydrate breakdown. An outlying term related to IL-13 response is likely incidental. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042732","count":7},{"id":"GO:0019301","count":7},{"id":"GO:0042355","count":7},{"id":"GO:0005998","count":7},{"id":"GO:0019569","count":7}]},{"hash":"318454601828392999","title":"Dendritic spine morphogenesis and synaptic plasticity","description":"The cluster is dominated by GO terms related to neuronal synapse formation, localization, clustering, and structural plasticity (dendritic spine morphogenesis, synapse localization, receptor clustering, long-term synaptic depression, and regulation of synapse plasticity), with Rho signaling tying to cytoskeletal changes underlying spine remodeling. A term about social behavior also aligns with neural circuit function. One term about obsolete cardiac channel regulation is likely noise, but the overall theme centers on synapse development and plasticity.","confidence":"High","size":22,"edges":12,"triangles":2,"max_degree":7,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0060997","count":17},{"id":"GO:0007266","count":16},{"id":"GO:0035418","count":16},{"id":"GO:0043113","count":16},{"id":"GO:0008285","count":16}]},{"hash":"1103701130066679070","title":"Keratinocyte differentiation and ECM organization","description":"This cluster is driven by keratinocyte differentiation and collagen fibril organization, with Notch processing and TNF response supporting epidermal signaling and differentiation. Together, they point to a skin/epidermal differentiation and extracellular matrix remodeling theme.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0030216","count":8},{"id":"GO:0071372","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0000186","count":6},{"id":"GO:0034612","count":6}]},{"hash":"1015264575443020442","title":"Bacterial cell wall and LPS biosynthesis","description":"The cluster shows strong enrichment for lipopolysaccharide and O-antigen biosynthetic processes and cell wall organization, complemented by multiple carbohydrate metabolism terms (galactose, glucose-1-phosphate, UDP-GlcNAc, glycogen). This points to a cohesive function in envelope construction and related carbohydrate biosynthesis, despite one outlier term (detection of gravity) that may be noise.","confidence":"High","size":22,"edges":2,"triangles":0,"max_degree":2,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0019388","count":5},{"id":"GO:0046115","count":5},{"id":"GO:0009590","count":5},{"id":"GO:0006148","count":5},{"id":"GO:0009243","count":5}]},{"hash":"959309917732149535","title":"Unknown","description":"The proteins show a broad mix of GO terms, spanning development (midbrain, inner ear), hematology/immune (blood coagulation, complement activation, defense against Gram-positive bacteria), digestion, and transcription regulation, with no clear unifying function. The empty network (no edges) suggests there is no cohesive biological theme tying the cluster together. ","confidence":"","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0030901","count":8},{"id":"GO:0007596","count":7},{"id":"GO:0007586","count":6},{"id":"GO:0006958","count":6}]},{"hash":"2147563007032673327","title":"Dopaminergic Signaling and Drug-Response","description":"The cluster is dominated by terms tied to dopaminergic synaptic transmission and behavioral responses to drugs of abuse (cocaine, morphine), alongside related neural processes like pain perception and ERK signaling. This suggests a core theme of dopamine-driven reward pathways and neurochemical signaling underpinning drug-induced behaviors, with some broader terms (learning, saliva, heart) likely reflecting pleiotropy.","confidence":"High","size":22,"edges":208,"triangles":1130,"max_degree":21,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048148","count":14},{"id":"GO:0010759","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0043278","count":14},{"id":"GO:0019233","count":14}]},{"hash":"2030506331496311776","title":"Hormone biosynthesis and reproductive development","description":"This cluster centers on hormone-related metabolism (calcitriol, retinoic acid, brassinosteroid) and development of reproductive tissues (mammary gland, uterus), with supporting lipid metabolism (triglycerides). The mix suggests a common theme of hormone production/signaling linked to development, despite some secondary metabolism terms present. ","confidence":"Medium","size":22,"edges":10,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0030879","count":15},{"id":"GO:0046226","count":15},{"id":"GO:0036378","count":15},{"id":"GO:0070989","count":15},{"id":"GO:0033068","count":15}]},{"hash":"234781828271095179","title":"Enteric neuro-sensory signaling and thermogenesis","description":"The top GO terms largely center on the enteric nervous system (development, peristalsis, sensory perception) and temperature/thermogenic responses (cellular response to temperature, diet-induced thermogenesis), with related signaling pathways (serotonin receptor signaling, GPCR signaling, ERK cascade). This suggests a coherent theme of gut neural signaling coupled with temperature/energy regulation, justifying a label focused on enteric neuro-sensory functions and thermogenesis. The lack of network edges likely reflects dataset sampling rather than true functional disconnection.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":6},{"id":"GO:0019233","count":6},{"id":"GO:0002024","count":6},{"id":"GO:0070374","count":5},{"id":"GO:0030432","count":5}]},{"hash":"2099457713748315835","title":"Intracellular Signaling and Transport Regulation","description":"This cluster is enriched for terms governing regulation of Rho and Ras signaling, phosphatidylinositol-mediated signaling, and intracellular protein transport, plus cell cycle and various negative regulatory processes. The common thread appears to be modulation of signal transduction pathways and vesicle trafficking within the cell, including inhibition of certain signaling outputs and remodeling processes, which together point to coordinated control of signaling-driven transport and cytoskeletal dynamics.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0035023","count":6},{"id":"GO:0048015","count":6},{"id":"GO:0006886","count":6},{"id":"GO:0000278","count":5},{"id":"GO:0043552","count":5}]},{"hash":"1917991201440972799","title":"RNA splicing and translation regulation","description":"This cluster shows strong enrichment for regulatory RNA activities, including ncRNA-mediated gene silencing and control of mRNA splicing (including alternative splicing) and mRNA stability under stress. It also groups translation-related functions such as translation initiation/termination, reinitiation, and preinitiation complex formation, with some viral translation terms, suggesting a cohesive role in coordinating gene expression at both RNA processing and translational levels, including stress and viral contexts.","confidence":"Medium","size":22,"edges":176,"triangles":838,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":16},{"id":"GO:0048026","count":16},{"id":"GO:0010610","count":16},{"id":"GO:0000381","count":16},{"id":"GO:0075525","count":15}]},{"hash":"1340374445835811666","title":"Cell adhesion and neural development","description":"The top GO terms cluster around cell-cell adhesion (heterophilic/homophilic) and regulation of synapse assembly, plus nervous system development and actin cytoskeleton organization linked to adhesion. This points to a group of adhesion molecules coordinating neural development and synaptic connectivity, with some related contexts in cardiac conduction and immune modulation. Overall, adhesion-mediated signaling appears to be the unifying theme of this cluster.","confidence":"Medium","size":22,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":15},{"id":"GO:0007156","count":14},{"id":"GO:0046718","count":13},{"id":"GO:0043931","count":12},{"id":"GO:0007399","count":12}]},{"hash":"2047687997422641650","title":"Basement membrane and ECM remodeling","description":"The top GO terms cluster around extracellular matrix components and basement membrane processes: cell adhesion, glomerular basement membrane development, collagen catabolic process, lens fiber cell differentiation, inner ear development, and synapse assembly. This pattern points to ECM organization, basement membrane formation, and tissue-specific ECM remodeling as the core function of the proteins. While there are also terms for complement and coagulation, they appear supportive rather than defining for this group. ","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007155","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0051965","count":4},{"id":"GO:0032836","count":4}]},{"hash":"1278773056633570908","title":"Ubiquitin-Dependent Degradation and NF-\u03baB Signaling","description":"The cluster is dominated by GO terms related to ubiquitination and proteasomal degradation, including ubiquitin-dependent protein catabolic process, various ubiquitin linkage types (K6, K63, linear), and autoubiquitination, alongside regulation of NF-\u03baB/TNF signaling and related pathways. This cohesion suggests a functional group focused on ubiquitin-mediated protein turnover and signaling rather than a different unrelated process.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":15},{"id":"GO:0051865","count":10},{"id":"GO:0036205","count":10},{"id":"GO:1903265","count":10},{"id":"GO:0085020","count":10}]},{"hash":"425014931417600153","title":"Hormone biosynthesis and reproductive development","description":"The top GO terms cluster around biosynthesis of signaling molecules (prostaglandin biosynthesis; calcitriol and retinoic acid biosynthesis; brassinosteroid homeostasis) and developmental processes in reproductive tissues (mammary gland and uterus development), suggesting a cohesive theme of hormone/metabolite production influencing reproductive biology. Some terms reflect broader metabolic pathways, but the common thread points to hormone-related biosynthesis linked to development.","confidence":"Medium","size":22,"edges":70,"triangles":108,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0001516","count":22},{"id":"GO:0030879","count":20},{"id":"GO:0046226","count":20},{"id":"GO:0036378","count":20},{"id":"GO:0070989","count":20}]},{"hash":"962268866536537304","title":"Neurovascular signaling and blood pressure regulation","description":"This cluster\u2019s top GO terms center on neural signaling (serotonin receptor pathways, dopamine uptake, GPCR signaling) and vascular regulation (smooth muscle contraction, renin-angiotensin\u2013mediated blood pressure control). The co-occurrence of synaptic transmission and vascular tone terms suggests proteins participating in neurovascular communication. Some terms are archaic or immune-related, but the core theme appears coherent.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008542","count":6},{"id":"GO:0033861","count":6},{"id":"GO:0040015","count":6},{"id":"GO:0090026","count":5},{"id":"GO:0002032","count":5}]},{"hash":"938724605627905721","title":"Neural adhesion and synapse formation","description":"The top GO terms cluster around neural development and connectivity, including heterophilic cell-cell adhesion, axonal fasciculation, dendrite self-avoidance, and positive regulation of synapse assembly, which together point to neural development and synaptic organization. While some terms reference bone and organ development, the strongest, most frequent signals are in neural adhesion and synapse formation, supporting a neural connectivity theme for this cluster.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0014068","count":14},{"id":"GO:0043931","count":14},{"id":"GO:0007157","count":14},{"id":"GO:0007413","count":14},{"id":"GO:0032474","count":13}]},{"hash":"1485832306474400972","title":"Ubiquitin-Mediated Immune Response","description":"The top GO terms indicate ubiquitin-dependent proteolysis and ubiquitination, innate antiviral defense, and regulation of NF-kB/JNK signaling, plus B cell receptor signaling. Together these suggest a cohesive role for ubiquitin-related modulation of immune signaling and antiviral responses, hence this label.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042787","count":11},{"id":"GO:0051607","count":7},{"id":"GO:0045087","count":7},{"id":"GO:0016567","count":6},{"id":"GO:0050853","count":6}]},{"hash":"220835087022396951","title":"Neuronal actin remodeling and dendrite development","description":"This cluster is dominated by actin cytoskeleton-related processes (actin crosslinking, filament polymerization, filopodium/ruffle assembly) and Rac signaling, along with dendrite development and synaptic plasticity regulation. These together point to a coherent function: coordinating actin dynamics to shape neuronal morphology and synaptic function.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":4},{"id":"GO:0097178","count":4},{"id":"GO:0030838","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0016601","count":4}]},{"hash":"2062334406199670011","title":"B and T Cell Activation","description":"The cluster is dominated by GO terms related to adaptive immunity, including B cell receptor signaling, immunoglobulin production, and adaptive immune response, as well as T cell costimulation and phagocytic activity, indicating coordinated activation of B and T cell\u2013mediated immunity. Some peripheral terms (e.g., cardiac action potential) appear unrelated, but the core signal is clear: adaptive immune activation and antibody-related functions.","confidence":"High","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0086014","count":4},{"id":"GO:0002377","count":4},{"id":"GO:2001181","count":4},{"id":"GO:0051092","count":4}]},{"hash":"1835449500720987671","title":"Innate Immune Signaling and Antiviral Defense","description":"The cluster is dominated by GO terms related to defense against viruses and innate immune response, plus cell surface receptor tyrosine kinase signaling, indicating a core theme of innate immune signaling. The presence of axonogenesis and ciliogenesis-related terms suggests additional developmental or cellular localization roles, but the strongest signal centers on antiviral defense and immune signaling pathways.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0051607","count":5},{"id":"GO:0007169","count":5},{"id":"GO:0045087","count":5},{"id":"GO:0007409","count":5},{"id":"GO:0043087","count":4}]},{"hash":"2109360915858862786","title":"B cell signaling and cytoskeletal dynamics","description":"The top GO terms show strong signals for B cell receptor signaling and follicular B cell differentiation, plus lamellipodium assembly and phosphoinositide signaling, which point to immune signaling coupled with actin-driven cytoskeletal remodeling. There are also terms about neutrophil degranulation, apoptosis, and vascular remodeling, but the clustering appears to be driven most by immune signal transduction linked to cytoskeletal changes, hence this label.","confidence":"Medium","size":22,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030032","count":4},{"id":"GO:0048015","count":3},{"id":"GO:0050861","count":3},{"id":"GO:0043314","count":3},{"id":"GO:0009395","count":3}]},{"hash":"2224409585975022567","title":"Potassium Channel Regulation and Transport","description":"The proteins in this cluster predominantly link to potassium ion transport across the plasma membrane and regulation of potassium channel activity (including inward rectifier and delayed rectifier channels), with a connecting hint toward cardiac function (heart contraction). A few terms appear as less related noise ( xenobiotic response, proteasomal catabolic regulation), but the strongest signal is potassium homeostasis and channel regulation, justifying this label.","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0060047","count":3},{"id":"GO:1901979","count":2},{"id":"GO:0090315","count":2},{"id":"GO:0071435","count":2},{"id":"GO:1903765","count":2}]},{"hash":"1894088030015667693","title":"Ribosome function and tRNA aminoacylation","description":"The top GO terms cluster around translation and the charging of tRNA: translation itself, regulation of translational fidelity, and multiple aminoacyl-tRNA synthetases (met, ile, leu, val), plus ribosome biogenesis. This suggests a core of translation machinery and tRNA charging. Some unrelated terms (menaquinone biosynthesis, respiration, cadmium response) are present but do not dominate the theme, so the overall signal points to translation-related function. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0006450","count":3},{"id":"GO:0006431","count":3},{"id":"GO:0009234","count":2},{"id":"GO:0006428","count":2}]},{"hash":"1072652292114038491","title":"Ribosome Biogenesis and Translation","description":"The dominant GO terms are translation and ribosome assembly/biogenesis, including preribosome large subunit assembly and ribosome biogenesis regulation, indicating a cluster of proteins involved in making and regulating ribosomes and protein synthesis. A minor mitochondrial electron transport term appears, likely reflecting cellular energy context rather than a core function, with a few transcription-related signals being weaker; overall the theme centers on ribosome production and function.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0006120","count":2},{"id":"GO:0017148","count":2},{"id":"GO:0000027","count":2},{"id":"GO:0090070","count":1}]},{"hash":"1519072601832526100","title":"Epithelial Junctions and Polarity","description":"Zonula adherens assembly, barrier formation, and basolateral membrane localization are prominent themes, pointing to proteins coordinating epithelial cell junctions and polarity. Additional terms related to centrosome-associated localization and tissue morphogenesis (e.g., cochlea) support a broader cell-polarity and developmental context, with some signaling terms likely reflecting shared pathways. Overall, the cluster seems to represent components of epithelial junctions and polarity maintenance.","confidence":"High","size":21,"edges":178,"triangles":837,"max_degree":20,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050821","count":10},{"id":"GO:0090557","count":9},{"id":"GO:0043004","count":8},{"id":"GO:0098924","count":8},{"id":"GO:0045186","count":8}]},{"hash":"1568307427388102591","title":"Heart development and mitochondrial energy metabolism","description":"The top GO terms center on cardiac muscle tissue development and heart morphogenesis, alongside mitochondrial electron transport and ATP synthesis, suggesting a module focused on energy-demanding heart tissue formation. While translation-related terms and signaling terms (cAMP response, insulin secretion) appear, the core theme ties heart development to mitochondrial energy production, with ancillary protein synthesis and signaling context.","confidence":"Medium","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0002184","count":2},{"id":"GO:0006123","count":1},{"id":"GO:0042775","count":1},{"id":"GO:0061179","count":1}]},{"hash":"1504189811510479525","title":"Transcription\u2013Replication\u2013Repair Network","description":"This cluster combines GO terms for transcription initiation/termination (RNA Pol II and Pol I), DNA replication and cell cycle, DNA topological changes, and nucleotide-excision repair (including transcription-coupled NER). Together they point to nuclear proteins coordinating transcription with DNA replication and genome maintenance. The single edge/low connectivity suggests diverse components within this broad genome-processing theme rather than a single tight complex.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006367","count":4},{"id":"GO:0006260","count":4},{"id":"GO:0007049","count":4},{"id":"GO:0042790","count":3},{"id":"GO:0006283","count":3}]},{"hash":"1442703473555980358","title":"Neural synapse development and mitochondrial regulation","description":"This cluster centers on neural-related processes: synapse assembly, neuron\u2013neuron transmission, and fear-related behavior, suggesting nervous system function. It also includes mitochondrial-associated terms (protein import into mitochondrial matrix, calcium import into mitochondrion, autophagy regulation, ROS regulation), indicating coordinated mitochondrial activity in neurons. The combination points to a theme of neural development and synaptic function with mitochondrial regulation.","confidence":"Medium","size":21,"edges":20,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":3},{"id":"GO:0048593","count":3},{"id":"GO:0030150","count":3},{"id":"GO:0030855","count":3},{"id":"GO:0001662","count":3}]},{"hash":"2206947743568993322","title":"Wnt signaling in embryonic morphogenesis","description":"The cluster is enriched for GO terms centered on canonical Wnt signaling and its negative regulation, plus multiple embryonic development processes (cranial ganglion development, hair placode formation, fungiform papilla formation, embryonic body morphogenesis) and related epithelial/proliferation events. This pattern suggests proteins that coordinate Wnt-driven developmental morphogenesis and epithelial dynamics. Hence a label focusing on Wnt signaling in embryonic morphogenesis is appropriate and representative.","confidence":"High","size":21,"edges":210,"triangles":1330,"max_degree":20,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0007050","count":15},{"id":"GO:0060789","count":13},{"id":"GO:0090090","count":13},{"id":"GO:0044336","count":13},{"id":"GO:0061550","count":13}]},{"hash":"1088364825433934978","title":"Actin Cytoskeleton Remodeling and Filopodium Formation","description":"The cluster is dominated by terms linked to actin dynamics: stress fiber assembly, filopodium assembly and its regulation, and cell spreading, all governed by small GTPase signaling. Positive regulation of ERK cascades and protein ubiquitination suggest coordinated signaling and protein turnover to modulate cytoskeletal remodeling and adhesion. The sensory perception of touch term points to mechanosensing, which often involves cytoskeletal rearrangements. Together, these indicate a cohesive theme of actin-based structural remodeling and protrusion formation driving adhesion and signaling.","confidence":"High","size":21,"edges":32,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":11},{"id":"GO:0016567","count":11},{"id":"GO:0043149","count":11},{"id":"GO:0033138","count":11},{"id":"GO:0050975","count":11}]},{"hash":"2192901935965267756","title":"Nervous system development and MAPK signaling","description":"Based on the prominent GO terms, the cluster centers on neuronal development and signaling, notably positive regulation of JNK and ERK cascades and axon extension, along with nervous system development. This suggests proteins involved in neuronal differentiation and axon growth that operate through MAPK pathways. While there are some terms related to stress responses and xenobiotic stimulus, these appear secondary to the core neuronal development/signaling theme.","confidence":"High","size":21,"edges":154,"triangles":544,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":8},{"id":"GO:0045773","count":8},{"id":"GO:0070374","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0043552","count":8}]},{"hash":"88536284776805659","title":"ER-Golgi vesicle trafficking (COPII)","description":"This cluster is dominated by GO terms for vesicle transport between the endoplasmic reticulum and the Golgi, including COPII-coated vesicle budding and retrograde ER-Golgi transport, pointing to the secretory pathway as the core function. Additional terms like positive regulation of GTPase activity and TORC1 signaling align with growth and vesicle trafficking regulation, but the principal theme is ER-Golgi vesicle transport. ","confidence":"High","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":6},{"id":"GO:0006890","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0090114","count":6}]},{"hash":"1697963389125435289","title":"Vesicle trafficking and membrane remodeling","description":"The cluster centers on vesicle trafficking and membrane dynamics, with terms for ER-to-Golgi transport, synaptic vesicle budding, lysosomal membrane organization, and calcium-dependent exocytosis, all often coordinated by small GTPases. Plausible roles in membrane remodeling during secretion and endosomal/lysosomal trafficking, with some terms like podosome assembly suggesting cytoskeletal links; a few items (VLDL assembly, myeloid apoptosis) may reflect broader multifunctionality or annotation noise.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":6},{"id":"GO:0071803","count":5},{"id":"GO:0097212","count":5},{"id":"GO:0034379","count":5},{"id":"GO:1902953","count":5}]},{"hash":"1504042020898854764","title":"Spliceosome-driven mRNA splicing regulation under stress","description":"The core terms point to spliceosome-mediated RNA processing with multiple facets of splicing regulation (cis/splicing, alternative splicing, and positive regulation) and stress-responsive mRNA stability, with additional links to regulatory ncRNA silencing and translation initiation mechanisms. This suggests a cohesive cluster of RNA processing and gene expression control under stress.","confidence":"High","size":21,"edges":208,"triangles":1293,"max_degree":20,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":14},{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:0006378","count":12},{"id":"GO:0045292","count":12}]},{"hash":"1290041738627977415","title":"Neuroimmune transcriptional regulation and NF-kB signaling","description":"The top GO terms point to transcriptional regulation (negative regulation of RNA Pol II transcription, regulation of DNA binding, translation), along with stress and immune-related responses (glucocorticoid response, chemokine production, methylmercury response) and activation of canonical NF-kappaB signaling. This suggests the proteins act as regulators coordinating gene expression in response to stress and immune signals, particularly via NF-kB pathways, with potential connections to neuronal memory processes. While not every protein fits a single precise function, the prevalent theme is transcriptional control in neuroimmune and stress contexts.","confidence":"Medium","size":21,"edges":1,"triangles":0,"max_degree":1,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0007613","count":6},{"id":"GO:0032602","count":4},{"id":"GO:0051290","count":4},{"id":"GO:0043388","count":4}]},{"hash":"228075229592471465","title":"Unknown","description":"Top GO terms span immune signaling, neural signaling, development, cell adhesion, and centrosome-related processes, with no single coherent theme binding them together. Therefore there isn\u2019t a clear functional label beyond Unknown.","confidence":"","size":21,"edges":61,"triangles":48,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0050852","count":7},{"id":"GO:0046037","count":5},{"id":"GO:0019227","count":5},{"id":"GO:0055113","count":5},{"id":"GO:0014051","count":5}]},{"hash":"300242779230426279","title":"Neural development and synaptic vesicle regulation","description":"The cluster is enriched for brain and nervous system development terms and for regulation of synaptic vesicle exocytosis, indicating a core theme around neuronal differentiation and neurotransmission. Supporting terms like Hedgehog signaling (Smoothened pathway) and Golgi to plasma membrane transport align with neuronal development and the secretory machinery needed for synaptic function. Some terms (kidney development, mating projection growth, ribophagy, Rho signaling) are broader or less specific, but the strongest signals point to neuronal development and synaptic activity as the cluster\u2019s main function.","confidence":"Medium","size":21,"edges":124,"triangles":290,"max_degree":16,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007420","count":8},{"id":"GO:0010796","count":7},{"id":"GO:2000300","count":7},{"id":"GO:0031384","count":7},{"id":"GO:0001822","count":6}]},{"hash":"1871301598064101222","title":"Ribosome Biogenesis and Translation","description":"Dominant GO terms center on protein synthesis: translation (GO:0006412), ribosomal small subunit assembly (GO:0000028), and maturation of SSU-rRNA (GO:0000462). These point to a core role in ribosome biogenesis and protein production. Other terms like transcytosis, cell-matrix adhesion, VEGF response, and JNK signaling may reflect broader cellular context or multifunctional roles of certain proteins, but do not outweigh the strong ribosome/translation signal. Overall, the cluster most plausibly represents ribosome-related assembly and protein-synthesis activity with ancillary regulatory functions.","confidence":"Medium","size":21,"edges":28,"triangles":29,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0045056","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0007160","count":3},{"id":"GO:0000028","count":2},{"id":"GO:0000462","count":2}]},{"hash":"1251122876233595783","title":"Ribosome Biogenesis and Cell Cycle Regulation","description":"These proteins show strong enrichment for ribosome biogenesis and LSU rRNA maturation (LSU biogenesis, rRNA maturation), alongside cell cycle-related processes (cell division, mitotic cell cycle), and growth signaling (TORC1 signaling). The presence of mRNA transport, chromatin organization, and GTPase regulation suggests coordination between ribosome production, gene expression, and mitotic progression. Even with no reported edges, the GO pattern supports a cohesive module linking ribosome assembly to cell growth and division.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0000463","count":4},{"id":"GO:0051301","count":4},{"id":"GO:0038202","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0070262","count":3}]},{"hash":"1902965399797895467","title":"GTPase signaling and vesicle priming","description":"This cluster shows enrichment for regulation of Rho and Ras GTPase signaling and GTPase activity, plus vesicle-associated processes like acrosome reaction and synaptic vesicle priming, suggesting a core role in regulated signaling and vesicle trafficking; additional terms related to platelet lipid biosynthesis and vascular signaling hint at broader signaling control across cell types.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006663","count":5},{"id":"GO:0035023","count":3},{"id":"GO:0045725","count":2},{"id":"GO:0030948","count":2},{"id":"GO:0043314","count":2}]},{"hash":"1885747686597308360","title":"Actin Cytoskeleton Remodeling and Cell Polarity","description":"These proteins cluster around actin-based structures (microspikes, filopodia, podosomes, actin bundles) and regulators of Rho signaling, cell polarity, and cytoskeleton reorganization, indicating a common role in actin dynamics and polarized cell shape. Heart development term may reflect tissue-specific roles but the core theme is cytoskeleton remodeling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030035","count":6},{"id":"GO:0071803","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0007507","count":5},{"id":"GO:0035023","count":5}]},{"hash":"930195147244984526","title":"Broad Developmental Regulation","description":"The top GO terms point to diverse developmental processes across multiple organs (eye, midbrain, inner ear, trigeminal ganglion, gonads) along with regulatory activities (transcriptional regulation and histone demethylation). This suggests the proteins function broadly in development and gene regulation rather than a single pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0043010","count":4},{"id":"GO:0030901","count":4},{"id":"GO:0048536","count":4},{"id":"GO:0007338","count":4}]},{"hash":"1510537181302786176","title":"Protein synthesis machinery and ribosome biogenesis","description":"This cluster is dominated by translation-related terms (translation, cytoplasmic translation) and ribosome biogenesis, with supporting signals like tRNA modification and cell-cycle association, pointing to core proteins of the protein synthesis apparatus and its regulation; other terms hint at growth/differentiation context but do not redefine the main theme.","confidence":"High","size":21,"edges":117,"triangles":373,"max_degree":16,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":7},{"id":"GO:0002181","count":6},{"id":"GO:1901741","count":4},{"id":"GO:0008344","count":4},{"id":"GO:0045071","count":4}]},{"hash":"1305323589709428140","title":"Keratinocyte differentiation and developmental signaling","description":"The top GO terms cluster around epidermal differentiation (keratinocytes) and key signaling pathways governing development and proliferation (Wnt, Hippo, MAPK/JUN), plus angiogenesis and morphogenesis, suggesting a skin-epithelial development module with growth-control and apoptosis components.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030216","count":18},{"id":"GO:0090263","count":18},{"id":"GO:0035329","count":18},{"id":"GO:0060044","count":18},{"id":"GO:0006915","count":18}]},{"hash":"1205892357777973813","title":"Dopaminergic Neuronal Signaling and Drug Response","description":"This cluster is enriched for terms like dopaminergic synaptic transmission, cocaine and morphine responses, visual learning, and ERK signaling, all pointing to dopamine-mediated neural signaling and drug-induced neural plasticity, with additional sensory perception components (vision, pain). The convergence on neuronal signaling and addiction-related responses supports a cohesive neurological function theme.","confidence":"High","size":21,"edges":192,"triangles":1026,"max_degree":20,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048148","count":16},{"id":"GO:0010759","count":16},{"id":"GO:0070374","count":16},{"id":"GO:0019233","count":16},{"id":"GO:0008542","count":16}]},{"hash":"515159981445096003","title":"Dopaminergic signaling and cocaine response","description":"The terms cluster around neural signaling and behavior: dopaminergic synaptic transmission, cocaine-induced behavioral responses, pain perception, learning, ERK signaling, and temperature-related neural responses point to brain signaling and behavioral regulation as the core theme. Some terms reflect peripheral processes (macrophage chemotaxis, prostaglandin response, thermogenesis, heart development), but they appear less central compared to the neuronal and behavioral terms.","confidence":"Medium","size":21,"edges":7,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":16},{"id":"GO:0048148","count":14},{"id":"GO:0010759","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0071502","count":14}]},{"hash":"1217726442238131861","title":"Translation initiation and reinitiation (IRES)","description":"The cluster is dominated by GO terms related to starting and reinitiating protein synthesis, including IRES-dependent initiation, formation of preinitiation complexes, and translation reinitiation, with some viral translation references. While a few RNA-related terms appear, they do not define the main theme, which centers on translation initiation/reinitiation.","confidence":"High","size":21,"edges":25,"triangles":6,"max_degree":8,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075525","count":3},{"id":"GO:1900363","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"1304293112939447096","title":"Mitochondrial Transport and Energy Metabolism","description":"The top GO terms cluster around mitochondrial membrane transport (ADP, citrate, L-ornithine), the malate-aspartate shuttle, and energy-related processes such as adaptive thermogenesis and fatty acid/insulin responses, indicating a cohesive role in mitochondrial metabolite exchange and energy production.","confidence":"High","size":21,"edges":75,"triangles":132,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0070542","count":18},{"id":"GO:0032869","count":17},{"id":"GO:0035435","count":17},{"id":"GO:0043490","count":17},{"id":"GO:0015866","count":17}]},{"hash":"790189321846494715","title":"Developmental Signaling and Chemotaxis","description":"The top GO terms point to multiple signaling pathways (ERK cascade, calcium signaling, STAT phosphorylation) and responses to various stimuli (insulin, PDGF, retinoic acid), along with developmental processes (cartilage condensation, mammary gland morphogenesis) and neutrophil chemotaxis. This suggests a cluster of proteins that integrate extracellular signals to drive development and immune cell navigation, rather than a single pathway. ","confidence":"Medium","size":21,"edges":207,"triangles":1274,"max_degree":20,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":20},{"id":"GO:0001502","count":14},{"id":"GO:0071300","count":13},{"id":"GO:0050850","count":13},{"id":"GO:0070374","count":13}]},{"hash":"1333581837630783911","title":"Synapse Formation and Neural Development","description":"The top GO terms are dominated by synapse organization/assembly, dendrite self-avoidance, myelination, and retina morphogenesis, suggesting the proteins are mainly involved in wiring the nervous system and related development. Other terms like angiogenesis and collagen fibril organization reflect broader tissue morphogenesis accompanying neural development, indicating a cluster focused on neural wiring and associated maturation rather than a single pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050808","count":14},{"id":"GO:0051965","count":13},{"id":"GO:0042552","count":13},{"id":"GO:0007520","count":13},{"id":"GO:0070593","count":12}]},{"hash":"702857745873837288","title":"Rho/Rac GTPase Signaling and Cytoskeleton Dynamics","description":"Dominant GO terms center on Rho and Rac protein signal transduction, regulation of GTPase activity, and stress fiber assembly, pointing to a cohesive module governing cytoskeletal dynamics. Additional links to cell division, synaptic vesicle exocytosis, and brain development broaden the functional scope to neuronal structure/function and growth, all tying back to Rho-mediated signaling.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0007266","count":5},{"id":"GO:0043547","count":3},{"id":"GO:0051496","count":3},{"id":"GO:0032781","count":3},{"id":"GO:2000300","count":3}]},{"hash":"1792360858932423654","title":"Neurodevelopmental and Organogenesis Signaling","description":"This cluster centers on nervous system development and organogenesis-related processes (heart development, otolith morphogenesis, bone ossification) with supporting signaling activity (ROBO pathway, NF-kB and JAK-STAT modulation) and mechanotransduction, suggesting a broader developmental signaling role rather than a single, narrow pathway.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0035385","count":8},{"id":"GO:0071260","count":8},{"id":"GO:0042088","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0007507","count":8}]},{"hash":"483257242957523016","title":"Steroid Hormone and Vitamin D Biosynthesis","description":"The top GO terms are dominated by androgen metabolic process, testosterone biosynthetic process, and calcitriol biosynthetic process, pointing to a cohesive role in steroid and secosteroid hormone biosynthesis and metabolism. Other terms like nucleotide phosphorylation are broader metabolic hints and do not override the primary steroid/hormone signal. The mention of mammary gland development and starvation response is compatible with hormone-regulated metabolism, supporting this theme.","confidence":"High","size":21,"edges":46,"triangles":7,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0008209","count":4},{"id":"GO:0061370","count":4},{"id":"GO:0046940","count":4},{"id":"GO:0046939","count":4},{"id":"GO:0042594","count":3}]},{"hash":"1289560106286120663","title":"RNA Splicing and Translational Initiation","description":"The top GO terms point to spliceosome-mediated mRNA processing (splicing) and multiple aspects of translation initiation and reinitiation, including preinitiation complex formation and IRES-dependent viral translation. This suggests a cluster of proteins involved in RNA maturation together with components governing the initiation and regulation of translation, yielding a cohesive, if broad, RNA processing\u2013translational control theme.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000387","count":5},{"id":"GO:0075525","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"56672226735243940","title":"Amino acid and porphyrin biosynthesis cluster","description":"The top terms center on amino acid metabolism (alanine, kynurenine, aspartate, oxaloacetate) and biosynthesis of porphyrin/heme intermediates (protoporphyrinogen IX, heme), with additional metabolic ties like fatty acid transport. Notch signaling appears as an outlier, so the core theme is amino acid and porphyrin/central metabolism. ","confidence":"Medium","size":21,"edges":132,"triangles":549,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042853","count":9},{"id":"GO:0097053","count":9},{"id":"GO:0007219","count":9},{"id":"GO:0006532","count":8},{"id":"GO:0042218","count":8}]},{"hash":"1010975298741224549","title":"Immune Regulation and Development","description":"Most prevalent terms point to immune regulation (negative regulation of IL-8 production, complement activation, apoptotic cell clearance) and developmental processes (somite and spinal cord development), with associated trafficking and barrier functions (endocytosis, tight junctions, lipoprotein transport). This suggests a cluster centered on immune modulation linked to development and cellular transport.","confidence":"Medium","size":21,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000483","count":17},{"id":"GO:0043277","count":17},{"id":"GO:0031638","count":17},{"id":"GO:0018057","count":17},{"id":"GO:0061053","count":17}]},{"hash":"993085897313859297","title":"Unknown","description":"Unknown","confidence":"","size":21,"edges":33,"triangles":24,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006406","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006351","count":3}]},{"hash":"244938147191227364","title":"Ubiquitin-Proteasome Regulation & Circadian Control","description":"The cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes, polyubiquitination, and SCF-dependent proteasomal degradation, pointing to a core role in proteostasis. Additional terms on regulation of circadian rhythm and cell-cycle\u2013related processes (DNA replication initiation and DNA damage checkpoints) suggest coupling between protein turnover and timing of cell-cycle events. Stress-response terms (cadmium and arsenic) and neuronal apoptotic signaling further align with ubiquitin-mediated regulation of stress responses. Together, these terms indicate a cohesive theme around ubiquitin-proteasome\u2013driven proteolysis with links to circadian and cell-cycle regulation.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042787","count":17},{"id":"GO:0042752","count":17},{"id":"GO:0031146","count":15},{"id":"GO:1903378","count":14},{"id":"GO:0030174","count":14}]},{"hash":"1996301914986133480","title":"Plant Development and Chromatin Regulation","description":"The top GO terms point to plant growth and developmental processes (ABA response, leaf senescence, lignin biosynthesis, chlorophyll biosynthesis) together with chromatin-level control (chromatin remodeling, histone H2A deubiquitination). This suggests the proteins in this cluster participate in coordinating development with epigenetic regulation.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0035522","count":4},{"id":"GO:1903770","count":3},{"id":"GO:1905615","count":3},{"id":"GO:0010380","count":3},{"id":"GO:0031848","count":3}]},{"hash":"1585902494605696585","title":"Methylation and peptide modification enzymes","description":"This cluster's top GO terms are dominated by methylation-related processes: N-terminal peptidyl-glycine methylation, peptidyl-lysine dimethylation, and rRNA methylation, along with a peptide maturation pathway (peptidyl-pyroglutamic acid biosynthesis). While Vesicle-mediated transport and TOR signaling appear as minor terms, the strongest common theme across the proteins appears to be methylation and related post-translational or RNA modification activities, justifying a label centered on methylation/modification. ","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018013","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0031167","count":2},{"id":"GO:0016192","count":2},{"id":"GO:0032007","count":2}]},{"hash":"70159821528606815","title":"Ubiquitin-Proteasome System and Circadian Regulation","description":"The cluster is dominated by ubiquitin-related terms (ubiquitin-dependent protein catabolic process, protein polyubiquitination, ERAD), indicating a proteostasis/ubiquitin-proteasome focus. The circadian rhythm regulation term suggests clock protein turnover is involved, with negative regulation of ubiquitination pointing to feedback control within this system. Some developmental terms appear but are likely secondary to the core ubiquitin-mediated degradation theme.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0000209","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0042752","count":5},{"id":"GO:0070544","count":4}]},{"hash":"1433820837471109072","title":"Regulation of Ras/Rho signaling and development","description":"The terms are dominated by negative regulation of Ras signaling and regulation of Rho signaling, with developmental terms for kidney and spinal cord development. While there are other disparate terms (ribosomal export, lipid biosynthesis, chemokine and neutrophil-related regulation), the prominent theme is modulation of intracellular signaling pathways tied to development, suggesting a cluster centered on signaling regulation with developmental context.","confidence":"Medium","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046580","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0000055","count":2},{"id":"GO:0006646","count":2},{"id":"GO:0001822","count":2}]},{"hash":"2112780282789788642","title":"Diverse Transmembrane Transporters","description":"This cluster is enriched for GO terms describing transmembrane transport of a variety of substrates (phosphate, nitrate/nitrite, vitamins, sodium, sialic acid, fucose, and other solutes) and related vesicular loading processes, pointing to a cohesive group of membrane transporter proteins handling diverse solutes across membranes.","confidence":"High","size":21,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":5},{"id":"GO:0035461","count":5},{"id":"GO:0042128","count":5},{"id":"GO:0015706","count":5},{"id":"GO:0015707","count":5}]},{"hash":"1022511439313787928","title":"Membrane Signaling and Junction Assembly","description":"This cluster centers on GO terms related to signaling pathways (integrin, Notch, general cellular response) and structural junction formation (smooth septate and paranodal junctions), with supporting terms for membrane depolarization and ion transport, suggesting a group of proteins involved in membrane-based cell communication and junction integrity. Some terms (embryo implantation, LDL response) are peripheral but do not override the main theme.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001046","count":5},{"id":"GO:0090528","count":4},{"id":"GO:0030913","count":4},{"id":"GO:0071404","count":4},{"id":"GO:0045747","count":4}]},{"hash":"1865668963038484196","title":"Lipid Biosynthesis and Remodeling","description":"This cluster is dominated by GO terms for lipid biosynthesis and remodeling, including platelet activating factor biosynthesis, triglyceride and ether lipid biosynthesis, and cardiolipin remodeling. Additional terms point to mitochondrial energy processes and metabolic signaling (insulin signaling, glutathione metabolism), supporting a cohesive theme around lipid metabolism and lipid-related signaling. Some terms (axonogenesis, IL-2 production) are broader signaling processes but can be indirectly related to cellular metabolism and function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006663","count":3},{"id":"GO:0008286","count":2},{"id":"GO:0006749","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0007409","count":2}]},{"hash":"159417326960259642","title":"Gene Expression and Mitosis Machinery","description":"The top GO terms point to core nuclear and ribosomal processes: transcription regulation (RNA Pol II), translation and ribosome biogenesis, plus kinetochore localization and mitotic chromosome movement, all central to gene expression and cell-cycle progression. Regulatory layers such as desumoylation further support coordinated control, while stress-response terms appear ancillary. This combination best fits a theme of fundamental gene-expression machinery linked to mitosis.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0000122","count":4},{"id":"GO:0006412","count":3},{"id":"GO:0046677","count":3},{"id":"GO:0042254","count":3}]},{"hash":"1975426546366421548","title":"Liver ketogenesis and fatty acid oxidation","description":"The top GO terms are dominated by ketone body biosynthetic and catabolic processes, fatty acid beta-oxidation, and response to starvation, with liver development also represented. This points to a hepatic energy metabolism cluster centered on lipid processing and ketone production, with some broader developmental associations among the proteins. ","confidence":"High","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":12},{"id":"GO:0046951","count":12},{"id":"GO:0001889","count":12},{"id":"GO:0007420","count":10},{"id":"GO:0046952","count":10}]},{"hash":"597437954885591143","title":"Epithelial morphogenesis and signaling","description":"Proteins cluster around epithelial proliferation and organ morphogenesis (mammary gland, lung), VEGF-responsive signaling, PI3K/Akt and JNK pathways, and transcytosis, suggesting a coherent role in epithelial/vascular morphogenesis and associated signaling; a single outlier about host cell transformation does not undermine the overall theme.","confidence":"High","size":20,"edges":27,"triangles":6,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":20},{"id":"GO:0090188","count":20},{"id":"GO:0035924","count":20},{"id":"GO:0046330","count":20},{"id":"GO:0045056","count":20}]},{"hash":"2217613177513691631","title":"Developmental signaling and organogenesis","description":"These proteins cluster around multiple development-related signaling pathways (Smoothened hedgehog pathway and ROBO signaling) and organogenesis processes, including kidney and nervous system development, neurogenesis, bone ossification, and reproductive tract development (vagina). The inclusion of T cell receptor signaling and apoptotic/proliferation regulation terms also points to cell fate decisions during development, suggesting a broad developmental signaling/organogenesis theme rather than a single specific function.","confidence":"Medium","size":20,"edges":140,"triangles":487,"max_degree":19,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007224","count":9},{"id":"GO:0035385","count":8},{"id":"GO:0001822","count":8},{"id":"GO:0050852","count":8},{"id":"GO:0043931","count":8}]},{"hash":"234161267931703035","title":"Calcium-Dependent Signaling in Development","description":"The top GO terms cluster around calcium signaling, including release of sequestered calcium into the cytosol and calcium-modulated pathways, plus neural development processes like synaptic plasticity and axonal fasciculation. There are also kidney development terms (metanephric collecting duct and proximal tubule development) and coagulation-related terms, which can be linked to calcium\u2019s broad role in signaling and development. Overall, the dominant pattern suggests calcium-dependent signaling integrated with developmental and neural processes.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051281","count":7},{"id":"GO:0048168","count":7},{"id":"GO:0007223","count":7},{"id":"GO:0072205","count":7},{"id":"GO:0042994","count":7}]},{"hash":"1818095974023452300","title":"Developmental calcium signaling and morphogenesis","description":"This cluster centers on signaling networks that govern development and tissue morphogenesis. The top terms highlight calcium signaling (release of sequestered Ca2+, calcium-mediated signaling), retinoic acid response, MAPK/ERK pathway regulation, STAT tyrosine phosphorylation, and cell movement and morphogenesis (lamellipodium assembly, branching in mammary gland ducts), all framed within cell-cell signaling and developmental contexts like hemopoiesis. Together, these suggest a cohesive theme of calcium- and MAPK/STAT-driven developmental signaling and morphogenesis.","confidence":"High","size":20,"edges":108,"triangles":265,"max_degree":15,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0071300","count":19},{"id":"GO:0051281","count":19},{"id":"GO:0050850","count":19},{"id":"GO:0030032","count":19},{"id":"GO:0030097","count":19}]},{"hash":"58136082230473371","title":"Viral genome integration and proviral latency","description":"This cluster centers on DNA replication and genome integration processes, with key terms for proviral latency, viral entry into the host nucleus, and host apoptosis modulation, pointing to viral infection and genome integration in the host.","confidence":"High","size":20,"edges":46,"triangles":40,"max_degree":19,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":7},{"id":"GO:0039651","count":4},{"id":"GO:0046718","count":4},{"id":"GO:0006278","count":4},{"id":"GO:0006310","count":4}]},{"hash":"723026696662479010","title":"Embryonic development and transcriptional regulation","description":"The cluster shows strong representation of developmental processes (forebrain development, neural tube closure, skeletal system development, multicellular organism development) plus DNA-templated transcription and cell cycle terms, indicating a common theme of gene expression control during vertebrate development. Some stress-related terms appear but are likely incidental, with the core signal pointing to embryonic development and transcriptional regulation. ","confidence":"Medium","size":20,"edges":133,"triangles":471,"max_degree":19,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":15},{"id":"GO:0000278","count":15},{"id":"GO:0030900","count":15},{"id":"GO:0001403","count":15},{"id":"GO:0007275","count":15}]},{"hash":"2006034133766495560","title":"Ribosome Biogenesis and Growth Signaling","description":"The enriched terms cluster around ribosome maturation (5.8S and LSU rRNA processing), TORC1 signaling, and processes tied to cell growth and division (mitotic cell cycle, protein trafficking via ER\u2013Golgi). A few outlier terms (defense response, forebrain development, imprinting regulation) likely reflect broad or cross-species annotations, but the central theme points to coordination of ribosome biogenesis and growth signaling.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0050830","count":5},{"id":"GO:0006349","count":4},{"id":"GO:0038202","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1323213636082332060","title":"Cardiac Calcium Handling and Contractile Regulation","description":"The GO terms point to calcium signaling governing cardiac muscle contraction and development: detection and transport of calcium, regulation of calcium release via ryanodine receptors, positive regulation of heart contraction force, ventricular morphogenesis, and related pathways such as calcineurin-NFAT signaling.","confidence":"High","size":20,"edges":9,"triangles":1,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0005513","count":9},{"id":"GO:0010881","count":9},{"id":"GO:0048741","count":9},{"id":"GO:0098735","count":8},{"id":"GO:0051343","count":7}]},{"hash":"652973190455103893","title":"Transcriptional control of heart development","description":"The top GO terms are dominated by transcription by RNA polymerase II and several heart-related developmental terms (cardiac vascular smooth muscle cell development, sinus venosus morphogenesis, regulation of heart rate by chemical signal, outflow tract morphogenesis), suggesting a cluster centered on transcriptional regulation driving cardiovascular development. Some terms like stomatal development and pigmentation are more peripheral, likely reflecting shared transcriptional regulation across diverse lineages. Overall, the core theme appears to be transcriptionally governed heart and vascular development.","confidence":"Medium","size":20,"edges":190,"triangles":1140,"max_degree":19,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":19},{"id":"GO:2000820","count":18},{"id":"GO:2000227","count":18},{"id":"GO:0060948","count":18},{"id":"GO:0010374","count":18}]},{"hash":"80844363512809816","title":"Embryonic craniofacial skeletal and heart development","description":"The top GO terms cluster around embryonic development affecting craniofacial structures (roof of mouth, airway cartilage), skeletal and muscle differentiation, osteoblast activity, and heart outflow tract morphogenesis, with calcium signaling connections. This points to a coherent theme of vertebrate embryogenesis governing craniofacial skeleton and cardiogenic development.","confidence":"High","size":20,"edges":146,"triangles":590,"max_degree":19,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":12},{"id":"GO:0035914","count":11},{"id":"GO:0003151","count":10},{"id":"GO:0045669","count":10},{"id":"GO:0090009","count":10}]},{"hash":"1488948859662788708","title":"Planar polarity and developmental patterning","description":"The dominant terms cluster around planar cell polarity (PCP), body hair orientation, and morphogenesis (axon guidance, heart tube left/right patterning), with hemidesmosome assembly supporting epithelial polarity. While some metabolic terms appear, they are peripheral to the core PCP/development theme. ","confidence":"High","size":20,"edges":189,"triangles":1122,"max_degree":19,"top_function":"wound healing","top_go_terms":[{"id":"GO:0070527","count":8},{"id":"GO:0097477","count":8},{"id":"GO:0042572","count":8},{"id":"GO:0046370","count":7},{"id":"GO:0055114","count":7}]},{"hash":"2248265617064992966","title":"Planar polarity and cell adhesion in development","description":"This cluster is dominated by terms related to planar cell polarity (establishment of planar polarity, body hair orientation) and cell-cell adhesion (heterophilic/homophilic). These, combined with Hedgehog pathway involvement (Smoothened signaling) and osteoblast/differentiation notes, point to a theme of developmental patterning and tissue morphogenesis where cell adhesion and polarity cues coordinate proper tissue organization, including skeletal development. The connection to inflammatory response is less central, so the core theme remains PCP-guided development and adhesion.","confidence":"High","size":20,"edges":145,"triangles":551,"max_degree":19,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007157","count":17},{"id":"GO:0060346","count":15},{"id":"GO:0045669","count":15},{"id":"GO:0007275","count":14},{"id":"GO:0006954","count":14}]},{"hash":"1825321113857644049","title":"Gene expression regulation in development","description":"Most prominent GO terms center on DNA-templated transcription, transcriptional regulation by RNA polymerase II, and chromatin remodeling, pointing to a cluster of proteins that regulate gene expression. The accompanying developmental terms (gland, trachea, endocardial morphogenesis, endothelial chemotaxis, gonad differentiation, megakaryocyte regulation) imply these regulators act within developmental programs, coordinating transcription with tissue formation.","confidence":"High","size":20,"edges":109,"triangles":282,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":13},{"id":"GO:0000122","count":13},{"id":"GO:0043044","count":12},{"id":"GO:0070384","count":10},{"id":"GO:2000020","count":10}]},{"hash":"1348972774589940003","title":"Embryonic organogenesis","description":"This cluster centers on development across multiple embryonic tissues and organs (gonads, pituitary, heart outflow tract, palate, forebrain, inner ear, limbs, skeletal system), indicating a cohesive theme of embryonic organ formation and morphogenesis. The diverse but development-focused GO terms support a single overarching function rather than a single tissue. ","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0008584","count":7},{"id":"GO:0000122","count":7},{"id":"GO:0003148","count":7},{"id":"GO:0021983","count":7},{"id":"GO:0007338","count":7}]},{"hash":"976583127300672122","title":"Skeletal development and growth factor signaling","description":"The cluster is enriched with cartilage condensation and skeletal system development terms, alongside positive regulation of PI3K/AKT and ERK signaling and cell spreading, pointing to developmental processes in bone/cartilage shaped by growth factor\u2013mediated pathways. A neural-related term (synapse assembly) is present but likely reflects shared signaling networks rather than a primary function. Confidence: Medium","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071226","count":11},{"id":"GO:0071372","count":11},{"id":"GO:0001502","count":11},{"id":"GO:0034446","count":10},{"id":"GO:0051897","count":10}]},{"hash":"2094331995568405920","title":"Actin dynamics and cell migration","description":"This cluster is dominated by cytoskeletal dynamics and cell motility processes: actin crosslink formation, microspike assembly, and fibroblast migration appear prominently, with Rho signaling regulation aligning with cytoskeletal rearrangements; additional terms touch on morphogenesis and signaling cross-talk, but the core theme centers on actin remodeling and movement.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":3},{"id":"GO:0035023","count":3},{"id":"GO:0030035","count":3},{"id":"GO:0008286","count":3},{"id":"GO:0043123","count":2}]},{"hash":"508751697708011198","title":"Embryonic and Tissue Differentiation","description":"The top GO terms are dominated by developmental and differentiation processes across multiple tissues (in utero embryonic development, trophectoderm differentiation, thymus T cell differentiation, lung and muscle development/regeneration, erythrocyte homeostasis). While there are a few metabolic or xenobiotic-related terms, the overarching theme is developmental programs and organogenesis, suggesting this cluster represents broad developmental differentiation activity.","confidence":"Medium","size":20,"edges":35,"triangles":15,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0034101","count":5},{"id":"GO:0006146","count":5},{"id":"GO:0006094","count":4},{"id":"GO:0043403","count":4},{"id":"GO:0048286","count":4}]},{"hash":"503706137735010554","title":"Xenobiotic and Nutrient Transmembrane Transporters","description":"This cluster is dominated by transmembrane transport terms across xenobiotics, vitamins, ions, and various metabolites (potassium, phosphate, nitrate, organic anions), indicating a group of membrane transport proteins with broad substrate specificity, possibly linked to intestinal epithelial transport networks.","confidence":"High","size":20,"edges":39,"triangles":20,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":20},{"id":"GO:0035461","count":20},{"id":"GO:0071805","count":19},{"id":"GO:0042908","count":19},{"id":"GO:0042891","count":15}]},{"hash":"2293744606625179521","title":"Dopaminergic Neuronal Signaling and Metabolic Regulation","description":"These proteins cluster around dopaminergic synaptic transmission and GPCR-cAMP-ERK signaling, indicating a core role in dopamine-driven neuronal signaling. They also align with energy and metabolic processes (electron transport chain and thermogenesis) and environmental/physiological responses (temperature, xenobiotic response, blood pressure). Taken together, the group appears to represent neurons integrating metabolic state with signaling pathways affecting physiology and stress responses, centered on dopaminergic signaling. Confidence: Medium","confidence":"","size":20,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":9},{"id":"GO:0019233","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0001963","count":7},{"id":"GO:0022900","count":7}]},{"hash":"1625946816461180900","title":"Neuronal Dopaminergic and Neuropeptide Signaling","description":"The cluster centers on neural signaling: dopaminergic synaptic transmission, neuropeptide signaling, serotonin receptor pathways, and pain perception, pointing to neuromodulatory GPCR-driven communication as the core function. Some terms are less related (lactose biosynthesis, immune chemotaxis), but the dominant theme is neuronal signaling and neurotransmission.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006486","count":7},{"id":"GO:0019233","count":5},{"id":"GO:0001963","count":5},{"id":"GO:0007218","count":5},{"id":"GO:0005989","count":5}]},{"hash":"710535731232412089","title":"Developmental signaling and stem-cell regulation","description":"The top GO terms point to developmental processes across tissues (heart formation, skeletal muscle differentiation, endothelial migration/angiogenesis) and germ-line stem cell regulation (niche homeostasis, asymmetric division), along with signaling pathway regulation (activin, Wnt, PI3K/AKT). Although there are no represented protein interactions in this cluster (Edges 0), the common theme is broad developmental signaling and stem-cell regulation rather than a single, specific function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032926","count":1},{"id":"GO:0035307","count":1},{"id":"GO:0060914","count":1},{"id":"GO:0051898","count":1},{"id":"GO:0035914","count":1}]},{"hash":"2300882053893626565","title":"Immune Regulation and Cell Adhesion","description":"This cluster is dominated by immune-related terms: classical complement activation, negative regulation of macrophage and NK/T cell activities, and immunoglobulin production, pointing to immunomodulatory roles. The inclusion of cell adhesion terms (heterophilic adhesion, paranodal junctions, AV node adhesion) suggests associated cell\u2013cell interaction functions, though the core signal remains immune regulation.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0043031","count":6},{"id":"GO:0042552","count":6},{"id":"GO:0086072","count":6},{"id":"GO:0002859","count":6}]},{"hash":"2197247823221319101","title":"Neuroimmune signaling and innate defense","description":"The cluster is enriched for innate immunity terms (innate immune response, response to LPS and dsRNA, defense against Gram-positive bacteria), indicating defense functions. It also includes neural-related terms (cellular response to dopamine, positive regulation of synapse assembly, behavioral pain responses), suggesting a neuroimmune signaling context.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:1903351","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0051965","count":2}]},{"hash":"889604244295967469","title":"Nuclear transcription and protein localization","description":"The strongest GO terms point to nuclear processes, notably DNA-templated transcription and maintenance of protein localization in the nucleus, suggesting a nucleus-centric regulatory theme. Other terms are sparse or obsolete, indicating some noise and weaker coherence; thus the label reflects the primary signal with some caveats.","confidence":"Low","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0001661","count":2},{"id":"GO:0051457","count":1},{"id":"GO:0007275","count":1},{"id":"GO:0010529","count":1}]},{"hash":"2240542214831700581","title":"Unknown","description":"The terms span immune signaling, development, metabolism and basic cellular processes with no single cohesive function, suggesting a heterogeneous or noisy cluster rather than a specific module.","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045766","count":3},{"id":"GO:0014065","count":3},{"id":"GO:0045582","count":3},{"id":"GO:0043406","count":3},{"id":"GO:0042269","count":3}]},{"hash":"1602014483345880303","title":"Embryonic and Placental Development","description":"This cluster\u2019s terms center on embryogenesis with emphasis on placental/trophoblast formation, mesoderm development, and heart-related EMT processes, plus left-right patterning and endocrine development. The recurring theme is developmental programs governing embryonic and placental tissues, making \u201cEmbryonic and Placental Development\u201d a concise, representative label.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0003323","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4}]},{"hash":"1941514916567493229","title":"Developmental Morphogenesis and Neural Guidance","description":"This cluster brings together terms tied to developmental processes across tissues, including muscle and heart morphogenesis (adult somatic muscle development, heart looping, digestive tract morphogenesis), neuronal development and guidance (motor neuron migration, serotonergic neuron axon guidance, planar cell polarity pathway in axon guidance), and general regulation of transcription and signaling. The common thread is broad developmental programs shaping tissue patterning and connectivity, rather than a single pathway or tissue-specific function, suggesting a cohesive theme of developmental morphogenesis with neural guidance.","confidence":"High","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0035660","count":3},{"id":"GO:0007527","count":3},{"id":"GO:0043507","count":2},{"id":"GO:0001947","count":2}]},{"hash":"1027382302919958068","title":"Embryonic development and morphogenesis signaling","description":"This cluster\u2019s top GO terms center on embryogenesis and tissue formation (placental differentiation, cartilage morphogenesis, endocrine system development, left-right patterning, EMT in heart development, pancreatic cell development) and involve core signaling pathways (JNK cascade, Rho signaling) that regulate differentiation and morphogenesis. Together they suggest a group of proteins contributing to developmental differentiation and morphogenetic signaling rather than a single, narrow function.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":3},{"id":"GO:0007254","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0060806","count":2}]},{"hash":"1970232506867566961","title":"Unknown","description":"Unknown","confidence":"","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0034499","count":2},{"id":"GO:0048705","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0000480","count":2},{"id":"GO:0006351","count":2}]},{"hash":"131237718788134454","title":"Neuronal GPCR signaling and membrane potential regulation","description":"The terms point to signaling and excitability in neural contexts: GPCR signaling with cGMP, ERK cascade, GTPase regulation, and membrane potential/ potassium transport, plus vision-related signaling and nervous system development. While there are some broader terms (innate immunity, Wnt), the core theme supports neuronal signaling and membrane dynamics driven by GPCRs and small GTPases.","confidence":"Medium","size":20,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007399","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0071805","count":3},{"id":"GO:0007199","count":3}]},{"hash":"378678844447809142","title":"Mitochondrial electron transport and redox homeostasis","description":"The top GO terms cluster around mitochondrial respiration and redox biology, including mitochondrial electron transport (cytochrome c to oxygen and ubiquinol to cytochrome c), cytochrome c\u2013related processes, hydrogen peroxide metabolism, and redox homeostasis, with a related apoptotic cue via cytochrome c. A single photosynthesis term appears incidental and likely due to cross-annotation, but the dominant signal is mitochondrial respiration and ROS management. Confidence: High","confidence":"","size":19,"edges":83,"triangles":275,"max_degree":17,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0045454","count":4},{"id":"GO:0008635","count":4},{"id":"GO:0034465","count":4},{"id":"GO:0006123","count":4},{"id":"GO:0042743","count":4}]},{"hash":"820144234327813713","title":"Immune Activation and Phagocytosis","description":"The cluster is dominated by GO terms related to adaptive and innate immune responses, including T cell regulation and costimulation, B cell activation, and phagocytosis, with additional hints of host\u2013cell interaction (symbiont entry). A few cardiac terms appear less related, likely noise, but the overall signal points to immune activation and regulation.","confidence":"High","size":19,"edges":14,"triangles":0,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0046007","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0086014","count":3},{"id":"GO:0086091","count":3}]},{"hash":"1954376865289837802","title":"ER-Golgi trafficking and cytokine signaling","description":"This cluster centers on vesicle transport from the ER to the Golgi and onward to the plasma membrane, indicating a secretory pathway. It also features cellular responses to various stimuli (EGF, TNF, IL-1, hydrogen peroxide), suggesting active inflammatory and growth-factor\u2013related signaling. Additional terms related to focal adhesion and dendritic spine development imply associated cytoskeletal and synaptic remodeling during such signaling. Overall, the themes cohere around secretory trafficking coupled with cytokine-driven signaling.","confidence":"Medium","size":19,"edges":33,"triangles":20,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0043001","count":3},{"id":"GO:0071364","count":3},{"id":"GO:0051894","count":3},{"id":"GO:0070301","count":3}]},{"hash":"149235219278039261","title":"Adaptive Immune Signaling and Phagocytosis","description":"The terms converge on immune signaling and cell interactions: activation of B and T cell pathways, phagocytic recognition and engulfment, and complement activation, along with adhesion-related signaling, suggesting a cluster of immune activation and phagocytic events.","confidence":"High","size":19,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":7},{"id":"GO:0030913","count":7},{"id":"GO:0006911","count":6},{"id":"GO:0050853","count":6},{"id":"GO:0090528","count":6}]},{"hash":"2266136444419807632","title":"Transcriptional Regulation and Immune/Stress Signaling","description":"The cluster\u2019s top non-obsolete terms point to DNA-templated transcription and stress/immune signaling connections (e.g., cellular response to amino acid starvation, interleukin-17 signaling, negative regulation of T-helper cell differentiation). Some terms are obsolete or relate to cytoskeletal localization, which dilutes cohesion, but a central theme around transcriptional control coupled with stress and immune responses remains evident. Confidence: Medium","confidence":"","size":19,"edges":41,"triangles":7,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903206","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0034198","count":2},{"id":"GO:0035994","count":2}]},{"hash":"2189759187058470984","title":"Mitochondrial translation and respiration","description":"The cluster is strongly enriched for mitochondrial-specific protein synthesis and energy production functions: aminoacylation of mitochondrial tRNAs (glycine, proline, serine), regulation of translational fidelity, and mitochondrial DNA metabolism, all linking to the respiratory electron transport chain. Together, these terms point to a cohesive role in mitochondrial gene expression driving oxidative phosphorylation. Some unrelated terms (e.g., embryonic development) may reflect broader annotation context, but the dominant signal supports a mitochondrial translation/respiration theme.","confidence":"High","size":19,"edges":32,"triangles":4,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070150","count":4},{"id":"GO:0006433","count":4},{"id":"GO:0022904","count":4},{"id":"GO:0015966","count":4},{"id":"GO:0006450","count":4}]},{"hash":"776737857042773842","title":"DNA Repair and RNA Processing","description":"The top GO terms cluster around genome maintenance\u2014nucleotide-excision repair, DNA replication, SOS response\u2014and RNA metabolism, including nonsense-mediated decay and spliceosomal disassembly. Developmental terms (hair cell differentiation, embryonic organ development) may reflect broader expression patterns or pleiotropy, but the dominant themes point to genome maintenance linked with RNA processing. ","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000184","count":8},{"id":"GO:0000717","count":7},{"id":"GO:0035315","count":7},{"id":"GO:0048568","count":7},{"id":"GO:0033683","count":7}]},{"hash":"707051603591606703","title":"DNA damage response and chromatin remodeling with transcription control","description":"The cluster is enriched for chromatin dynamics (nucleosome positioning, chromatin remodeling), transcription regulation and termination by RNA polymerase II, DNA replication primer synthesis, and transcription-coupled nucleotide-excision repair, along with SOS stress response\u2014together suggesting a cohesive module coordinating chromatin state with transcription and DNA repair during stress. ","confidence":"High","size":19,"edges":165,"triangles":876,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0016584","count":19},{"id":"GO:0009432","count":19},{"id":"GO:0045944","count":19},{"id":"GO:0070417","count":19},{"id":"GO:0042255","count":19}]},{"hash":"1013885407579364562","title":"RNA Processing and Transcription Regulation","description":"This cluster centers on RNA metabolism and gene-expression control, as evidenced by GO terms for rRNA maturation, pre-miRNA processing, miRNA catabolic processes, regulatory ncRNA-mediated gene silencing, and spliceosome-mediated mRNA splicing, along with transcriptional regulation and antitermination activities. The mix of rRNA maturation, microRNA pathways, and transcriptional control suggests a cohesive module of RNA processing and transcription regulation functions.","confidence":"High","size":19,"edges":147,"triangles":650,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000462","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0031564","count":5},{"id":"GO:0031047","count":4},{"id":"GO:0048026","count":4}]},{"hash":"1029672027192076158","title":"Developmental Signaling and Cell Cycle Regulation","description":"The top GO terms point to multicellular and organ-specific development (skin, brain/forebrain) along with mitotic cell cycle and regulation of GTPase activity, suggesting proteins involved in coordinating development with cell proliferation and signaling. Some terms are obsolete, but the core theme appears to be developmental regulation and growth signaling.","confidence":"Medium","size":19,"edges":7,"triangles":0,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043588","count":7},{"id":"GO:0000278","count":6},{"id":"GO:0007275","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0030433","count":6}]},{"hash":"1633377899960613711","title":"Neural and integumentary development signaling","description":"This cluster centers on developmental processes in nervous system and skin-related structures, including nervous system development, substantia nigra development, hair follicle morphogenesis, and hair follicle cell proliferation, plus salivary gland formation. Coupled with ERK and Wnt signaling regulation, the proteins appear engaged in coordinated developmental signaling that shapes neural and integumentary morphogenesis.","confidence":"High","size":19,"edges":40,"triangles":11,"max_degree":13,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":8},{"id":"GO:0043524","count":6},{"id":"GO:0021762","count":6},{"id":"GO:0090263","count":6},{"id":"GO:0010592","count":6}]},{"hash":"212858229387933564","title":"Mitotic spindle assembly and kinetochore regulation","description":"Based on the predominance of GO terms related to cell cycle, kinetochore localization, spindle duplication, microtubule nucleation, and chromatid biorientation, this cluster appears to group proteins involved in mitotic spindle function and chromosome segregation. An outlier term for neuron differentiation is present, but does not override the core mitotic theme.","confidence":"High","size":19,"edges":141,"triangles":624,"max_degree":18,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007049","count":12},{"id":"GO:0034501","count":11},{"id":"GO:0030182","count":11},{"id":"GO:1903087","count":10},{"id":"GO:0007020","count":10}]},{"hash":"1866075342395555343","title":"Mitochondrial Lipid Biosynthesis and Remodeling","description":"The top GO terms cluster around lipid metabolism and membrane remodeling tied to mitochondria (cardiolipin remodeling, phosphatidylcholine and ether lipid remodeling, CDP-diacylglycerol biosynthesis) and mitochondrial ATP production, suggesting a role in lipid synthesis and mitochondrial membrane dynamics. Immune signaling terms (interleukin-2 production, T cell regulation) appear but are less dominant, so the lipid-centric, mitochondria-associated theme best fits the cluster.","confidence":"Medium","size":19,"edges":16,"triangles":3,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":10},{"id":"GO:0042775","count":10},{"id":"GO:0035965","count":10},{"id":"GO:0019432","count":10},{"id":"GO:0008611","count":10}]},{"hash":"357773534984062585","title":"ER stress response and cell-cycle stress signaling","description":"The cluster shows enrichment for mitotic cell cycle terms and responses to unfolded proteins, including translation initiation regulation under ER stress, indicating a coordinated stress-response program. It also includes innate immune and antiviral defense terms, suggesting links between stress signaling and immune signaling. Additional transport and metabolic terms (ADP transport, phosphate transport, malate-aspartate shuttle) imply metabolic adaptation during stress. Taken together, these proteins likely participate in ER-stress\u2013driven translation control coupled to cell-cycle regulation and immune response, with metabolic support. ","confidence":"Medium","size":19,"edges":20,"triangles":0,"max_degree":11,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":6},{"id":"GO:0006986","count":5},{"id":"GO:0036494","count":5},{"id":"GO:0045842","count":5},{"id":"GO:0051607","count":5}]},{"hash":"1984641520522085753","title":"Host Cell Signaling and Trafficking","description":"The cluster centers on signaling and regulation (peptidyl-threonine phosphorylation; JNK cascade), protein turnover (proteasomal degradation), and membrane trafficking (transcytosis), with related development cues (axon extension, neuron maturation) and host-interaction signals (VEGF response; symbiont-mediated host cell transformation). This suggests a cohesive role in coordinating signaling and intracellular transport during development and host interactions.","confidence":"Medium","size":19,"edges":95,"triangles":251,"max_degree":17,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0018107","count":6},{"id":"GO:0032436","count":6},{"id":"GO:0046638","count":6},{"id":"GO:0020021","count":5},{"id":"GO:0090188","count":5}]},{"hash":"1864458856230819117","title":"Neuronal synapse formation and spine morphogenesis","description":"This cluster is enriched for GO terms related to synapse assembly, dendritic spine morphogenesis, axon fasciculation, and brain structural development (e.g., corpus callosum), suggesting a focus on neuronal connectivity and synaptic maturation. Other terms like regulation of integrin-mediated adhesion support neural cell adhesion processes critical for proper synapse formation, while a few terms (e.g., telomere capping, osmosensory signaling) may be less central or context-dependent. Overall, the primary signal points to neuronal development and synaptic organization.","confidence":"High","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051965","count":4},{"id":"GO:0033628","count":4},{"id":"GO:0022038","count":4},{"id":"GO:1904355","count":3},{"id":"GO:0071372","count":3}]},{"hash":"641051198105163720","title":"Cell Polarity and Junctional Signaling","description":"The proteins appear to co-regulate Rho-mediated signaling, establishment/maintenance of cell polarity, and cell-cell junctions, with ephrin receptor signaling and Fc receptor pathways indicating membrane receptor-driven communication. While some terms touch on immune signaling (LPS response, IL-5 production), the dominant theme is signaling networks that govern cell polarity, shape, and adhesion, spanning development and tissue organization.","confidence":"Medium","size":19,"edges":39,"triangles":32,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:2000769","count":3},{"id":"GO:0031139","count":3},{"id":"GO:0032005","count":3},{"id":"GO:0048013","count":3}]},{"hash":"2202153183217851116","title":"Embryonic organ development and signaling","description":"The cluster centers on broad developmental processes across multiple organs (brain, spleen, oculomotor nerve, pronephric nephron, pulmonary myocardium) and includes a phosphatidylinositol-mediated signaling term plus lipid biosynthesis (ceramide). This points to proteins involved in embryonic organogenesis with associated signaling and lipid metabolism, rather than a single tissue-specific function.","confidence":"Medium","size":19,"edges":3,"triangles":0,"max_degree":2,"top_function":"protein catabolic process","top_go_terms":[{"id":"GO:0048536","count":5},{"id":"GO:0007420","count":4},{"id":"GO:0046513","count":4},{"id":"GO:0048015","count":3},{"id":"GO:0042663","count":3}]},{"hash":"725089905325097996","title":"Growth Signaling and Cell Cycle Regulation","description":"The cluster is enriched for terms tied to signaling and growth control (positive regulation of kinase activity, TORC1 signaling, cellular response to amino acids, regulation of GTPase activity) as well as cell cycle and DNA replication regulation (regulation of DNA replication, meiotic cell cycle processes). While there are some more specific links to ciliary docking and morphogenesis, the dominant theme appears to be growth-responsive signaling that governs cell cycle progression and replication, making this a coherent label. ","confidence":"Medium","size":19,"edges":16,"triangles":0,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0033674","count":4},{"id":"GO:0060188","count":3},{"id":"GO:0000188","count":3},{"id":"GO:0006275","count":3},{"id":"GO:0097711","count":3}]},{"hash":"91594567324076230","title":"Unknown","description":"The top GO terms span photosynthesis and nonphotochemical quenching (plant energy capture) alongside aromatic compound degradation (toluene, carbazole) and other disparate metabolic/transport terms, with no evident cohesive pathway or strong interconnections among proteins. Without a unifying function, a specific, accurate label cannot be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0046381","count":3},{"id":"GO:0010196","count":3},{"id":"GO:0015979","count":3},{"id":"GO:0042203","count":3}]},{"hash":"303761971122567060","title":"Actin cytoskeleton remodeling and contractility","description":"Proteins in this cluster are strongly linked to actin dynamics: actin cable assembly, crosslinking, contractile ring formation, membrane tubulation, and Rho-mediated signaling that governs cell shape and polarity. The mix of terms converges on actin cytoskeleton organization driving contractile and remodeling processes, including aspects of cell division and muscle-related contraction signals. This points to a cohesive theme of actin-based remodeling and contractile machinery.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903475","count":3},{"id":"GO:0071963","count":3},{"id":"GO:0031532","count":3},{"id":"GO:0097320","count":3},{"id":"GO:0035023","count":3}]},{"hash":"1302823353191083241","title":"RNA processing and translation regulation","description":"This cluster centers on mRNA maturation (polyadenylation, mRNA stability, spliceosome-driven splicing) and extends to control of translation initiation/reinitiation (including IRES-dependent viral translation) and regulatory ncRNA-mediated gene silencing, suggesting a cohesive module coordinating RNA processing with translation. ","confidence":"High","size":19,"edges":165,"triangles":869,"max_degree":18,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":16},{"id":"GO:0010610","count":16},{"id":"GO:0000381","count":15},{"id":"GO:0045292","count":15},{"id":"GO:0075525","count":14}]},{"hash":"758693759495250140","title":"Spermatogenesis and transcriptional regulation","description":"The top GO terms strongly point to fertilization-related activity: copulation and binding of sperm to zona pellucida. While additional terms cover mRNA processing, transcription regulation, and ubiquitin-related deubiquitination, which can connect to chromatin remodeling and gene expression in germ cells, the overall theme centers on processes relevant to sperm\u2013egg interaction and transcriptional control. The cluster thus appears to combine elements of gamete interaction with broader gene-regulatory and cellular maintenance processes, making the linkage plausible but not tightly cohesive.","confidence":"Low","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0007620","count":5},{"id":"GO:0007339","count":5},{"id":"GO:0061484","count":5},{"id":"GO:0006397","count":4},{"id":"GO:0006355","count":3}]},{"hash":"207000085297799245","title":"Embryonic organogenesis and neural patterning","description":"The cluster shows widespread developmental terms across several organs (pancreas, thyroid, forebrain, inner ear) and neural patterning, indicating a shared role in organogenesis and neural tissue patterning rather than a single specific pathway.","confidence":"High","size":19,"edges":168,"triangles":919,"max_degree":18,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003309","count":10},{"id":"GO:0003322","count":10},{"id":"GO:0021798","count":10},{"id":"GO:0042472","count":10},{"id":"GO:0021905","count":10}]},{"hash":"328518120187675600","title":"ECM Remodeling and Developmental Morphogenesis","description":"These proteins cluster around extracellular matrix remodeling and tissue morphogenesis. Recurrent GO terms include basement membrane disassembly and collagen catabolic processes, bone resorption, and decidualization\u2014classic ECM remodeling events. Additional terms point to developmental morphogenesis and signaling (lung branching morphogenesis, Wnt-related localization) and regulatory processes tied to development and hormone signaling (neural precursor proliferation, thyroid hormone response). Together they suggest a group of proteins involved in remodeling ECM during developmental and reproductive tissue remodeling, rather than a single pathway.","confidence":"High","size":19,"edges":108,"triangles":315,"max_degree":17,"top_function":null,"top_go_terms":[{"id":"GO:0034769","count":14},{"id":"GO:2000179","count":14},{"id":"GO:0050790","count":14},{"id":"GO:0060448","count":14},{"id":"GO:0030574","count":14}]},{"hash":"89339503215299239","title":"Eye morphogenesis and retina development","description":"The cluster\u2019s top GO terms are embryonic eye morphogenesis, camera-type eye development, and retina development, which indicates a core focus on eye formation and retinal morphogenesis. While there are additional terms related to broader organ morphogenesis and transcription, the strongest signal centers on eye/retina development, supporting an eye-centric developmental cluster.","confidence":"Medium","size":19,"edges":125,"triangles":428,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0048048","count":13},{"id":"GO:0043010","count":12},{"id":"GO:0060441","count":12},{"id":"GO:0006366","count":12},{"id":"GO:0002076","count":10}]},{"hash":"1811879968121727573","title":"Developmental Morphogenesis and Tissue Remodeling","description":"These GO terms cluster around broad developmental and morphogenetic processes across multiple tissues (face morphogenesis, endochondral ossification, trophoblast differentiation, pancreatic cell development) and tissue remodeling (collagen organization, wound healing, epithelial proliferation). The set suggests a general developmental/remodeling theme rather than a single specialized function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0042552","count":3},{"id":"GO:0042511","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0030307","count":3},{"id":"GO:0060707","count":3}]},{"hash":"669188446864996995","title":"Transcriptional Regulation in Development and Immune Signaling","description":"The top GO terms indicate clear regulation of transcription by RNA polymerase II (both negative and positive), suggesting a transcription-centric cluster. Several terms point to developmental processes (midbrain development, pancreas morphogenesis, amelogenesis, tissue remodeling), while others involve immune signaling and physiological regulation (Toll signaling, response to lipopolysaccharide, blood pressure regulation). Together, these imply a cohesive theme around transcriptional control embedded in developmental and immune pathways.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0030901","count":8},{"id":"GO:0007586","count":7},{"id":"GO:0045944","count":6},{"id":"GO:0097186","count":6}]},{"hash":"996428879195561848","title":"Protein Synthesis and Stress Response","description":"The top GO terms are dominated by ribosome biogenesis and translation, pointing to protein synthesis as a core function of the cluster. Additional terms related to stress and signaling (response to corticosterone and xenobiotic stimulus, apoptotic process, regulation of cell shape, and neurotransmitter metabolism) suggest the proteins also participate in stress-response pathways and metabolic signaling, linking protein production with environmental and cellular stress responses.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0051412","count":3},{"id":"GO:0009228","count":3},{"id":"GO:0006915","count":3},{"id":"GO:0006412","count":3}]},{"hash":"1365422047415339787","title":"Ribosome assembly and translation machinery","description":"This cluster centers on ribosomal biogenesis and protein synthesis, with GO terms for ribosomal small subunit assembly, SSU-rRNA maturation, and translation. Additional RNA-cap/methylation terms point to transcription-associated RNA processing that interfaces with translation. A few peripheral terms (sensory perception of sound, spermatogenesis, meiosis) add noise but do not override the core translation/ribosome theme.","confidence":"Medium","size":19,"edges":32,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0000028","count":2},{"id":"GO:0000462","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0007605","count":2},{"id":"GO:0007283","count":1}]},{"hash":"1204797471314085658","title":"Mitochondrial translation and tRNA charging","description":"This cluster is driven by translation-related GO terms, especially general translation and regulation of translational fidelity, plus mitochondrial-specific tRNA aminoacylation (lysyl- and aspartyl-tRNA). These point to a cohesive role in mitochondrial protein synthesis. A few other terms (DNA replication, recombination, cell cycle checkpoint) are less connected and may reflect multi-functional annotations or noise, but the dominant signal supports mitochondrial translation machinery.","confidence":"High","size":19,"edges":33,"triangles":12,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0006450","count":3},{"id":"GO:0009236","count":2},{"id":"GO:0070584","count":2},{"id":"GO:0070154","count":1}]},{"hash":"183320996594344999","title":"Ubiquitin-Dependent Protein Degradation","description":"The top terms are dominated by ubiquitin-dependent proteolysis, including general ubiquitin-dependent protein catabolic process and SCF-dependent proteasomal degradation, suggesting the cluster centers on regulated protein turnover. Additional terms like circadian rhythm regulation and neural development likely reflect turnover of regulatory proteins governing those processes.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":14},{"id":"GO:0042752","count":13},{"id":"GO:0060386","count":11},{"id":"GO:0031146","count":11},{"id":"GO:0071406","count":11}]},{"hash":"680260502139111395","title":"Cardiac signaling and metabolism","description":"The top GO terms point to heart-related processes (regulation of cardiac muscle contraction, heart development, regulation of blood pressure) and signaling pathways (adenylate cyclase-activating GPCR signaling, calcium release) with an additional emphasis on energy production (electron transport chain). Taken together, these suggest a cluster of proteins involved in cardiac function and energy metabolism, with some broader signaling annotations that may reflect shared pathway components or annotation noise (e.g., visual perception). ","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":9},{"id":"GO:0035025","count":9},{"id":"GO:0010579","count":9},{"id":"GO:0045777","count":9},{"id":"GO:0051281","count":9}]},{"hash":"862423315372329677","title":"Rho-family GTPase signaling and actin remodeling","description":"The proteins cluster around small GTPase\u2013mediated signaling and cytoskeletal dynamics, with strong representation of actin polymerization, filopodium and podosome assembly, and cell spreading. The presence of pathways such as EGFR, Wnt, and T cell receptor signaling suggests integration of cytoskeletal remodeling with broader signal transduction to regulate cell shape and adhesion.","confidence":"High","size":19,"edges":5,"triangles":0,"max_degree":3,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007264","count":17},{"id":"GO:1900026","count":17},{"id":"GO:0046847","count":17},{"id":"GO:0043552","count":16},{"id":"GO:0030838","count":16}]},{"hash":"559309992921972962","title":"Innate Immune Activation and LPS/TLR Signaling","description":"It clusters proteins enriched for innate immune response, LPS/TLR signaling, dsRNA response, and defense against bacteria, with accompanying apoptosis and NF-kappaB regulatory terms. A peripheral neurotransmitter secretion term may reflect cross-talk or annotation overlap rather than a core function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0045087","count":8},{"id":"GO:0050852","count":7},{"id":"GO:0050830","count":7},{"id":"GO:0031663","count":7},{"id":"GO:0007269","count":7}]},{"hash":"733302100195216779","title":"Nucleotide Salvage and DNA Biosynthesis","description":"Most top GO terms describe salvage and biosynthesis of deoxynucleotides (deoxyguanosine, deoxycytidine, dGTP, TMP) and DNA precursor production, indicating a cluster centered on nucleotide recycling and DNA synthesis. A few energy-related terms appear but are peripheral to the main theme.","confidence":"Medium","size":19,"edges":163,"triangles":842,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0006180","count":3},{"id":"GO:0043097","count":3},{"id":"GO:0046092","count":3},{"id":"GO:0046070","count":3},{"id":"GO:0071897","count":3}]},{"hash":"526150385542724214","title":"Unknown","description":"Unknown","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":5},{"id":"GO:0051290","count":4},{"id":"GO:1901663","count":4},{"id":"GO:0033386","count":4},{"id":"GO:0043693","count":4}]},{"hash":"118450886511607302","title":"Unknown","description":"The top terms span translation and ribosome biogenesis alongside neural development and antiviral/immune regulation, with no clear single function tying all members together, so a cohesive label is not supported.","confidence":"","size":19,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":5},{"id":"GO:0035455","count":4},{"id":"GO:0045071","count":4},{"id":"GO:0042254","count":3},{"id":"GO:0021610","count":3}]},{"hash":"1454738906959793564","title":"Protein Turnover and DNA Maintenance","description":"This cluster's top GO terms are dominated by proteolysis and protein catabolic processes, alongside DNA replication and DNA repair. These motifs point to a common theme of protein turnover coupled with genome maintenance, with additional signals of stress response and cell-cycle-related processes that broaden the scope but don\u2019t override the core theme.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006508","count":4},{"id":"GO:0006517","count":3},{"id":"GO:0035690","count":2},{"id":"GO:0030163","count":2},{"id":"GO:0006260","count":2}]},{"hash":"2283305422884925906","title":"Actin-based lamellipodium/filopodium formation","description":"The top GO terms center on assembly of lamellipodia and filopodia, activation of GTPases, and positive regulation of cell spreading and adhesion, all indicating actin cytoskeleton remodeling that drives cell migration. While some terms relate to morphogenesis or vascular remodeling, the dominant theme is actin-driven protrusion and motility.","confidence":"High","size":19,"edges":18,"triangles":0,"max_degree":18,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0030032","count":14},{"id":"GO:0043314","count":14},{"id":"GO:0046847","count":14},{"id":"GO:1904693","count":14},{"id":"GO:0090630","count":14}]},{"hash":"428361584115293142","title":"Mitochondrial energy metabolism and biogenesis","description":"The cluster is strongly enriched for mitochondrial processes: assembly of the respiratory chain (complex I), mitochondrial translation, TCA cycle and electron transport, proton translocation, protein import into the mitochondrial membrane, and cristae formation. These together point to a cohesive module governing energy production and mitochondrial biogenesis/maintenance, supporting a single mitochondrial-focused function.","confidence":"High","size":19,"edges":170,"triangles":952,"max_degree":18,"top_function":null,"top_go_terms":[{"id":"GO:0032981","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0006099","count":2}]},{"hash":"1829844486134088514","title":"Ubiquitin-Dependent Protein Degradation","description":"The cluster is dominated by GO terms for ubiquitination and proteasomal targeting (ubiquitin-dependent protein catabolic process, ERAD, K48-linked ubiquitination, autoubiquitination), indicating a coherent theme of ubiquitin-mediated protein degradation. While a few terms touch on histone modification or immune signaling, these likely reflect related regulatory connections rather than a separate function. Overall, the signature is strongest for proteolysis via ubiquitin tagging.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":10},{"id":"GO:0030433","count":8},{"id":"GO:0051865","count":7},{"id":"GO:0070936","count":6},{"id":"GO:2000620","count":6}]},{"hash":"2227751363344569464","title":"Histone Modification Regulators","description":"The top GO terms cluster around histone modification and chromatin state regulation, including positive regulation of H3-K27 methylation, H3-K27 methylation regulation, H3-K23 acetylation, and histone deacetylase activity regulation. This points to proteins involved in epigenetic control of gene expression. A few terms reference cell cycle and signaling processes, but the dominant signal is chromatin modification regulation, making this cluster best described as histone modification regulators.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":4},{"id":"GO:0061087","count":4},{"id":"GO:0043972","count":3},{"id":"GO:1901726","count":3},{"id":"GO:2000584","count":3}]},{"hash":"1296629944075917843","title":"GPCR Signaling and Prostaglandin Response","description":"The cluster\u2019s top GO terms are dominated by adenylate cyclase\u2013activating GPCR signaling pathways (including dopamine receptor signaling) and prostaglandin-responsive processes, with links to blood pressure regulation, Rho signaling, chemotaxis, and proliferation. This points to a cohesive theme of GPCR-cAMP signaling and prostaglandin-mediated communication in vascular and immune contexts, though an electron transport chain term is present but not central to the cluster\u2019s core function.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":8},{"id":"GO:0010579","count":8},{"id":"GO:0007190","count":8},{"id":"GO:0045777","count":8},{"id":"GO:0035025","count":7}]},{"hash":"695700394570571868","title":"Bone ossification and neural crest development","description":"This cluster shows strong signals for ossification and bone maturation, plus neural crest\u2013related processes (neural crest cell migration, trigeminal nerve organization, sympathetic nervous system development) and supportive developmental processes like cell adhesion, suggesting a theme of coordinated bone and neural crest\u2013derived tissue development.","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":10},{"id":"GO:0007157","count":9},{"id":"GO:0000187","count":8},{"id":"GO:0014068","count":8},{"id":"GO:0001822","count":7}]},{"hash":"589252820698386718","title":"Neural-immune regulation","description":"The terms show both neural processes (dendritic spine morphogenesis, myelination, temperature response) and immune signaling (innate immune response, defense response to virus, T cell homeostasis, transcriptional regulation by RNA Pol II, ubiquitination), suggesting a cluster of proteins involved in neural development/function with neuroimmune cross-talk. Confidence: Medium","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061002","count":2},{"id":"GO:0071502","count":2},{"id":"GO:0071157","count":2},{"id":"GO:0048147","count":2},{"id":"GO:0051607","count":2}]},{"hash":"661763975656472688","title":"Unknown","description":"The Top Terms show a wide mix of developmental (skin/retina development, cell proliferation), sensory/behavioral (locomotory behavior, pain perception), and metabolic/vascular (blood coagulation, diet-induced thermogenesis) functions, with signaling regulation (GTPase activity) also represented. This broad spread suggests there is no single cohesive function tying the cluster together, so a specific label is not evident.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0008284","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0043588","count":6},{"id":"GO:0007626","count":6},{"id":"GO:0008283","count":5}]},{"hash":"865100577719736408","title":"Neuronal synapse formation and signaling","description":"This cluster centers on dendritic spine morphogenesis, receptor clustering, and nitric oxide\u2013mediated retrograde synaptic signaling, pointing to neural synapse organization and function as the core theme; a few terms relate to immune or epithelial processes, but the dominant pattern is neuronal connectivity and synapse development.","confidence":"Medium","size":19,"edges":2,"triangles":0,"max_degree":2,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0070433","count":13},{"id":"GO:0060997","count":11},{"id":"GO:0043113","count":11},{"id":"GO:2000821","count":11},{"id":"GO:0090557","count":10}]},{"hash":"1603537674722324793","title":"Unknown","description":"The Top Terms show a patchwork of functions (mRNA decay, protein dephosphorylation, salt-stress response) along with several obsolete histone modification terms and unrelated processes, and there are no edges linking the proteins. There isn\u2019t a clear, shared function tying all proteins together, so no meaningful label can be assigned.","confidence":"","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070966","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0009651","count":2},{"id":"GO:0043972","count":1},{"id":"GO:0051569","count":1}]},{"hash":"84707001343513149","title":"Cytoskeletal dynamics and transcription regulation","description":"Based on the top GO terms, the proteins in this cluster are enriched for actin/microtubule assembly and movement (mitotic spindle assembly, microspike assembly, barbed-end actin filament capping, microtubule-based movement) as well as regulation of transcription and responsiveness to TGF-beta signaling and development (DNA-templated transcription, regulation of DNA-templated transcription, spinal cord development, cellular response to transforming growth factor beta stimulus). This combination suggests a group of proteins that coordinate cytoskeletal remodeling with transcriptional changes during development or signaling processes, rather than a single enzymatic function.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090307","count":4},{"id":"GO:0030035","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0006351","count":2}]},{"hash":"1522757553589545409","title":"Embryonic Development and Tissue Morphogenesis","description":"This cluster is dominated by GO terms linked to embryonic development and tissue formation across multiple organ systems (endocardial cushion formation, placenta development, cartilage morphogenesis, hair follicle morphogenesis, palate roof, mesoderm development, left-right patterning, pancreatic cell development, trophoblast differentiation, endocrine system development). The common theme is generic developmental programs and organogenesis rather than a single functional pathway, suggesting a cohesive developmental identity for these proteins.","confidence":"Medium","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0003198","count":17},{"id":"GO:0060806","count":17},{"id":"GO:0035270","count":17},{"id":"GO:0060707","count":17},{"id":"GO:0060536","count":17}]},{"hash":"1198052358979954341","title":"Neuronal development and synaptic signaling","description":"The top GO terms point to neuron-specific processes: dendritic spine morphogenesis, ephrin receptor signaling, neurotrophin TRK signaling, retinoic acid response, and actin cytoskeleton organization, all central to neuronal development and synaptic remodeling. Some immune or generic processes appear, but the dominant theme is neural connectivity and signaling pathways governing neurite outgrowth and synapse formation. ","confidence":"High","size":19,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0050798","count":7},{"id":"GO:0060997","count":7},{"id":"GO:0048013","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0030866","count":5}]},{"hash":"832748952001281830","title":"Neural differentiation and transcription regulation","description":"The top GO terms point to transcription by RNA polymerase II and its regulation, indicating transcriptional control as a core function. Concurrently, several terms describe neuronal lineage specification (spinal cord motor neuron/fate specification, oligodendrocyte fate, cortical GABAergic interneuron differentiation, subpallium fate commitment), suggesting the proteins collectively drive neural development through transcriptional regulation. A few other developmental terms appear, but they are less central to the cluster\u2019s main signal. Overall, the dominant theme is transcriptional control in neural differentiation.","confidence":"High","size":18,"edges":150,"triangles":771,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0006351","count":8},{"id":"GO:0021530","count":8},{"id":"GO:0021892","count":8},{"id":"GO:0031018","count":8}]},{"hash":"1096313396217628951","title":"Plant Growth Signaling and Cell Cycle Control","description":"The GO terms point to plant-specific growth signaling (cytokinin-activated signaling; negative regulation of gibberellin signaling) and key cell cycle events (metaphase/anaphase transition), with supporting protein folding/quality control processes (response to unfolded protein; peptidyl-prolyl isomerization). This suggests a cluster tied to plant development and division, moderated by stress-related protein handling, rather than a single biochemical activity. ","confidence":"Medium","size":18,"edges":3,"triangles":0,"max_degree":3,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0006986","count":9},{"id":"GO:0031400","count":9},{"id":"GO:0007091","count":9},{"id":"GO:0009736","count":9},{"id":"GO:0000413","count":9}]},{"hash":"1746073859061314220","title":"Organelle protein import and lipid metabolism","description":"Most terms point to import of proteins into mitochondria (inner membrane, matrix) and chloroplast stroma, suggesting a shared role in organelle targeting and membrane assembly. Some lipid metabolism terms are present, which may reflect membrane biogenesis contexts rather than direct import roles. The lack of edges implies these proteins may function in related but separate pathways; the dominant theme is organelle protein import.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":3},{"id":"GO:0030150","count":3},{"id":"GO:0000002","count":3},{"id":"GO:0045037","count":3},{"id":"GO:0032094","count":3}]},{"hash":"912427504759312352","title":"Unknown","description":"The terms span mammalian developmental processes (uterus and mammary gland development) and a wide range of metabolic/biosynthetic processes from plants and microbes (brassinosteroid and retinoic acid pathways, calcitriol biosynthesis, triglyceride metabolism, coumarin/macrolide biosynthesis). This scattered mix provides no clear, cohesive functional theme for the cluster.","confidence":"","size":18,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":11},{"id":"GO:0030879","count":10},{"id":"GO:0046226","count":10},{"id":"GO:0036378","count":10},{"id":"GO:0070989","count":10}]},{"hash":"691649428171554173","title":"Wnt and Hippo Signaling in Development and Cell Cycle","description":"The top terms cluster around canonical Wnt signaling and Hippo pathway activity, indicating a developmental signaling theme coupled with regulation of cell proliferation. Supporting terms related to DNA replication, the centrosome cycle, and apoptosis point to cell-cycle control and programmed cell death, while keratinocyte differentiation and embryonic cranial skeleton morphogenesis anchor this to development. Together, these terms suggest a cohesive theme of signaling-driven development and controlled cell growth.","confidence":"High","size":18,"edges":28,"triangles":12,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0090263","count":13},{"id":"GO:0030216","count":13},{"id":"GO:0060044","count":13},{"id":"GO:0035329","count":13},{"id":"GO:0006915","count":13}]},{"hash":"620754290049398946","title":"Neurodevelopmental signaling and cell-cycle control","description":"The terms cluster around modulation and negative regulation of signaling and growth processes, especially tyrosine dephosphorylation, neuron development, cell cycle control (CDK activity, cell cycle), kinetochore localization, and regulation of autophagy and protein degradation. This suggests a group of proteins that coordinate neuronal development with cell-cycle progression and cellular quality control pathways, rather than enzymes driving these processes. ","confidence":"Medium","size":18,"edges":108,"triangles":271,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0035335","count":8},{"id":"GO:0048666","count":7},{"id":"GO:0032435","count":7},{"id":"GO:0034501","count":5},{"id":"GO:0045736","count":5}]},{"hash":"1187884440035226334","title":"Neural development, synapse formation, and axon guidance","description":"This cluster is enriched for neural developmental processes\u2014neurogenesis, myelination, and synapse organization\u2014along with axon guidance signals (ROBO) and growth-related PI3K-AKT signaling. While some immune signaling terms appear (IL-27, Th2 cytokine production), the predominance of neuronal maturation and connectivity terms supports labeling it as neural development and synaptic/axonal guidance.","confidence":"High","size":18,"edges":145,"triangles":701,"max_degree":17,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0042517","count":12},{"id":"GO:0001525","count":10},{"id":"GO:0043491","count":10},{"id":"GO:0035745","count":10},{"id":"GO:0035385","count":10}]},{"hash":"1894572777637908733","title":"Cysteine and sulfur amino acid metabolism","description":"The cluster\u2019s term set centers on cysteine and related sulfur amino acid pathways, including transsulfuration, L-cysteine biosynthesis, L-homocysteine catabolic processes, and L-serine catabolism. While there are a few outliers (cell cycle regulation, GMP synthesis, nuclear import), the strongest coherence is the sulfur amino acid metabolism theme. Confidence: Medium","confidence":"","size":18,"edges":149,"triangles":756,"max_degree":17,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0030512","count":10},{"id":"GO:0030071","count":8},{"id":"GO:0031460","count":8},{"id":"GO:0019343","count":8},{"id":"GO:0006565","count":8}]},{"hash":"950885817966469495","title":"RNA processing and translation initiation regulation","description":"This cluster shows strong enrichment for mRNA processing terms (positive regulation of mRNA splicing via spliceosome; mRNA polyadenylation regulation; mRNA modification) and for translation initiation/reinitiation (translation reinitiation; formation of translation preinitiation complex; IRES-dependent viral translational initiation), suggesting a shared role in RNA metabolism and control of translation. The presence of ncRNA-mediated gene silencing also aligns with RNA-level regulation of gene expression. While some terms are obsolete or virus-specific, the overall theme centers on RNA processing and translation control.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":12},{"id":"GO:0031047","count":12},{"id":"GO:1901407","count":12},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9}]},{"hash":"284376194755143068","title":"MAPK-driven neuronal development and axon growth","description":"This cluster is dominated by MAPK signaling terms (positive regulation of JNK and ERK cascades) with neural development, axon extension, and hippocampus formation, suggesting roles in neuronal growth and axon guidance. Some terms like mitotic cell cycle and beta selection are less central but may reflect broader signaling contexts in progenitor cells.","confidence":"Medium","size":18,"edges":14,"triangles":11,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":14},{"id":"GO:0070374","count":14},{"id":"GO:0043552","count":14},{"id":"GO:0007399","count":12},{"id":"GO:0045773","count":11}]},{"hash":"2288028317084323755","title":"Cytoskeleton dynamics and trafficking regulators","description":"The top GO terms point to regulation of GTPase activity, actin-based structures like podosomes, Rac signaling, spindle assembly, and endosome-to-lysosome transport, all centered on controlling cytoskeleton remodeling, cell adhesion/motility structures, and vesicular trafficking, with ubiquitin-dependent turnover also tying into dynamic protein regulation. A few plant-specific terms (floral organ abscission) fit within broader adhesion/trafficking contexts, supporting a cohesive theme of cytoskeletal and trafficking regulation rather than isolated pathways.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0007289","count":5},{"id":"GO:0051225","count":5},{"id":"GO:0035021","count":4},{"id":"GO:0000122","count":4}]},{"hash":"44672732191350480","title":"Developmental Transcriptional Regulation and Signaling","description":"The cluster centers on transcriptional control (negative regulation of transcription by RNA Pol II; regulation of DNA-templated transcription) and development (Sertoli cell development; metanephros morphogenesis), with supporting signaling (positive regulation of TGF-beta receptor signaling) and processes like autoubiquitination and autophagy. While a few terms (e.g., viral process) diverge, the dominant theme is transcriptional regulation integrated with developmental signaling.","confidence":"Medium","size":18,"edges":27,"triangles":7,"max_degree":10,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0006355","count":4},{"id":"GO:0060009","count":4},{"id":"GO:0030511","count":4},{"id":"GO:1902499","count":4}]},{"hash":"2237382766874261291","title":"DNA Repair and Damage Response","description":"The top GO terms are dominated by DNA maintenance activities: base-excision repair, DNA recombination, DNA catabolic and biosynthetic processes, and a gamma radiation response, all pointing to genome maintenance and damage signaling. Some terms appear obsolete or unrelated (aging, specific hemolysis), but the core cluster clearly centers on DNA repair and damage response mechanisms.","confidence":"High","size":18,"edges":13,"triangles":3,"max_degree":4,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0006284","count":6},{"id":"GO:0007568","count":5},{"id":"GO:0006310","count":4},{"id":"GO:0071897","count":3},{"id":"GO:0010332","count":3}]},{"hash":"1676487984372956294","title":"Growth Factor Signaling and Immune Regulation","description":"The terms cluster around activation and regulation of signaling pathways in response to growth factors and hormones (ERK cascade, calcium signaling, insulin/PDGF signaling, STAT phosphorylation). There are also immune-related processes (neutrophil chemotaxis, IL-2 production) and a developmental cue (mammary gland branching). Together they describe a network of growth-factor\u2013driven signaling with immune and developmental modulation.","confidence":"Medium","size":18,"edges":59,"triangles":65,"max_degree":13,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071300","count":9},{"id":"GO:0050850","count":9},{"id":"GO:0070374","count":9},{"id":"GO:0060444","count":9},{"id":"GO:0042531","count":9}]},{"hash":"1298192725637768440","title":"Unknown","description":"The GO terms are heterogeneous, including DNA repair (base-excision repair, DNA catabolic process), xenobiotic response, cell cycle regulation, hormone response, and even corneocyte development, with some obsolete terms. There isn\u2019t a clear, single functional theme that cohesively ties all proteins, so a concise, representative cluster name cannot be reliably assigned.","confidence":"","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA recombination","top_go_terms":[{"id":"GO:0014912","count":5},{"id":"GO:0006284","count":4},{"id":"GO:0042493","count":4},{"id":"GO:2000327","count":4},{"id":"GO:0007568","count":4}]},{"hash":"724703786532999242","title":"mRNA processing and translation initiation regulation","description":"This cluster centers on mRNA maturation and stability (polyadenylation, RNA modification) and on translation control (formation of the preinitiation complex, reinitiation, IRES-dependent initiation), with ties to stress responses and ncRNA-mediated silencing. The convergence of these GO terms suggests a cohesive role in post-transcriptional gene expression regulation, particularly mRNA processing and translation initiation, including viral strategies.","confidence":"High","size":18,"edges":152,"triangles":800,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":16},{"id":"GO:0006378","count":13},{"id":"GO:0075525","count":11},{"id":"GO:1900363","count":11},{"id":"GO:0075522","count":11}]},{"hash":"1650117688988749424","title":"Neurovascular development and function","description":"The top GO terms mix neural signaling (short-term memory, long-term synaptic potentiation) with vascular/developmental processes (angiogenesis, endothelial migration, kidney development, blood coagulation), suggesting a cluster of proteins involved in coordinated neurovascular development and function rather than a single narrow role. Some terms are broader regulatory processes, but the overall theme centers on neural activity intertwined with vascular development.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007614","count":5},{"id":"GO:0002027","count":5},{"id":"GO:0060291","count":5},{"id":"GO:0001525","count":4},{"id":"GO:0000278","count":4}]},{"hash":"566541776943204518","title":"Vertebrate embryonic development and tissue differentiation","description":"This cluster centers on developmental processes across multiple tissues, with GO terms including somitogenesis, floor plate and amacrine cell differentiation, lung and cardiac vascular smooth muscle development, and transcription by RNA polymerase II, suggesting a cohesive theme of gene regulation driving embryonic development and lineage specification. Some terms (e.g., stomatal complex development) may reflect cross-kingdom annotations, but the dominant pattern is vertebrate developmental differentiation.","confidence":"High","size":18,"edges":151,"triangles":785,"max_degree":17,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":13},{"id":"GO:0035881","count":10},{"id":"GO:0042981","count":10},{"id":"GO:0033504","count":10},{"id":"GO:0060426","count":10}]},{"hash":"820984471832650015","title":"Unknown","description":"The top GO terms span diverse functions (DNA damage tolerance, peroxisomal import, protein modification, neuronal development, chromatin regulation, chromosome segregation, NF-kappaB signaling, and synapse assembly) with no clear, single shared theme. Because there isn\u2019t a cohesive biological function tying these terms together, a simple, representative label cannot be defined beyond Unknown.","confidence":"","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0070987","count":18},{"id":"GO:0016562","count":18},{"id":"GO:0045116","count":18},{"id":"GO:0010976","count":18},{"id":"GO:0061186","count":18}]},{"hash":"280122642388476049","title":"Neuro-sensory and endocrine development","description":"The proteins are enriched for brain/midbrain development, inner ear (cochlea) morphogenesis, pituitary and male gonad development, and broader multicellular development, with transcriptional regulation as a common thread, pointing to vertebrate neuro-sensory and endocrine organ formation.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0030901","count":7},{"id":"GO:0007275","count":6},{"id":"GO:0021882","count":6},{"id":"GO:0021983","count":6}]},{"hash":"820314393176947420","title":"Immune signaling and megakaryopoiesis","description":"The cluster\u2019s top GO terms center on immune signaling (negative regulation of T cell receptor signaling, integrin signaling, NF-kappaB activity), cytokine production (IL-3, GM-CSF), Kit signaling, and megakaryocyte development, with angiogenesis also appearing. This pattern suggests a cohesive module linking immune cell signaling with hematopoietic/megakaryocyte differentiation rather than a single isolated pathway.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050860","count":15},{"id":"GO:0007229","count":14},{"id":"GO:0035023","count":13},{"id":"GO:0045401","count":12},{"id":"GO:0001525","count":12}]},{"hash":"596728400901177393","title":"Neural and Eye Development","description":"The cluster is enriched for neural and ocular development terms (retina, forebrain, brain, lens fiber differentiation) and multicellular organism development, suggesting these proteins coordinately drive eye/brain development; ubiquitin-dependent degradation terms may reflect general proteostasis during development.","confidence":"High","size":18,"edges":3,"triangles":0,"max_degree":2,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0060041","count":7},{"id":"GO:0030900","count":6},{"id":"GO:0007420","count":6},{"id":"GO:0042787","count":6}]},{"hash":"1013844162991307883","title":"Ubiquitin-Dependent Proteolysis & Cell Cycle Regulation","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes (ERAD, SCF-dependent proteasomal degradation, protein polyubiquitination) and by cell-cycle related signals (G1 DNA damage checkpoint, spindle assembly in meiosis, oocyte maturation). The strongest, recurring theme is the ubiquitin-proteasome system coordinating protein turnover during cell-cycle progression and stress responses, including apoptosis regulation. Confidence: High","confidence":"","size":18,"edges":4,"triangles":0,"max_degree":2,"top_function":"chromatin organization","top_go_terms":[{"id":"GO:0042787","count":13},{"id":"GO:0030433","count":11},{"id":"GO:0031146","count":9},{"id":"GO:1903378","count":8},{"id":"GO:0031571","count":8}]},{"hash":"307217676847418618","title":"mRNA Splicing and Translation Initiation Regulation","description":"Proteins in this cluster are dominated by GO terms related to spliceosome-mediated splicing and its regulation, plus roles in mRNA stability under stress and the early stages of translation (preinitiation complex formation, translation reinitiation, and IRES-dependent initiation). The prominent clustering of spliceosome-related processes with translation initiation factors and viral translation terms suggests a cohesive module coordinating mRNA processing with the initiation of translation, including viral contexts.","confidence":"High","size":18,"edges":153,"triangles":816,"max_degree":17,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":9},{"id":"GO:0048025","count":7},{"id":"GO:0048260","count":6},{"id":"GO:0000398","count":5},{"id":"GO:0048024","count":5}]},{"hash":"1184471362739399337","title":"Cytoskeleton and differentiation in skin and neurons","description":"The cluster centers on cytoskeletal organization and transport, with strong terms for microtubule polarity maintenance, neurofilament bundle assembly, and axonal mitochondrial transport, alongside skin/hair differentiation processes like keratinization and the hair cycle. While a few terms (hepatocyte apoptosis, mesenchymal proliferation) are broader or less connected, the dominant theme ties to cytoskeletal dynamics underpinning differentiation in skin and neuronal contexts.","confidence":"Medium","size":18,"edges":26,"triangles":8,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0097284","count":6},{"id":"GO:0031424","count":6},{"id":"GO:0043000","count":4},{"id":"GO:0090343","count":4},{"id":"GO:0019896","count":4}]},{"hash":"2130513460425743740","title":"Diverse solute transmembrane transporters","description":"The GO terms show transport across membranes for many different substrates (nitrate, phosphate, arabinose, galactose, vitamins, xenobiotics, 4-hydroxyphenylacetate, potassium) and include neurotransmitter loading into synaptic vesicles, indicating a cluster of membrane transporter proteins with broad or multi-substrate specificity rather than a single narrow function.","confidence":"High","size":18,"edges":18,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":8},{"id":"GO:0042128","count":8},{"id":"GO:0015706","count":8},{"id":"GO:0006855","count":8},{"id":"GO:0015757","count":8}]},{"hash":"2219974972814128246","title":"Developmental signaling and vesicle trafficking","description":"This cluster centers on genes involved in development (forebrain morphogenesis, metanephros development, multicellular organism development) and key signaling pathways (SMAD signaling, AKT activation), alongside vesicle trafficking processes (endosome organization, protein localization to Golgi) and GTPase regulation. The combination suggests proteins that coordinate intracellular trafficking with developmental signaling during organogenesis, hence a cohesive theme around development and vesicle trafficking.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007032","count":3},{"id":"GO:0006915","count":2},{"id":"GO:0000042","count":2},{"id":"GO:0007184","count":2}]},{"hash":"115329221565985173","title":"Actin Cytoskeleton Dynamics and Cell Motility","description":"The cluster is dominated by GO terms for actin filament regulation and assembly (barbed-end capping, lamellipodium and filopodium assembly, actin cytoskeleton organization) and GTPase activation, which together point to remodeling of the actin cytoskeleton to drive protrusive structures and movement. Additional terms for microtubule-based movement and related signaling support this motif, while a few outliers (insulin signaling, spinal cord development, innate immune response) are less central. Overall, the core theme is actin-driven cytoskeleton remodeling and motility.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0051016","count":5},{"id":"GO:0030032","count":4},{"id":"GO:0046847","count":4},{"id":"GO:0090630","count":4},{"id":"GO:0030036","count":4}]},{"hash":"1141550059032000972","title":"Adhesion-driven neural development with immune regulation","description":"This cluster is dominated by GO terms for cell-cell adhesion (homophilic/heterophilic) and actin cytoskeleton organization linked to adhesion, plus neural development cues like neural crest migration and sympathetic neuron projection. While there are accompanying immune-regulatory terms (e.g., negative regulation of macrophage activation and NK cell activity), the strongest signal centers on adhesion and neural development, with immune modulation as a secondary aspect.","confidence":"Medium","size":18,"edges":50,"triangles":27,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007157","count":9},{"id":"GO:0046718","count":8},{"id":"GO:0036486","count":8},{"id":"GO:0043031","count":8},{"id":"GO:0007156","count":8}]},{"hash":"1155157808644536843","title":"Antibiotic and specialized metabolite biosynthesis","description":"This cluster centers on multiple biosynthetic and metabolic pathways for diverse small molecules, including antibiotic biosynthesis, alkaloid biosynthesis, retinoid/retinal metabolism, and PHB and lipid-related metabolism, suggesting a general theme of specialized metabolite production and associated processes.","confidence":"Medium","size":18,"edges":12,"triangles":5,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0046677","count":5},{"id":"GO:0055114","count":5},{"id":"GO:0042619","count":5},{"id":"GO:0006355","count":4},{"id":"GO:0017000","count":4}]},{"hash":"466448627899013792","title":"Mitochondrial Energy Production and Genome Maintenance","description":"This cluster is dominated by GO terms tied to mitochondria: mitochondrial morphogenesis, mitochondrial protein synthesis (glycyl-tRNA aminoacylation), and the respiratory electron transport chain, which together point to mitochondrial energy metabolism and biogenesis. Additional terms cover DNA repair and DNA biosynthesis, which can reflect maintenance of the mitochondrial genome or related cellular processes. Some terms are labeled obsolete in GO, but the core themes remain mitochondrial function and stress responses (e.g., response to cold). Overall, the proteins appear to participate in mitochondrial energy production and genome maintenance.","confidence":"High","size":18,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001300","count":4},{"id":"GO:0070584","count":3},{"id":"GO:1903833","count":3},{"id":"GO:0006281","count":2},{"id":"GO:0070150","count":2}]},{"hash":"1956520321396651439","title":"Gene Expression Regulation and Chromatin Modification","description":"This cluster centers on DNA-templated transcription and histone methylation, with TORC1 signaling and serine dephosphorylation indicating regulation of gene expression and protein activities. While vesicle trafficking terms (ER-Golgi transport) and some growth-related terms appear, the strongest signal is transcriptional control and chromatin state, suggesting a coherent theme of gene expression regulation in a TOR-influenced growth context.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":6},{"id":"GO:0038202","count":4},{"id":"GO:0006888","count":4},{"id":"GO:0051568","count":4},{"id":"GO:0070262","count":4}]},{"hash":"35773873701028405","title":"Neurovascular Signaling","description":"The top GO terms point to signaling and regulatory processes linked to neural and vascular function, such as GPCR signaling, adenylate cyclase activation, and ERK cascade regulation, along with blood pressure regulation, enteric nervous system development, and locomotory behavior. While energy metabolism (electron transport chain) and xenobiotic responses appear less tightly connected, the dominant pattern suggests a cluster of proteins involved in neural and vascular signaling and regulation.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0045777","count":8},{"id":"GO:0090026","count":7},{"id":"GO:0022900","count":7},{"id":"GO:0010579","count":7},{"id":"GO:0070374","count":7}]},{"hash":"15228198989835677","title":"ER-Golgi vesicle trafficking and signaling","description":"The top GO terms cluster around intracellular trafficking within the secretory pathway (ER to Golgi transport and retrograde endosome-to-Golgi transport), suggesting a core function in vesicle trafficking. Additional terms point to intracellular signaling and cell growth, plus a note on proteasome assembly, which can relate to protein turnover linked to trafficking and quality control. Overall, the dominant theme is movement of cargo through the endomembrane system with supportive roles for signaling and growth processes, justifying a label centered on vesicle trafficking within the ER-Golgi network.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0090190","count":2},{"id":"GO:0097284","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0070682","count":2}]},{"hash":"98957201304078862","title":"Ubiquitin-dependent protein turnover and transcription regulation","description":"Top terms indicate a strong pull toward ubiquitination and ubiquitin-dependent protein degradation (protein ubiquitination, ubiquitin-dependent protein catabolic process, ERAD pathway), with some context on transcriptional regulation and immune-related processes (negative regulation of transcription by RNA Pol II, T cell homeostasis, spleen development). This suggests a cohesive theme around the ubiquitin-proteasome system influencing gene expression and immune-related pathways, though the presence of obsolete terms adds some ambiguity. ","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0030433","count":6},{"id":"GO:0048536","count":6},{"id":"GO:0033280","count":6},{"id":"GO:0016567","count":6},{"id":"GO:0000122","count":6}]},{"hash":"1622645537923821161","title":"Neural Development and Sensory Signaling","description":"The cluster shows strong representation of neural development and sensory processing: neural tube closure, labyrinthine layer morphogenesis (inner ear development), visual perception, synaptic plasticity (LTD/LTP), and social behavior, with innate immune responses typical of CNS environments; together these terms point to development and functioning of neural circuits and sensory systems.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060670","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0050908","count":2},{"id":"GO:0060292","count":2},{"id":"GO:0035176","count":2}]},{"hash":"1089095946014820183","title":"Embryonic Development and Growth Factor Signaling","description":"The top GO terms mainly point to embryonic development (proepicardium and mesendoderm) and cellular responses to growth factors (EGF, GM-CSF) and signaling via the p38 MAPK cascade. The presence of RNA processing terms (snoRNA splicing, deadenylation-dependent decay, mRNA localization) suggests accompanying post-transcriptional regulation typical in developmental programs. This supports a theme of developmental signaling with RNA metabolism.","confidence":"Medium","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0003342","count":6},{"id":"GO:0046782","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0045085","count":5},{"id":"GO:0034247","count":5}]},{"hash":"579589343769363350","title":"GPCR-Rho-Actin Signaling","description":"The cluster centers on GPCR-mediated signaling and Rho GTPase activation, with shared involvement in tachykinin and acetylcholine receptor pathways and actin cytoskeleton remodeling. This pattern, together with linked processes like cardiac muscle contraction and vascular remodeling, suggests a cohesive theme of GPCR-driven Rho-actin dynamics affecting muscle, vascular physiology, and development.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0090630","count":3},{"id":"GO:0007217","count":2},{"id":"GO:0043314","count":2},{"id":"GO:0060048","count":2}]},{"hash":"1262082896580272875","title":"Vacuolar ATPase\u2013driven acidification and protein turnover","description":"The terms point to a cohesive vacuolar function: assembly and activity of the V-type ATPase driving proton pumping and acidification, coupled with proton transmembrane transport, and coupled to vacuolar protein catabolic processes and related excretion/trafficking activities. Polyphosphate metabolism may also relate to vacuolar storage and metabolism, with a few peripheral signals (pinocytosis regulation, Rho signaling) indicating broader membrane trafficking context. Overall, the cluster centers on vacuolar acidification and degradation pathways.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015986","count":3},{"id":"GO:0070072","count":3},{"id":"GO:0007039","count":3},{"id":"GO:0007035","count":3},{"id":"GO:0015991","count":3}]},{"hash":"1545095268301287807","title":"Insulin/IGF Signaling and Metabolic Regulation","description":"This cluster is dominated by GO terms tied to insulin and IGF receptor signaling, including insulin receptor signaling pathway and insulin-like growth factor receptor signaling pathway, along with downstream metabolic processes like glycogen biosynthesis, fatty acid beta-oxidation, and fatty acid import regulation. The mammary gland development term also fits with IGF signaling roles in growth. Some terms may be peripheral or annotation artefacts (e.g., infection structure formation, polyglutamylation), but the core theme is insulin/IGF signaling coordinating metabolism.","confidence":"High","size":18,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048009","count":3},{"id":"GO:0075015","count":3},{"id":"GO:0018095","count":2},{"id":"GO:0030879","count":2},{"id":"GO:0045725","count":2}]},{"hash":"1397550504065725032","title":"Skin lipid metabolism and adipogenesis","description":"Top GO terms point to lipid biosynthesis and skin-related differentiation (unsaturated fatty acid biosynthesis, sphinganine metabolism, sebaceous gland differentiation, white fat cell differentiation), suggesting a theme of skin lipid production linked to adipocyte differentiation. Some terms are obsolete or peripheral (water loss regulation, nitrate assimilation), but the core signal is lipid metabolism connected to skin/adipose function.","confidence":"Medium","size":17,"edges":28,"triangles":0,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0042128","count":3},{"id":"GO:0006667","count":3},{"id":"GO:0050872","count":3},{"id":"GO:0000001","count":3},{"id":"GO:0006636","count":3}]},{"hash":"1328238294574866020","title":"Plant cell wall biosynthesis and glycosylation","description":"The cluster is enriched for plant-specific cell wall processes (glucuronoxylan, mucilage, plant-type secondary cell wall biogenesis, and general cell wall organization) and several glycosylation pathways, indicating production and modification of wall polysaccharides and wall-associated glycoproteins. Some terms (cholesterol biosynthesis, skeletal muscle regeneration) appear less related and may be noise or broader metabolic context, but the dominant signal points to plant cell wall biosynthesis and glycosylation.","confidence":"High","size":17,"edges":46,"triangles":57,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":3},{"id":"GO:0016266","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0035269","count":3}]},{"hash":"429563373843281838","title":"Ubiquitin-Proteasome Regulation of Mitosis","description":"Most terms cluster around ubiquitin-dependent protein degradation and cell-cycle control (mitosis, G2/M). The presence of SCF-dependent ubiquitination, K11-linked ubiquitination, autoubiquitination, and ERAD links to proteasomal degradation, while NER and translesion synthesis point to genome maintenance roles. Taken together, the proteins likely function in ubiquitin-regulated proteolysis coordinating mitosis and DNA damage responses.","confidence":"High","size":17,"edges":129,"triangles":586,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":14},{"id":"GO:0000086","count":14},{"id":"GO:0031146","count":14},{"id":"GO:0001701","count":14},{"id":"GO:0070979","count":14}]},{"hash":"2216057058846893720","title":"Lipid Biosynthesis and Energy Metabolism","description":"This cluster centers on sterol and fatty acid biosynthesis (cholesterol, ergosterol, lathosterol; fatty acid biosynthetic process) and energy-related processes (proton transmembrane transport, aerobic respiration), suggesting a unified role in lipid production and membrane energetics. The inclusion of terms tied to lipid-rich tissues like sebaceous glands and myelin maintenance supports this theme, while a few immune-related terms may be less directly connected. Overall, the dominant signal is lipid metabolism coupled to energy production.","confidence":"Medium","size":17,"edges":18,"triangles":3,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":4},{"id":"GO:0009060","count":3},{"id":"GO:0001949","count":3},{"id":"GO:0080065","count":3},{"id":"GO:0033490","count":3}]},{"hash":"2199035904428484126","title":"ER Stress and Protein Quality Control","description":"The top terms cluster around ER-associated degradation (ERAD), unfolded protein response, translation upregulation during ER stress, and heat/ER stress responses, all pointing to cellular proteostasis under ER stress and protein maturation/refolding. Some terms about mesoderm formation or parathyroid hormone signaling appear ancillary, but the core signal is proteostasis in the ER.","confidence":"High","size":17,"edges":19,"triangles":2,"max_degree":7,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030433","count":7},{"id":"GO:0031204","count":6},{"id":"GO:0070389","count":6},{"id":"GO:0001707","count":6},{"id":"GO:1900035","count":6}]},{"hash":"786285459868085354","title":"Cardiac mesoderm development","description":"The cluster shows strong representation of heart development and mesoderm formation, suggesting members involved in cardiac lineage specification. Supporting terms related to transcription regulation and protein folding imply broader regulatory and quality-control roles during development, aligning with a cardiac-development\u2013focused cluster.","confidence":"Medium","size":17,"edges":19,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0006469","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0045794","count":2},{"id":"GO:0006368","count":1},{"id":"GO:0048096","count":1}]},{"hash":"812688222859782585","title":"Microtubule dynamics and transport","description":"This cluster is dominated by GO terms for microtubule organization and motion, including minus- and plus-end microtubule activities, vesicle transport along microtubules, and maintenance of cytoskeleton polarity, as well as nuclear migration along microtubules and related processes. The cerebellar granular layer structural organization term suggests tissue-specific cytoskeletal arrangement in neurons, reinforcing the microtubule-centric theme.","confidence":"High","size":17,"edges":118,"triangles":467,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":17},{"id":"GO:0031534","count":17},{"id":"GO:0072383","count":17},{"id":"GO:0000743","count":17},{"id":"GO:0035617","count":17}]},{"hash":"826578120978102225","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":113,"triangles":424,"max_degree":16,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019236","count":13},{"id":"GO:0060271","count":13},{"id":"GO:0007117","count":13},{"id":"GO:1905869","count":13},{"id":"GO:0035330","count":13}]},{"hash":"1367725613459298126","title":"Neural development and transcriptional regulation","description":"The top GO terms cluster around developmental processes (multicellular organism development, forebrain development, neural tube closure) and transcription-related activity (DNA-templated transcription, mitotic cell cycle), suggesting proteins coordinating gene expression during neural development. Occasional stress/immune terms (cadmium response, defense against Gram-positive bacteria) may reflect broader regulatory roles, but the core signal remains developmental transcriptional control.","confidence":"Medium","size":17,"edges":3,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":13},{"id":"GO:0007275","count":12},{"id":"GO:0006349","count":10},{"id":"GO:0030900","count":10},{"id":"GO:0001403","count":10}]},{"hash":"706221943242626000","title":"Immune Signaling Modulation","description":"The top GO terms point to regulation of T cell receptor signaling, MAPK/ERK cascades, TLR9 signaling, and B cell differentiation, with some relation to granzyme B production and immune signaling cross-talk. This suggests a cohesive theme of modulating both adaptive and innate immune pathways and cytotoxic responses, despite one peripheral growth factor signaling term. ","confidence":"High","size":17,"edges":116,"triangles":437,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0050860","count":17},{"id":"GO:0000200","count":17},{"id":"GO:0070373","count":17},{"id":"GO:0098902","count":10},{"id":"GO:0060336","count":10}]},{"hash":"900280225205847638","title":"Neural crest and sensory organ development","description":"The GO terms cluster around neural crest cell migration and differentiation, development of sensory structures (otic placode), components of the peripheral nervous system (sympathetic neuron projections, vestibulocochlear nerve organization, autonomic NS development), and related PDGF/RTK signaling, suggesting a cohesive theme of neural crest\u2013driven PNS and sensory organ morphogenesis. Some terms like complement activation appear tangential but do not override the main developmental pattern. ","confidence":"High","size":17,"edges":72,"triangles":164,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0001867","count":11},{"id":"GO:0007171","count":8},{"id":"GO:0048008","count":8},{"id":"GO:1905040","count":7},{"id":"GO:0060982","count":7}]},{"hash":"2077349041659569153","title":"Golgi-to-plasma membrane transport and Rho signaling","description":"This cluster centers on membrane-associated processes: Golgi-to-plasma membrane transport and protein targeting to membranes, aided by palmitoylation. The presence of Rho signaling and semaphorin-plexin pathway terms suggests coordinated signaling at the plasma membrane that interfaces with cytoskeletal regulation and membrane trafficking. A few terms reflect broader stress responses, but the dominant theme is membrane trafficking combined with signaling regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":3},{"id":"GO:0018230","count":3},{"id":"GO:0006612","count":3},{"id":"GO:0071260","count":2},{"id":"GO:0032889","count":1}]},{"hash":"774108937380355171","title":"Unknown","description":"The top GO terms span a wide range of processes, including unfolded protein response, dsRNA response, transcriptional regulation, cell cycle transitions, hormone signaling, and metabolic regulation, with several entries marked obsolete. There is no clear, single function that unifies these terms, making it difficult to assign a specific, coherent role to the cluster. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:2000531","count":7},{"id":"GO:0006986","count":7},{"id":"GO:0071360","count":7},{"id":"GO:0031400","count":7},{"id":"GO:0007091","count":7}]},{"hash":"348081421257598220","title":"Developmental Signaling in Epithelial and Neural Morphogenesis","description":"This cluster highlights signaling and regulatory processes tied to tissue morphogenesis, including VEGF responses, PI3K-AKT and JNK pathways, epithelial proliferation in mammary and lung tissues, and neural development events such as axon extension and neuron maturation, all pointing to coordinated developmental signaling across epithelia, neurons, and vasculature.","confidence":"High","size":17,"edges":14,"triangles":5,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":17},{"id":"GO:0090188","count":17},{"id":"GO:0035924","count":17},{"id":"GO:0046330","count":17},{"id":"GO:0045056","count":17}]},{"hash":"334919470708336010","title":"Actin dynamics, endocytosis, and polarity signaling","description":"The cluster is enriched for actin filament organization and endocytosis, with additional terms pointing to regulation of GTPase activity, tyrosine phosphorylation, and cell polarity. This suggests a cohesive role in cytoskeletal remodeling and vesicle trafficking that interfaces with signaling pathways, including TGF-beta and interferon-mediated responses, aligning actin dynamics with cellular signaling and polarity processes.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":6},{"id":"GO:0051016","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0050731","count":5},{"id":"GO:0007015","count":4}]},{"hash":"1870127550054884990","title":"Neurovascular axon guidance and vascular development","description":"This cluster centers on axon extension and guidance terms (axon extension and positive regulation of axon extension; paranodal/juxtaparanodal localization) alongside vascular development terms (coronary artery morphogenesis, endothelial cell chemotaxis, smooth muscle cell migration, paranodal junction assembly). The combination suggests proteins involved in coordinated neurovascular development and patterning, rather than a single isolated pathway.","confidence":"High","size":17,"edges":55,"triangles":30,"max_degree":11,"top_function":"carbohydrate metabolic process","top_go_terms":[{"id":"GO:0060982","count":9},{"id":"GO:0048846","count":9},{"id":"GO:0048842","count":9},{"id":"GO:0014909","count":9},{"id":"GO:0002175","count":8}]},{"hash":"1163402662691310096","title":"Innate Immune Signaling and Cytoskeletal Remodeling","description":"The top GO terms cluster around innate immune pathways (NF-kappaB, JNK, necroptosis), responses to microbial components (dsRNA, lipoteichoic acid), and nitric oxide production, alongside cytoskeletal/adhesion processes (Rho signaling, sarcomere organization, cell adhesion). This suggests a coordinated theme of inflammatory signaling linked to cytoskeletal dynamics and cell interactions.","confidence":"Medium","size":17,"edges":34,"triangles":0,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045429","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0051092","count":6},{"id":"GO:0097527","count":6},{"id":"GO:0045214","count":5}]},{"hash":"1690121792441830663","title":"Actin Cytoskeleton Remodeling and Filopodium Dynamics","description":"The set is dominated by GO terms tied to actin-based protrusions and cytoskeleton reorganization, including filopodium and podosome assembly, and regulation of these structures. It also includes small GTPase\u2013driven signaling, mechanical stimulus response, substrate adhesion-dependent spreading, and cell polarity, pointing to coordinated actin remodeling that governs cell shape, adhesion, and mechanosensing, with a note of dendritic spine development reflecting neuronal actin dynamics. This cohesive theme best fits a label focused on actin dynamics and protrusion formation.","confidence":"High","size":17,"edges":10,"triangles":3,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046847","count":7},{"id":"GO:0071803","count":6},{"id":"GO:0071260","count":6},{"id":"GO:0051489","count":6},{"id":"GO:0031532","count":6}]},{"hash":"800382519130663428","title":"Transcriptional Regulation of Development and Differentiation","description":"The cluster is dominated by transcriptional activity (RNA polymerase II) and multiple differentiation programs (osteoblast, plasma cell, fat cell) and developmental patterning terms, suggesting a core role in gene expression control guiding cell fate and development. Some stress and lipid metabolism signals are present, but the common thread appears to be transcriptional governance of differentiation. ","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":15},{"id":"GO:0045669","count":9},{"id":"GO:1900100","count":8},{"id":"GO:1990442","count":8},{"id":"GO:0007381","count":8}]},{"hash":"936385240989454548","title":"Embryonic Organogenesis and Neural Differentiation","description":"The cluster\u2019s terms cluster around transcriptional regulation during development, with strong signals for neural differentiation (amacrine and GABAergic interneurons, oligodendrocyte fate) and broad organogenesis across pancreas, lung, floor plate, and somitogenesis, plus vascular development\u2014pointing to a cohesive theme of multisystem embryonic development and tissue specialization.","confidence":"High","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":16},{"id":"GO:0035470","count":8},{"id":"GO:0035881","count":8},{"id":"GO:0021530","count":8},{"id":"GO:0021892","count":8}]},{"hash":"911722391031676849","title":"Splicing Regulation and Translational Control","description":"Top terms point to spliceosome-mediated regulation of mRNA splicing (positive and negative) and general mRNA processing, with additional links to mRNA stability under stress and viral translation mechanisms (IRES-dependent initiation and translation reinitiation). This suggests a cohesive module of proteins involved in RNA maturation and downstream translation control, potentially including regulatory ncRNAs. Confidence: High","confidence":"","size":17,"edges":70,"triangles":75,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":13},{"id":"GO:0031047","count":13},{"id":"GO:0006378","count":11},{"id":"GO:0048025","count":11},{"id":"GO:0010610","count":11}]},{"hash":"1566789406466902062","title":"Cardiac development and transcriptional regulation","description":"The top GO terms show a strong emphasis on transcription by RNA polymerase II and regulation of transcription, with several items linked to heart development and outflow tract morphogenesis (e.g., sinus venosus morphogenesis, cardiac vascular smooth muscle development, regulation of heart rate). While a few terms relate to other processes (stomatal development, pigmentation, humoral immune response), the prevailing signal is toward cardiac development and transcriptional control, suggesting these proteins participate in heart morphogenesis and gene expression regulation.","confidence":"Medium","size":17,"edges":136,"triangles":680,"max_degree":16,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006366","count":14},{"id":"GO:2000820","count":11},{"id":"GO:2000227","count":10},{"id":"GO:0060948","count":10},{"id":"GO:0010374","count":10}]},{"hash":"2001218478463219164","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":25,"triangles":11,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0046110","count":2},{"id":"GO:0032869","count":2},{"id":"GO:0006223","count":2},{"id":"GO:0006178","count":2}]},{"hash":"445596931821206117","title":"ERAD-Proteostasis and Autophagy","description":"The cluster is dominated by terms tied to protein quality control and degradation: ubiquitin-dependent ERAD pathways, aggrephagy, and related proteostasis processes (including protein deglycosylation and unfolded protein maintenance). While a few items touch on cell cycle or signaling, the strongest connections point to proteostasis networks that manage misfolded proteins via ER-associated degradation and autophagic clearance, aligning these proteins into a cohesive degradation/maintenance theme.","confidence":"High","size":17,"edges":128,"triangles":568,"max_degree":16,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":8},{"id":"GO:0034140","count":5},{"id":"GO:2000157","count":4},{"id":"GO:0035973","count":4},{"id":"GO:0006517","count":4}]},{"hash":"198919028758019965","title":"Developmental transcriptional regulators across organs","description":"These proteins appear involved in controlling transcription during development across several organ systems, as shown by GO terms for transcription regulation (negative regulation of transcription by RNA polymerase II; DNA-templated transcription) combined with organogenesis terms (hypothalamus and habenula development, neural crest migration, odontogenesis, palate formation, pancreas development, ureteric bud morphogenesis). The theme is broad developmental transcriptional regulation rather than a single tissue-specific process.","confidence":"High","size":17,"edges":34,"triangles":8,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":9},{"id":"GO:0031018","count":6},{"id":"GO:0060021","count":6},{"id":"GO:0006351","count":6},{"id":"GO:0021979","count":5}]},{"hash":"1780587623327008649","title":"Bacterial teichoic acid and cell wall biosynthesis","description":"This cluster is dominated by terms for teichoic acid biosynthesis and cell wall organization, plus multiple UDP-sugar metabolic processes (e.g., UDP-Glucose, UDP-N-acetylglucosamine), pointing to synthesis and modification of bacterial cell wall polysaccharides and teichoic acids rather than intracellular signaling. The proteoglycan biosynthesis terms likely reflect shared glycosylation pathways but the clearest signal is cell wall biosynthesis.","confidence":"High","size":17,"edges":10,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0019350","count":6},{"id":"GO:0071555","count":5},{"id":"GO:0006044","count":5},{"id":"GO:0006011","count":3},{"id":"GO:0052573","count":3}]},{"hash":"956442431659623067","title":"ER Stress and Protein Folding","description":"This cluster centers on endoplasmic reticulum\u2013based proteostasis: ER protein folding, unfolded protein response, and redox/oxidant detoxification. Key terms include cellular redox homeostasis, protein folding in the ER, response to unfolded protein, and ER-stress\u2013driven translation regulation, all pointing to a coordinated ER quality-control network. ER translocation and membrane targeting terms further support an ER-centric function, while mesoderm formation may be incidental. Overall, the proteins appear to orchestrate ER proteostasis and redox balance under stress.","confidence":"High","size":17,"edges":75,"triangles":161,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045454","count":14},{"id":"GO:0034975","count":11},{"id":"GO:0055114","count":8},{"id":"GO:0098869","count":8},{"id":"GO:0070389","count":8}]},{"hash":"1004872062970695242","title":"Telomere maintenance and ubiquitin-mediated regulation","description":"These proteins cluster around nuclear genome maintenance and proteostasis: telomere maintenance, localization to telomeric regions, DNA-templated transcription, and ubiquitin-dependent protein catabolic processes/ubiquitination. Some outliers (e.g., differentiation or B cell signaling terms) likely reflect annotation noise, but the core theme points to chromosomal maintenance and protein turnover. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1904357","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0060707","count":5},{"id":"GO:0042787","count":4},{"id":"GO:0071260","count":4}]},{"hash":"171933439468259703","title":"Steroid signaling and actin remodeling","description":"This cluster combines terms tied to cell cycle and division with strong signals for actin cytoskeleton dynamics (nucleation, polymerization, filopodium assembly, capping) and with male/hormonal development terms (prostate gland development, male sex differentiation, steroid hormone receptor complex assembly). The common thread appears to be hormonal regulation of cell growth and differentiation coupled to cytoskeletal remodeling, especially actin, which fits processes like prostate development and general cell proliferation. Confidence: Medium","confidence":"","size":17,"edges":19,"triangles":1,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0046661","count":2},{"id":"GO:0030850","count":2},{"id":"GO:0007049","count":2},{"id":"GO:0006463","count":2}]},{"hash":"174438512539773899","title":"TGF-beta/Wnt-regulated musculoskeletal differentiation","description":"This cluster centers on mesenchymal/stem cell differentiation into musculoskeletal lineages (bone, cartilage, muscle), governed by TGF-beta signaling and modulation of Wnt pathways, with transcriptional control and regulatory checks (sumoylation, apoptotic signaling). The presence of chondrocyte and skeletal muscle differentiation terms anchors this theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":4},{"id":"GO:0090090","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0033234","count":3},{"id":"GO:1902042","count":3}]},{"hash":"1687647365594417314","title":"Actin-driven migration and cytoskeletal remodeling","description":"This cluster is dominated by terms on actin cytoskeleton organization and motility, including lamellipodium and filopodium assembly and cell migration, pointing to actin-driven motility. Regulators of Rho and Ras signaling, plus insulin signaling, fit the theme of signaling controls over cytoskeletal dynamics. Some terms touch on development and immune processes, suggesting broader roles for these proteins but the core signal is cytoskeletal remodeling driving movement.","confidence":"Medium","size":17,"edges":31,"triangles":8,"max_degree":10,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030032","count":13},{"id":"GO:0046847","count":13},{"id":"GO:0032287","count":13},{"id":"GO:0030036","count":13},{"id":"GO:0016477","count":13}]},{"hash":"2219704200253475755","title":"Neuronal signaling and synapse formation","description":"Predominant themes are neuronal signaling and synapse development: insulin receptor signaling, ephrin and neurotrophin TRK receptor pathways, dendritic spine morphogenesis, and positive regulation of synapse assembly. The retinoic acid response further supports neuronal differentiation, while chromatin remodeling and apoptotic processes may reflect broader cellular regulation within neural cells. Taken together, the cluster likely represents neural signaling and synapse formation activities.","confidence":"High","size":17,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008286","count":4},{"id":"GO:0050798","count":3},{"id":"GO:0060997","count":3},{"id":"GO:0048013","count":3},{"id":"GO:0006915","count":3}]},{"hash":"400161962624174740","title":"Oligodendrocyte differentiation and signaling","description":"The prominent term oligodendrocyte differentiation dominates, with Wnt and TGF-beta signaling and proliferation-related terms, indicating a cluster focused on oligodendrocyte lineage development and its regulatory signaling. Some terms like mRNA transport and hypoxia response may reflect broader cellular context rather than core function.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048709","count":5},{"id":"GO:0051260","count":5},{"id":"GO:0050966","count":5},{"id":"GO:0071560","count":4},{"id":"GO:0000278","count":4}]},{"hash":"1618145566198804879","title":"Ribosome biogenesis and translation","description":"The top GO terms center on translation and ribosome biogenesis (translation, cytoplasmic translation, ribosome biogenesis, ribosomal subunit biogenesis, maturation of SSU/LSU rRNA), indicating proteins primarily involved in ribosome production and protein synthesis. A few entries reference antibiotic response, but the dominant signal is ribosome-related.","confidence":"High","size":17,"edges":134,"triangles":651,"max_degree":16,"top_function":"cytoplasmic translation","top_go_terms":[{"id":"GO:0006412","count":15},{"id":"GO:0000027","count":5},{"id":"GO:0002181","count":5},{"id":"GO:0042254","count":3},{"id":"GO:0000462","count":3}]},{"hash":"1614431275228624174","title":"GTPase-regulated endocytosis and vesicle trafficking","description":"This cluster is dominated by terms related to endocytosis and vesicle transport, including small GTPase\u2013mediated signaling, endosome/endocytic trafficking, and ER-Golgi transport, suggesting proteins functioning in GTPase-regulated vesicle trafficking and endocytosis.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006897","count":4},{"id":"GO:1900026","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0007264","count":3},{"id":"GO:0006623","count":2}]},{"hash":"1787341714884730720","title":"Unknown","description":"GO terms show a mix of neural development (neuroblast differentiation, synapse organization), hormone/xenobiotic responses, and multiple unrelated metabolic processes (lipids, choline, cholesterol esters) plus plant-specific signaling and cellulose catabolism. The dispersed, non-overlapping functions and lack of a shared pathway make it hard to assign a single coherent function to the cluster.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014016","count":1},{"id":"GO:0009939","count":1},{"id":"GO:0006361","count":1},{"id":"GO:0042493","count":1},{"id":"GO:0050808","count":1}]},{"hash":"1051380188640666979","title":"Dopaminergic signaling and cocaine-related behavior","description":"The cluster is dominated by nervous system functions, especially dopaminergic synaptic transmission and behavioral responses to cocaine, with supporting terms in ERK signaling and visual perception/learning that can be linked to neural processing. While a few terms like saliva secretion and heart development appear, the strongest and most coherent theme is neural signaling involving dopamine and cocaine-related behavior, suggesting a cohesive cluster of dopamine-mediated neural activity. ","confidence":"Medium","size":17,"edges":99,"triangles":257,"max_degree":14,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048148","count":13},{"id":"GO:0010759","count":13},{"id":"GO:0070374","count":13},{"id":"GO:0019233","count":13},{"id":"GO:0008542","count":13}]},{"hash":"1652108305145620045","title":"Cardiac Ion Transport and Signaling","description":"The top GO terms converge on cardiac electrophysiology and ion homeostasis (cardiac action potential, Purkinje to ventricular signaling, calcium response, potassium transport), suggesting a heart-specific signaling/ion-regulation cluster. Some terms (developmental polarity, T cell regulation) are less aligned and may be incidental. ","confidence":"Medium","size":17,"edges":14,"triangles":0,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0035556","count":4},{"id":"GO:0051262","count":4},{"id":"GO:0003380","count":3},{"id":"GO:0086002","count":3},{"id":"GO:1990573","count":3}]},{"hash":"560220963643236508","title":"Ubiquitination and Protein Degradation","description":"This cluster is dominated by GO terms for ubiquitin-mediated protein turnover (ubiquitin-dependent protein catabolic process, protein ubiquitination, K48-linked ubiquitination) and related post-translational modifiers (sumoylation). Those processes drive protein degradation and functional regulation, which best captures the shared theme among the proteins; other terms like Wnt signaling or vitamin D response appear as secondary associations but do not define the core function of the set.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:0016925","count":4},{"id":"GO:1902564","count":4},{"id":"GO:0016055","count":4},{"id":"GO:0070936","count":4}]},{"hash":"454846492807748711","title":"Unknown","description":"The top GO terms are highly diverse, covering mRNA splicing, transcription, DNA integration and proviral latency, host apoptosis via symbionts, neural tube closure, and skeletal development, plus cell cycle activities. There is no clear, single biological theme linking these terms, and the proteins appear to span distinct processes rather than a cohesive pathway, so a specific functional label isn\u2019t supported by the cluster data. ","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000398","count":3},{"id":"GO:0015074","count":3},{"id":"GO:0075713","count":3},{"id":"GO:0039651","count":3},{"id":"GO:0001843","count":3}]},{"hash":"1086957623883869884","title":"Intracellular trafficking and stress response","description":"The GO terms cluster around vesicle transport and cytoskeletal assembly (ER to Golgi transport, peroxisome matrix import, actin filament bundle assembly) alongside stress- and metabolism-related responses (anoxia, phosphate starvation, apoptotic process; various metabolic processes), suggesting a group of proteins involved in intracellular trafficking with concurrent stress or metabolic adaptation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016558","count":2},{"id":"GO:0070682","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0097284","count":2}]},{"hash":"1153309360989780736","title":"GTPase signaling and actin dynamics in development","description":"These proteins show strong enrichment for small GTPase\u2013mediated signaling and actin cytoskeleton regulation (positive regulation of GTPase activity; small GTPase\u2013mediated signal transduction; actin crosslink formation), suggesting a core role in cytoskeletal remodeling during development. The presence of heart development and angiogenesis terms supports a developmental signaling context. Some terms (visual perception, meiotic/mitotic cell cycle, cholesterol biosynthesis, insulin signaling) appear peripheral but may reflect broader cellular coordination with signaling and metabolic pathways.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007507","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0051764","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0046626","count":3}]},{"hash":"1929748404146186908","title":"GPCR-Mediated Sensory Signaling","description":"Top GO terms cluster around sensory perception (pain, vision) and temperature/thermogenesis, with a strong signal for GPCR-mediated pathways (adenylate cyclase-activating GPCR signaling) and neural excitability (membrane potential regulation, phosphorylation). This points to a concerted neuronal signaling/sensory processing function with metabolic support, justifying the label GPCR-Mediated Sensory Signaling.","confidence":"High","size":17,"edges":78,"triangles":113,"max_degree":12,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0019233","count":10},{"id":"GO:0071502","count":9},{"id":"GO:0002024","count":9},{"id":"GO:0042391","count":8},{"id":"GO:0007601","count":8}]},{"hash":"1672772594593248748","title":"Endothelial GPCR-cAMP Signaling and Angiogenesis","description":"This cluster is best described by GPCR-mediated cAMP signaling in endothelial cells, coupled to angiogenesis and vascular regulation (blood pressure). Additional terms point to cytoskeletal and planar polarity signaling (Rho, PCP) and cortical layer formation, which can influence vessel morphogenesis and tissue patterning. The electron transport chain term is less central but may reflect general cellular energy context. Overall, it seems representative of endothelial signaling pathways that drive angiogenesis and vascular development.","confidence":"Medium","size":17,"edges":5,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":6},{"id":"GO:0010579","count":6},{"id":"GO:0045777","count":6},{"id":"GO:0007190","count":5},{"id":"GO:0001525","count":4}]},{"hash":"535352113800244303","title":"Unknown","description":"Unknown","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006596","count":2},{"id":"GO:0016049","count":2},{"id":"GO:0071039","count":1},{"id":"GO:0000973","count":1},{"id":"GO:0071033","count":1}]},{"hash":"953656963419245726","title":"Neural and Retinal Development with Axon Guidance","description":"The top GO terms cluster around neural development and eye wiring: retina development in camera-type eye, retinal ganglion cell axon guidance, axonal fasciculation, and neuromuscular junction development. These point to a theme of neural connectivity in the retina and peripheral nerves. A few terms on transcription regulation, DNA methylation, and fatty-acid metabolism appear ancillary. Overall, the cluster seems best described as neural/retinal development with axon guidance.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060041","count":2},{"id":"GO:0007140","count":2},{"id":"GO:0043046","count":2},{"id":"GO:0007413","count":2},{"id":"GO:0007528","count":2}]},{"hash":"1127817380891714711","title":"Unknown","description":"These 17 proteins are linked to a wide and diverse set of GO terms, including mechanical stimulus response, ubiquitination, telomere regulation, SNARE complex regulation, dendritic cell differentiation, cytokine regulation, mitotic cohesion, chloroplast protein import, synaptic plasticity, and Notch signaling in heart development. The functions are not coherently connected to a single biological theme, making a specific, meaningful cluster name unlikely.","confidence":"","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":10},{"id":"GO:0016567","count":10},{"id":"GO:1904355","count":9},{"id":"GO:0035544","count":9},{"id":"GO:0002268","count":9}]},{"hash":"901531846216097843","title":"Calcium Transport and Membrane Regulation","description":"The top GO terms are dominated by calcium ion transport across membranes, including sarcoplasmic reticulum calcium transport, pointing to a core theme of calcium handling and membrane-associated transport. Additional terms touch on membrane regulation and barrier/junction assembly, which can be related to membrane function, though several terms are more divergent (osteoclast differentiation, NF-kB signaling, integrin pathways). Overall, calcium transport/handling and related membrane regulation best describe this cluster.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0045671","count":2},{"id":"GO:0035151","count":2},{"id":"GO:0034765","count":2},{"id":"GO:0019991","count":2}]},{"hash":"190436099637050747","title":"Developmental Morphogenesis and Signaling","description":"The top GO terms cluster around developmental processes across multiple tissues (mammary gland development, cardiac chamber and coronary artery morphogenesis, neuroblast fate) and include signaling/regulatory activities (Rho/GTPase signaling, transcription regulation). This suggests a shared theme of developmental morphogenesis and associated signaling pathways rather than a single, cohesive functional module. ","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060763","count":3},{"id":"GO:0033601","count":3},{"id":"GO:0035023","count":2},{"id":"GO:0006886","count":2},{"id":"GO:0043951","count":2}]},{"hash":"2170431172665932751","title":"Mitotic spindle assembly and ubiquitin regulation","description":"This cluster is enriched for mitotic-related GO terms (cell cycle, spindle assembly) and for ubiquitin-dependent protein degradation (ubiquitin-dependent protein catabolic process, protein autoubiquitination), suggesting proteins involved in mitosis and proteostasis. Some terms appear more developmental or general (placenta morphogenesis, dendritic cell differentiation), which may reflect broader roles or annotation noise, but the core signals point to cell division and ubiquitin-mediated regulation.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007049","count":4},{"id":"GO:0051225","count":4},{"id":"GO:0042787","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0060669","count":3}]},{"hash":"771594370341744981","title":"Coagulation and Fibrinolysis Regulation","description":"Top GO terms center on fibrinolysis and coagulation (fibrinolysis, blood coagulation, negative regulation of fibrinolysis, negative regulation of plasminogen activation) with proteolysis and extracellular matrix secretion also represented, pointing to regulation of the coagulation cascade and ECM remodeling; terms like social behavior and behavioral response to ethanol likely reflect annotation noise rather than a real functional theme.","confidence":"High","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042730","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0035176","count":4},{"id":"GO:0048149","count":4}]},{"hash":"719750678075977384","title":"Vacuolar proton transport and acidification","description":"This cluster is driven by GO terms related to vacuolar function: V-type ATPase assembly, proton transmembrane transport, vacuolar acidification, and vacuole-associated protein turnover, with polyphosphate metabolism supporting the vacuolar context. A couple of terms (mitotic sister chromatid segregation, mRNA splicing) seem less connected, possibly reflecting annotation breadth or multi-functional proteins. Overall, the strongest signal points to vacuolar proton pumping and acidification as the core theme.","confidence":"Medium","size":17,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000070","count":2},{"id":"GO:0034316","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0015986","count":1}]},{"hash":"893355585385850927","title":"Cardiac development and neural guidance signaling","description":"These proteins appear to participate in developmental signaling that shapes heart electrophysiology and neural guidance, supported by GO terms for heart conduction and AV node function, together with axon guidance and ROBO signaling; the stress fiber assembly term points to cytoskeletal remodeling common to morphogenesis.","confidence":"Medium","size":16,"edges":12,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0043931","count":9},{"id":"GO:0007275","count":8},{"id":"GO:0043149","count":7},{"id":"GO:0086091","count":6},{"id":"GO:0060307","count":6}]},{"hash":"1383021888731414649","title":"Mitochondrial energy signaling and metabolic stress","description":"The cluster centers on mitochondria (complex IV assembly) and integrates signaling pathways tied to energy homeostasis and stress responses, including PI3K/AKT signaling, hypoxic/NO responses, xenobiotic response, and leptin/feeding-related pathways. This suggests a cohesive theme around mitochondrial energy metabolism coupled with metabolic signaling and stress adaptation.","confidence":"Medium","size":16,"edges":60,"triangles":107,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0033617","count":5},{"id":"GO:0032148","count":3},{"id":"GO:0032095","count":3},{"id":"GO:0060547","count":3},{"id":"GO:0010940","count":3}]},{"hash":"1148748221114149488","title":"Unknown","description":"The terms span mitochondrial electron transport, multiple biosynthetic pathways (calcitriol, 9-cis-retinoic acid, brassinosteroids, macrolides, coumarin), and development-related processes (mammary gland and uterus development) as well as general responses like to food. This diversity indicates no single cohesive function or pathway tying all proteins together, so a concise, unified label isn\u2019t supported.","confidence":"","size":16,"edges":21,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0006123","count":1},{"id":"GO:0030879","count":1},{"id":"GO:0046226","count":1},{"id":"GO:0036378","count":1},{"id":"GO:0070989","count":1}]},{"hash":"1573604889338148585","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by translation- and ribosome-assembly-related terms (translation, ribosomal large subunit assembly, translational termination, mitochondrial translation, SSU-rRNA maturation, and translational fidelity). A few RNA-processing terms are present, but the strongest theme is ribosome production and protein synthesis, including mitochondrial components, indicating a coherent set of proteins involved in ribosome biogenesis and translation.","confidence":"High","size":16,"edges":118,"triangles":533,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":13},{"id":"GO:0000027","count":4},{"id":"GO:0006415","count":3},{"id":"GO:0032543","count":3},{"id":"GO:0000462","count":2}]},{"hash":"200500906733969973","title":"Immune signaling and tissue remodeling","description":"Based on the top GO terms, the cluster is enriched for adaptive immune response, regulation of NK cell cytotoxicity, engulfment of apoptotic cells, and JUN phosphorylation, pointing to immune regulation. The presence of organ morphogenesis and adipose development terms suggests links to tissue remodeling and development influenced by immune signaling. Together, the cluster centers on immune signaling with accompanying tissue remodeling functions.","confidence":"Medium","size":16,"edges":24,"triangles":11,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0051902","count":13},{"id":"GO:0002250","count":13},{"id":"GO:1990441","count":13},{"id":"GO:1904179","count":13},{"id":"GO:1990090","count":13}]},{"hash":"1518690909676991693","title":"Mitochondrial Transporters and Energy Metabolism","description":"The cluster centers on transport across mitochondrial membranes (ADP, citrate, phosphate, ornithine, manganese), the malate-aspartate shuttle, and regulation of membrane permeability, with links to insulin response and adaptive thermogenesis, indicating a cohesive group of mitochondrial transporters and energy-regulating proteins.","confidence":"High","size":16,"edges":27,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0046902","count":9},{"id":"GO:0032869","count":7},{"id":"GO:0035435","count":7},{"id":"GO:0043490","count":7},{"id":"GO:0015866","count":7}]},{"hash":"2237215339066605592","title":"GPCR-Mediated Sensory and Metabolic Regulation","description":"Top GO terms cluster around GPCR signaling and downstream calcium mobilization (serotonin receptor signaling, arrestin-mediated desensitization, PLC activation leading to Ca2+ release), together with sensory and metabolic processes such as temperature response, pain perception, diet-induced thermogenesis, and blood pressure regulation. This pattern suggests a coherent theme of G protein-coupled receptor\u2013driven signaling coordinating sensory perception and metabolic/cardiovascular responses.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":7},{"id":"GO:0019233","count":7},{"id":"GO:0002024","count":7},{"id":"GO:0051209","count":7},{"id":"GO:0008542","count":6}]},{"hash":"1488798916268324623","title":"Mitotic Cell Division and Polarity","description":"The cluster centers on mitosis-related processes (cell division, mitotic cell cycle, exit from mitosis, division septum assembly) with supportive terms for cell polarity and epithelial adhesion, suggesting proteins involved in chromosome segregation/cytokinesis alongside epithelial organization. A few outliers (ribosomal export, synaptic regulation) are likely ancillary to the core division-related roles, but the dominant theme is mitotic regulation with polarity/adhesion context.","confidence":"Medium","size":16,"edges":23,"triangles":0,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":15},{"id":"GO:0000055","count":15},{"id":"GO:0000917","count":13},{"id":"GO:0010458","count":13},{"id":"GO:0000278","count":13}]},{"hash":"50612510099229019","title":"DNA replication and centrosome cycle regulators","description":"Most of the top GO terms converge on DNA replication and cell-cycle control, including positive regulation of nuclear cell cycle DNA replication, DNA replication, and the centrosome cycle. This points to a coordinated role in genome duplication and centrosome dynamics. Other terms (development, signaling, transcytosis, host interaction) appear more auxiliary, indicating additional roles but not changing the core theme. ","confidence":"High","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0010571","count":16},{"id":"GO:0007098","count":16},{"id":"GO:0006260","count":16},{"id":"GO:0048701","count":16},{"id":"GO:0020021","count":15}]},{"hash":"730330190319528505","title":"Neurodevelopment and organogenesis","description":"The cluster is enriched for neural-development terms (axonogenesis, Schwann cell development, visual perception, excitatory postsynaptic potential) and organogenesis (heart development, multicellular organism development), plus cell-cycle activity (mitotic cell cycle, G2/M transition) typical of developmental contexts. An outlier term (abscisic acid-activated signaling) may reflect annotation noise. Overall, the group seems tied to development and neural/organ formation.","confidence":"Medium","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007409","count":10},{"id":"GO:0000278","count":9},{"id":"GO:0007601","count":9},{"id":"GO:0009738","count":9},{"id":"GO:0000086","count":9}]},{"hash":"517783065429406641","title":"Neurodevelopment and Retina Morphogenesis","description":"This cluster centers on neuronal development and axon guidance, highlighted by Roundabout signaling, neurogenesis, nervous system development, dendrite self-avoidance, and tissue morphogenesis in the retina with accompanying angiogenesis. Immune signaling terms appear less central, suggesting a primary theme of neural development and retina formation.","confidence":"High","size":16,"edges":89,"triangles":266,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0035385","count":8},{"id":"GO:0007399","count":8},{"id":"GO:0007156","count":8},{"id":"GO:0022008","count":8},{"id":"GO:0050852","count":7}]},{"hash":"531283158849909523","title":"Heart and vascular development","description":"This cluster shows strong representation of terms tied to heart formation and vascular/endothelial differentiation (cardiac right atrium morphogenesis, Notch signaling in heart field, venous endothelial differentiation) and related mechanical signaling, suggesting a shared function in cardiovascular development. Some terms (fat cell differentiation, foam cell regulation, vitamin D response) are peripheral noise but don\u2019t override the central cardiovascular theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":5},{"id":"GO:0010745","count":5},{"id":"GO:0003270","count":5},{"id":"GO:0003213","count":5},{"id":"GO:0071260","count":5}]},{"hash":"2190418880874964076","title":"Unknown","description":"Unknown","confidence":"","size":16,"edges":75,"triangles":199,"max_degree":15,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0019236","count":16},{"id":"GO:0007117","count":16},{"id":"GO:1905869","count":16},{"id":"GO:0035330","count":16},{"id":"GO:1905608","count":16}]},{"hash":"366159103505748850","title":"MAPK-driven neuronal growth and morphogenesis","description":"The GO terms cluster around MAPK signaling cascades (JNK/ERK) and processes that shape neuronal structure, including positive regulation of axon extension, axonogenesis, and dendrite morphogenesis, suggesting a role in neuronal growth and morphology via MAPK pathways. Other terms (focal adhesion regulation and protein stability) support cytoskeletal remodeling relevant to neurite growth, while some terms like mitotic cell cycle and T cell signaling may reflect broader functional contexts but do not override the neuronal morphogenesis theme.","confidence":"High","size":16,"edges":39,"triangles":38,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0046330","count":16},{"id":"GO:0045773","count":16},{"id":"GO:0070374","count":16},{"id":"GO:0000278","count":16},{"id":"GO:0051893","count":16}]},{"hash":"1358360851293036430","title":"GPCR-driven immune signaling and chemotaxis","description":"The top GO terms point to signaling pathways involved in immune cell activation and migration (T cell receptor signaling, neutrophil chemotaxis, monocyte differentiation) alongside GPCR-related signaling outputs (cAMP/cGMP responses and olfactory receptor activity). This suggests a cluster of proteins participating in GPCR-mediated signal transduction with roles in immune cell behavior, even though some terms reflect broader cytokine signaling (TGF-beta) or other processes. Confidence: Medium","confidence":"","size":16,"edges":18,"triangles":11,"max_degree":6,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071560","count":11},{"id":"GO:0050852","count":11},{"id":"GO:0019933","count":9},{"id":"GO:0071321","count":8},{"id":"GO:0010754","count":8}]},{"hash":"1643004367481716040","title":"Neural development and signaling regulation","description":"This cluster is driven by nervous system and brain development terms (e.g., nervous system development, substantia nigra development) and is tightly linked to signaling pathways that regulate neural differentiation and survival, including ERK cascade, Wnt signaling, and GTPase activity, suggesting a coherent role in neural development and associated signaling control.","confidence":"High","size":16,"edges":60,"triangles":66,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0034605","count":4},{"id":"GO:0060661","count":4},{"id":"GO:0070374","count":4}]},{"hash":"816146859740136232","title":"Signaling and mechanotransduction","description":"The top GO terms cluster around signal transduction (intracellular signaling, GPCR-related pathways, insulin-responsive processes) and responses to mechanical stimuli, including cell migration and vasoconstriction. While a few terms touch on telomere maintenance, the dominant theme is cellular signaling and mechanotransduction, with some peripheral stress-related terms.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:2001275","count":6},{"id":"GO:0007205","count":5},{"id":"GO:0016477","count":5},{"id":"GO:0097011","count":5},{"id":"GO:0045907","count":5}]},{"hash":"1522208411299522387","title":"ER-Golgi Vesicle Transport and Neural Development","description":"The top GO terms are dominated by intracellular vesicle trafficking between ER, Golgi, and endosomes (ER-Golgi, Golgi-ER, endosome-Golgi), plus neuronal development signals (dendrite development, synaptic plasticity). This suggests a core function in vesicle transport with a neural development context, even though other development terms appear. ","confidence":"High","size":16,"edges":27,"triangles":3,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006888","count":12},{"id":"GO:0016358","count":9},{"id":"GO:0034498","count":9},{"id":"GO:0006890","count":8},{"id":"GO:0000278","count":7}]},{"hash":"494451181623314678","title":"Neural development and stress signaling","description":"This cluster centers on GO terms for nervous system development (nervous system development, CNS development), nerve growth factor stimulus, and mating behavior, suggesting neural development and behavioral regulation. Additional terms such as response to heat and cellular response to mechanical stimulus indicate cellular stress signaling, and actin cytoskeleton regulation aligns with neurite outgrowth and neuronal morphology. A few terms (ecdysis, amyloid fibril formation) are less directly tied but can reflect broader neural development and remodeling contexts. Overall, the recurring theme is neural development with associated stress/stimulus responses, justifying the label.","confidence":"Medium","size":16,"edges":16,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0007399","count":3},{"id":"GO:0009408","count":2},{"id":"GO:0071260","count":2},{"id":"GO:2000249","count":2},{"id":"GO:0007617","count":2}]},{"hash":"968582006185815833","title":"GPCR-Dopamine/Adrenergic Signaling and Phototransduction","description":"This cluster is dominated by GPCR-related signaling terms: adenylate cyclase activation, cAMP and PLC pathways, dopamine and adrenergic receptor signaling, and phototransduction, with supporting terms like positive regulation of GTPase activity and phosphatidylinositol biosynthesis. The combination of vision-related signaling and neurotransmitter receptor pathways suggests a cohesive GPCR signaling/functions cluster, even if some terms reflect broader roles in heart development or energy metabolism.","confidence":"High","size":16,"edges":18,"triangles":13,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0010513","count":15},{"id":"GO:0071880","count":15},{"id":"GO:0007603","count":15},{"id":"GO:0007191","count":15},{"id":"GO:0043547","count":15}]},{"hash":"1840644553864432027","title":"Vascular and neural growth signaling","description":"This cluster centers on growth-factor\u2013driven signaling pathways involved in vascular and neural development, including VEGF and Wnt signaling, ERK/JNK cascades, PI3K-AKT signaling, and axon extension. The presence of terms related to labyrinthine layer blood vessel development and cellular responses to prostaglandin E and other stimuli supports a cohesive theme of signaling networks guiding vascular and neural growth.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071380","count":13},{"id":"GO:0090263","count":12},{"id":"GO:0071361","count":12},{"id":"GO:0060716","count":12},{"id":"GO:0035924","count":11}]},{"hash":"231821474042783564","title":"Inflammation and Coagulation Pathways","description":"The cluster shows strong representation of response to lipopolysaccharide, complement activation (classical pathway), and blood coagulation, pointing to innate immune and hemostatic processes; additional placental/embryonic development terms may reflect a vascular/embryonic context, but the core theme remains inflammatory and coagulation signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032496","count":4},{"id":"GO:0006958","count":4},{"id":"GO:0007596","count":4},{"id":"GO:0060707","count":3},{"id":"GO:0060806","count":3}]},{"hash":"686471411276002478","title":"Microbial methanogenesis and energy metabolism","description":"The cluster centers on methane-producing pathways and related energy-yielding redox processes, including methanogenesis (and from acetate), formate and lactate/formate oxidation, and pyruvate-to-acetyl-CoA metabolism, together with electron transport chain components and photosynthetic electron transport in PSI. This suggests a cohesive theme of microbial energy metabolism spanning methanogenic and phototrophic/respiratory electron transfer. ","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:1901285","count":1},{"id":"GO:0006086","count":1},{"id":"GO:0019516","count":1},{"id":"GO:0015944","count":1},{"id":"GO:0042426","count":1}]},{"hash":"2016488642047066766","title":"Cytoskeleton-driven Cell Division Cluster","description":"The top GO terms cluster around actin- and cytoskeleton-related processes (actin crosslink formation, microspike assembly, mitotic spindle assembly, terminal web assembly, cell budding) and fungal reproductive remodeling (ascospore formation, karyogamy), suggesting a unifying theme of cytoskeletal organization coupled to cell division and morphogenesis; a stray NF-kappaB regulation term is less connected but may reflect signaling cross-talk. Overall, the dominant signal points to cytoskeleton-driven division processes.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051764","count":2},{"id":"GO:0043123","count":2},{"id":"GO:1902896","count":2},{"id":"GO:0030437","count":2},{"id":"GO:0022011","count":2}]},{"hash":"1355909825720216575","title":"Nervous system and organ morphogenesis regulators","description":"Several GO terms point to regulatory roles in development and morphogenesis across nervous system and organs (nervous system development; substantia nigra formation; submandibular gland formation; hair follicle proliferation; lung morphogenesis). Also enrichment for signaling pathway regulation (GTPase activity, ERK cascade, Wnt signaling) suggests a set of proteins that modulate key developmental signaling rather than a single tissue-specific function. The lack of network edges may reflect diverse tissue contexts or multi-function proteins.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0043547","count":5},{"id":"GO:0060661","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0043524","count":4},{"id":"GO:0071338","count":4}]},{"hash":"1402360075672060172","title":"Organelle Organization and Trafficking","description":"The top GO terms cluster around intracellular organization and trafficking: Golgi organization, ER membrane fusion, ER organization, and related membrane and organelle dynamics, along with cytoskeleton-related processes like microtubule depolymerization. Protein homooligomerization and synaptic assembly at the neuromuscular junction further point to protein assembly and targeted delivery within cells. Immune signaling terms (interferon response, IL-18, IL-2 regulation) appear less central, suggesting they are peripheral to the core theme. Overall, this cluster seems best described by a focus on intracellular architecture and trafficking rather than a single signaling pathway. ","confidence":"Medium","size":16,"edges":1,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0051260","count":13},{"id":"GO:0007030","count":8},{"id":"GO:0007019","count":8},{"id":"GO:0071346","count":8},{"id":"GO:0072616","count":8}]},{"hash":"511430540624537426","title":"Neurodevelopment and Endocrine Organogenesis","description":"The top GO terms point to neural development (spinal cord motor neuron fate, GABAergic interneuron differentiation, subpallium fate commitment, cerebral cortex differentiation) plus development of endocrine-related organs (pituitary, retina, endocrine pancreas, bronchiole). The overarching theme is transcription-driven developmental programs governing multiple neural and endocrine tissues, indicating a tightly connected cluster of regulatory proteins. ","confidence":"Medium","size":16,"edges":119,"triangles":546,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":12},{"id":"GO:0021983","count":7},{"id":"GO:0035470","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0021530","count":6}]},{"hash":"249184854634077531","title":"Retinoid Metabolism and Tissue Homeostasis","description":"Top GO terms are dominated by retinol and retinal metabolic processes and related regulation of retinoic acid biosynthesis, indicating a core theme around vitamin A metabolism and signaling. Additional terms point to tissue homeostasis and renal development/regulation of urine volume, suggesting a broader link to tissue maintenance. Some catabolic terms (naphthalene, arabinose) and the jasmonic acid response imply peripheral metabolic versatility, but they do not undo the central retinoid-tissue maintenance theme. Therefore this cluster is best labeled 'Retinoid Metabolism and Tissue Homeostasis'.","confidence":"Medium","size":16,"edges":120,"triangles":560,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0042572","count":13},{"id":"GO:0042574","count":11},{"id":"GO:0046370","count":9},{"id":"GO:0001894","count":7},{"id":"GO:0072001","count":7}]},{"hash":"638801282810978921","title":"Amino acid biosynthesis and catabolism","description":"The cluster is enriched for both biosynthetic (alanine, aspartate, tyrosine, biotin) and catabolic (kynurenine, threonine) pathways, plus oxaloacetate metabolism and metabolic regulation via insulin response and fatty acid homeostasis. This pattern points to core amino acid metabolism linked to central carbon metabolism, supporting this label.","confidence":"High","size":16,"edges":98,"triangles":317,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019518","count":9},{"id":"GO:0097053","count":8},{"id":"GO:0032869","count":8},{"id":"GO:0055089","count":8},{"id":"GO:0006107","count":8}]},{"hash":"2070950766413501581","title":"Hematopoietic metabolism and transcription","description":"This cluster shows enrichment for glycolytic and TCA cycle processes (metabolism) alongside DNA-templated transcription, stem cell and megakaryocyte differentiation signals, and immune-responsive terms (response to xenobiotic stimulus and lipopolysaccharide). Together these terms suggest a hematopoietic cell program balancing energy metabolism with gene regulation and immune signaling.","confidence":"Medium","size":16,"edges":100,"triangles":331,"max_degree":15,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:2000648","count":6},{"id":"GO:0006096","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0060303","count":5}]},{"hash":"1893691958144377625","title":"Unknown","description":"The top GO terms span vesicle transport between the ER and Golgi, various developmental processes, transcription and chromatin regulation, cell cycle and mitosis, stress response, and behavior. This broad mix shows no single, cohesive functional theme tying all proteins together, so a specific, representative label cannot be confidently assigned.","confidence":"","size":16,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0061087","count":2},{"id":"GO:0048705","count":2},{"id":"GO:0043473","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1386002572352532660","title":"Developmental Proliferation Regulators","description":"Proteins in this cluster show GO terms spanning embryonic development and tissue-specific proliferation (in utero embryonic development, floor plate development, cardiac muscle and hair follicle proliferation) and regulation of cell cycle, indicating a common theme of developmental growth control across multiple tissues.","confidence":"Medium","size":16,"edges":36,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0071157","count":3},{"id":"GO:0002053","count":2},{"id":"GO:0060038","count":2},{"id":"GO:0001701","count":2},{"id":"GO:0002635","count":2}]},{"hash":"1542173325931069201","title":"Ubiquitin-Dependent Protein Degradation","description":"The GO terms are dominated by ubiquitination-related processes (ubiquitin-dependent protein catabolic process, autoubiquitination, K48- and K6-linked ubiquitination) and histone catabolic processes, indicating a core focus on ubiquitin-mediated protein turnover. Other terms reflect regulatory roles in signaling and development that can be downstream effects of ubiquitination. Overall, the cluster appears tied to ubiquitin-dependent proteolysis.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":9},{"id":"GO:0051865","count":7},{"id":"GO:0036205","count":6},{"id":"GO:1901253","count":6},{"id":"GO:0070936","count":6}]},{"hash":"318325947947456437","title":"Neurodevelopment and transcriptional regulation","description":"This cluster is enriched for neural development terms (peripheral nervous system neuron development, motor neuron axon guidance, midbrain and hypothalamus differentiation, eye development) alongside transcription-related processes (transcription by RNA polymerase II and negative regulation of transcription by RNA polymerase II), pointing to a coordinated program of transcriptional control during neurodevelopment. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0000122","count":13},{"id":"GO:0090009","count":8},{"id":"GO:0048935","count":8},{"id":"GO:0030901","count":7},{"id":"GO:0043010","count":7}]},{"hash":"1024591640756257164","title":"RNA processing and translation initiation regulation","description":"This cluster is enriched for post-transcriptional RNA processes (splicing, polyadenylation, mRNA stability) and translation control components (preinitiation complex formation, translation reinitiation, IRES-dependent initiation). The mix of splicing, polyadenylation, ncRNA-mediated silencing, and translation-related terms suggests a cohesive theme of RNA-level regulation of gene expression, especially at the initiation/reinitiation stage.","confidence":"Medium","size":16,"edges":21,"triangles":5,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":11},{"id":"GO:0010610","count":10},{"id":"GO:0045292","count":10},{"id":"GO:0075525","count":9},{"id":"GO:1900363","count":9}]},{"hash":"1442640152212152101","title":"Oocyte maturation and germline RNA localization","description":"The top GO terms strongly point to germline/oocyte-specific processes, notably oocyte karyosome formation and pole plasm RNA localization, suggesting a theme around oocyte development and RNA localization in the germline. Additional terms indicating transcriptional regulation, DNA replication, and DNA repair imply coordinated nuclear activities during differentiation, while a term about cerebellar granule cell differentiation hints at broader differentiation programs. Overall, the cluster appears enriched for oocyte/germline development with associated transcriptional and DNA-related processes, despite some heterogeneity.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030717","count":3},{"id":"GO:0021707","count":3},{"id":"GO:0036089","count":3},{"id":"GO:0045899","count":2},{"id":"GO:0006281","count":2}]},{"hash":"1327754442156035418","title":"GPCR-cAMP-ERK signaling with pain/inflammation","description":"The cluster is dominated by GO terms for GPCR signaling that activates adenylate cyclase and the ERK cascade, plus downstream processes like protein phosphorylation. It also includes links to pain perception, prostaglandin response, blood pressure regulation, macrophage chemotaxis, and cocaine-related behavior, all fitting GPCR-mediated signaling in neural and inflammatory contexts. An electron transport chain term appears as a potential outlier, possibly reflecting energetic support for signaling. Overall, the cluster centers on GPCR-cAMP signaling and MAPK pathways driving pain and inflammatory responses.","confidence":"Medium","size":16,"edges":17,"triangles":1,"max_degree":8,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":12},{"id":"GO:0010579","count":12},{"id":"GO:0007190","count":12},{"id":"GO:0045777","count":12},{"id":"GO:0019233","count":10}]},{"hash":"532643339468822625","title":"Embryonic organ development","description":"The terms point to development across multiple organ systems\u2014endoderm, heart, kidney, brain, nerves, and somites\u2014rather than a single pathway. This suggests the protein set is enriched for embryonic organogenesis and tissue patterning functions.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042663","count":1},{"id":"GO:0003168","count":1},{"id":"GO:1900212","count":1},{"id":"GO:0046513","count":1},{"id":"GO:0021623","count":1}]},{"hash":"396127539092012447","title":"Neuroimmune antiviral signaling","description":"A cluster showing strong signals for antiviral and inflammatory responses (response to exogenous dsRNA, LPS response, defense against Gram-positive bacteria, TH1-type immunity, and interferon-beta production), suggesting a core role in innate/adaptive immune signaling. The presence of neural-related terms (myelination and synapse assembly) alongside immune terms points to neuroimmune interactions or immune-influenced neural development, making a neuroimmune antiviral/inflammatory theme the most coherent overall label.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0043330","count":9},{"id":"GO:0032474","count":9},{"id":"GO:0071222","count":9},{"id":"GO:0051965","count":9},{"id":"GO:0042552","count":9}]},{"hash":"221367078699274664","title":"Neuronal development and synapse organization","description":"The top GO terms point to neural development and connectivity: synapse assembly and organization, neurogenesis, myelination, and axon guidance (Roundabout/ROBO), with related signaling pathways (STAT phosphorylation and Rho). A couple of terms (kidney development, TLR signaling) are more peripheral, but do not negate the dominant neural theme. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042517","count":7},{"id":"GO:0035023","count":6},{"id":"GO:0034164","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0007156","count":6}]},{"hash":"341760912943259508","title":"Unknown","description":"The top GO terms span spermatid development, lipid metabolism, vascular activity, and neuronal synapse localization and function, with no clear single shared process. This mix suggests there isn\u2019t a cohesive, identifiable function for the cluster as a whole.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007286","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0042157","count":1},{"id":"GO:0006869","count":1},{"id":"GO:0042118","count":1}]},{"hash":"2224980255279460516","title":"Glycan biosynthesis and extracellular matrix components","description":"The top GO terms point to glycosylation and glycoprotein biosynthesis (poly-N-acetyllactosamine, Lewis a epitope, Arabinogalactan protein metabolism, hydroxyproline O-linked glycosylation) and structural/extracellular roles (mucilage biosynthesis, root hair development, follicle cell adhesion, infection-structure formation). This suggests a cluster of secreted or cell-surface glycoproteins contributing to extracellular matrix formation and cell adhesion across developmental contexts. ","confidence":"Medium","size":16,"edges":82,"triangles":209,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0075015","count":8},{"id":"GO:0030311","count":6},{"id":"GO:0042248","count":6},{"id":"GO:0001744","count":6},{"id":"GO:0010493","count":6}]},{"hash":"2247284903893396729","title":"BCR Signaling and Intracellular Pathways","description":"The top GO terms are dominated by B cell receptor signaling and differentiation, plus broader intracellular signal transduction and related pathways (PI3K/IP3 axis, Ras/Rho signaling). This points to a coherent theme centered on B cell\u2013associated signaling cascades and their intracellular propagation, despite the lack of explicit protein\u2013protein edges in the network.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0009395","count":4},{"id":"GO:0032959","count":4},{"id":"GO:0002316","count":4},{"id":"GO:0046580","count":4},{"id":"GO:0038028","count":4}]},{"hash":"1015528349097827130","title":"Developmental signaling and inflammatory response","description":"The top GO terms cluster around developmental signaling (Notch processing, BMP signaling), developmental processes (lung development, keratinocyte differentiation, angiogenesis) and immune/inflammatory responses (TNF-related signaling, leukocyte migration), suggesting a group of proteins coordinating development with inflammatory signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0030324","count":4},{"id":"GO:0046677","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0071356","count":4}]},{"hash":"1596357323661872132","title":"Neural signaling and sphingolipid metabolism","description":"These proteins show enrichment in neurotransmitter biosynthesis (serotonin, histamine, taurine) and neurotransmitter loading into synaptic vesicles, plus terms related to neural responses (growth factor signaling, xenobiotic response, thermotaxis, anesthesia-resistant memory). The sphingolipid metabolic process further links to neuronal membrane biology and signaling. Together, they point to neural signaling/modulation with accompanying lipid metabolism. ","confidence":"High","size":16,"edges":82,"triangles":259,"max_degree":15,"top_function":null,"top_go_terms":[{"id":"GO:0006665","count":7},{"id":"GO:0043052","count":7},{"id":"GO:0042412","count":7},{"id":"GO:0007615","count":7},{"id":"GO:0035690","count":7}]},{"hash":"2194486873564586372","title":"Mitogenic Signaling and Cytoskeletal Regulation","description":"These proteins appear to act as regulators of growth-related signaling: Wnt, JNK, and ERK cascades, along with processes linked to the mitotic cell cycle and focal adhesion dynamics. The repeated theme across terms\u2014positive regulation of signaling cascades and cell cycle transitions\u2014points to a cohesive module that coordinates proliferation and cytoskeletal remodeling; the inclusion of T cell receptor signaling suggests broader signaling integration. Overall, the label Mitogenic Signaling and Cytoskeletal Regulation captures the central theme.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":7},{"id":"GO:0090263","count":7},{"id":"GO:0046330","count":6},{"id":"GO:0045773","count":6},{"id":"GO:0070374","count":6}]},{"hash":"113909575019412315","title":"Actin-driven morphogenesis and junction assembly","description":"This cluster includes terms for filopodium and podosome assembly, Rho signaling, tight junction assembly, and TGF-beta\u2013mediated responses, indicating regulation of the actin cytoskeleton and cell\u2013cell adhesion during tissue morphogenesis. The uterus development and organ morphogenesis terms reinforce a developmental context, so Actin-driven morphogenesis and junction assembly is a representative, specific label.","confidence":"Medium","size":16,"edges":11,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0060065","count":3},{"id":"GO:0009887","count":2},{"id":"GO:0051835","count":2},{"id":"GO:0046847","count":2},{"id":"GO:0071803","count":2}]},{"hash":"309404262356682225","title":"Unknown","description":"The top GO terms show a highly diverse mix: ubiquitin\u2011dependent protein catabolism and proteasome regulation; B cell receptor signaling and type 2 immune response; DNA-templated transcription and protein homooligomerization; plus plant- or circadian-related terms like phototropism and circadian sleep/wake cycle. This spread across degradation, immune signaling, transcription, and circadian/plant processes provides no clear, shared function or pathway for the cluster, so a single cohesive label isn\u2019t evident.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0050853","count":4},{"id":"GO:0032436","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0051260","count":3}]},{"hash":"667966121746807829","title":"GPCR-Driven Thermogenesis Signaling","description":"The GO terms center on GPCR pathways that activate adenylate cyclase (including dopamine receptor signaling) and Rho signaling, alongside thermogenesis and temperature/pain-related responses, with supporting links to energy metabolism (electron transport chain). This points to a cohesive module coordinating thermogenic/metabolic regulation via GPCR signaling.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":11},{"id":"GO:0019233","count":11},{"id":"GO:0002024","count":11},{"id":"GO:0022900","count":10},{"id":"GO:0010579","count":10}]},{"hash":"7573826005647020","title":"Inflammation-Driven Coagulation and Vascular Regulation","description":"Most terms describe inflammatory responses (LPS response, inflammatory response) alongside coagulation and vascular processes (blood coagulation, vasoconstriction, blood pressure regulation). Additional terms for GPCR signaling and Rho pathways connect immune signaling to vascular tone, while the electron transport chain may reflect metabolic activation in immune cells. Overall, the cluster centers on inflammatory signaling intertwined with coagulation and vascular regulation.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":5},{"id":"GO:0019233","count":5},{"id":"GO:0045986","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0045907","count":5}]},{"hash":"525905645921019625","title":"Axon Growth and Microtubule Dynamics","description":"The top terms cluster around neural development and cytoskeletal control: neuron projection development, axon extension, microtubule polymerization and sliding, and localization to synapses. Together, these indicate a focus on axon growth and the underlying microtubule dynamics that shape neuronal morphology, with some broader developmental terms present but not overriding the neural-cytoskeletal theme.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043049","count":3},{"id":"GO:0035909","count":3},{"id":"GO:1902856","count":2},{"id":"GO:0031175","count":2},{"id":"GO:1902474","count":2}]},{"hash":"997366326356037535","title":"Unknown","description":"The top GO terms are highly diverse, spanning defense responses, brain development and left-right patterning, splicing, cell cycle/mitosis, ubiquitination, chromatin modification, and metal stress responses. There isn\u2019t a single cohesive biological theme tying these functions together, suggesting the cluster is heterogeneous or artifactually combined. Confidence: None","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050830","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0060972","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0000278","count":2}]},{"hash":"1599340432954512689","title":"Neuronal signaling and secretory trafficking","description":"The top GO terms point to signaling cascades (Rho regulation, GTPase activation, ERK/MAPK cascade) alongside neurotransmitter-related processes (chemical synaptic transmission, glutamate secretion) and Golgi-localized trafficking. Although there are a few ECM/immune terms (collagen fibril organization, angiogenesis, lectin pathway complement activation), the dominant theme centers on signal transduction and vesicle secretion/trafficking relevant to neuronal communication. Confidence in this thematic link is moderate due to the presence of non-neuronal terms that may reflect broader functional contexts. ","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0007268","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0014047","count":2}]},{"hash":"1877503981233792065","title":"DNA-Templated Transcription Regulation","description":"The top terms are dominated by transcription-related functions, especially DNA-templated transcription (GO:0006351) and negative regulation of transcription by RNA polymerase II (GO:0000122), pointing to a coherent theme of transcription initiation/regulation. Some terms are broader or less directly connected (e.g., growth or development), which may reflect annotation noise or pleiotropy, but the prevailing signal centers on transcription control.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0000122","count":3},{"id":"GO:0007576","count":2},{"id":"GO:0070895","count":2},{"id":"GO:0010729","count":2}]},{"hash":"1790406135478259868","title":"Immune and Inflammatory Response","description":"The Top Terms are dominated by inflammatory and immune-related processes (inflammatory response, immunoglobulin-mediated immune response, chemokine production), with additional signals pointing to regulatory and developmental pathways linked to immune function (e.g., TGF-\u03b2 signaling, embryonic development, apoptotic regulation). The strongest and most specific theme across the cluster is immune activation and inflammation, justifying a label centered on immune/inflammatory function.","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0016064","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0090197","count":2},{"id":"GO:0042493","count":2}]},{"hash":"1924756026685781953","title":"Cardiac morphogenesis and contractile function","description":"The top GO terms cluster around heart development and function, including right atrium morphogenesis, SA node action potential regulation, and cardiac muscle contraction, with supporting heart-related signaling (Notch in heart field) and related mechanotransduction and stress responses. This points to a cohesive theme of cardiac development and cardiomyocyte contractile activity, despite no detected interactions among the proteins. ","confidence":"High","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007205","count":6},{"id":"GO:0043547","count":5},{"id":"GO:0098907","count":5},{"id":"GO:0071456","count":5},{"id":"GO:0007613","count":5}]},{"hash":"383585320854893997","title":"Small-molecule metabolism and catabolic pathways","description":"The top GO terms point to a broad set of metabolism-related activities, including biosynthetic (biotin and antibiotic biosynthesis) and various catabolic processes (beta-ketoadipate, glucuronoside, 1,2-dichloroethane, prostaglandin catabolism) and a general response to toxic substances. With no network edges, the cluster appears defined by a shared theme of processing diverse small molecules rather than specific interactions, justifying a label focused on small-molecule metabolism and catabolism.","confidence":"Medium","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":6},{"id":"GO:0009102","count":4},{"id":"GO:0019380","count":3},{"id":"GO:1905344","count":3},{"id":"GO:0019740","count":3}]},{"hash":"963963076032047481","title":"Unknown","description":"The GO terms for this cluster are highly heterogeneous, spanning membrane trafficking, several signaling pathways (NF-kappaB, TNF, hypoxia/HIF-1alpha), protein stabilization, dolichol-linked oligosaccharide biosynthesis, and muscle differentiation, with no clear shared function or interaction among the proteins (Edges: 0). This lack of a cohesive theme makes it inappropriate to assign a concise, representative name.","confidence":"","size":16,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":1},{"id":"GO:1902306","count":1},{"id":"GO:0032088","count":1},{"id":"GO:0048227","count":1},{"id":"GO:1902072","count":1}]},{"hash":"858718392936891334","title":"Oxidative Stress Response and Detoxification","description":"This cluster is dominated by GO terms for response to starvation, toxin catabolic process, response to toxic substance, glutathione metabolic process, and cellular oxidant detoxification, pointing to a cellular defense program against chemical and nutrient stress. The inclusion of nucleotide-excision repair aligns with DNA damage response under stress. A few calcium-signaling terms appear, but the core signal centers on stress response and detoxification pathways. ","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":15},{"id":"GO:0009407","count":15},{"id":"GO:0009636","count":15},{"id":"GO:0040008","count":15},{"id":"GO:0006749","count":15}]},{"hash":"909975791671666937","title":"Mitotic progression and ubiquitin-mediated proteolysis","description":"This cluster is dominated by GO terms tied to mitosis and proteolysis via ubiquitin ligase pathways: exit from mitosis, G2/M transition, chromosome segregation, and SCF-dependent proteasomal degradation (neddylation supports cullin-RING ligases). The presence of DNA repair terms (NER and translesion synthesis) suggests coordination between cell-cycle control and DNA damage tolerance. Peroxisomal protein import and neuron projection development appear less central and may reflect annotation noise. Overall, the cluster centers on mitotic progression governed by ubiquitin-mediated proteolysis and related DNA repair processes.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0010458","count":15},{"id":"GO:0000086","count":15},{"id":"GO:0031146","count":15},{"id":"GO:0070911","count":15},{"id":"GO:0007059","count":15}]},{"hash":"1953115624778830533","title":"TGF-\u03b2/BMP Signaling Repression","description":"This cluster is dominated by GO terms indicating negative regulation of TGF-\u03b2 receptor signaling, cellular responses to TGF-\u03b2, and negative regulation of BMP signaling, with supporting terms for SMAD-related regulation and dephosphorylation. Together, these point to a theme of repressing or modulating the TGF-\u03b2/BMP pathway, including its downstream transcriptional responses. Some plant- or other-kingdom-specific terms appear, but the central signal is suppression of TGF-\u03b2/BMP signaling components and SMAD activity.","confidence":"High","size":15,"edges":88,"triangles":302,"max_degree":14,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0030512","count":11},{"id":"GO:0046827","count":11},{"id":"GO:0010074","count":9},{"id":"GO:0080005","count":9},{"id":"GO:0071560","count":9}]},{"hash":"1503425380661105145","title":"Rho GTPase signaling driving filopodium formation and migration","description":"This set centers on small GTPase signaling that controls cytoskeletal remodeling, including filopodium assembly, regulation, and cell spreading, which underpins cell migration. Mitochondrial fission and GABAergic synaptic processes are also linked through GTPase-regulated pathways, suggesting a broader role in motility and neural connectivity.","confidence":"High","size":15,"edges":32,"triangles":9,"max_degree":11,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007264","count":14},{"id":"GO:0045792","count":14},{"id":"GO:1900026","count":14},{"id":"GO:0046847","count":14},{"id":"GO:0051489","count":14}]},{"hash":"1427322817653352745","title":"Synaptic Vesicle Trafficking and Endocytosis","description":"The top GO terms cluster around synaptic vesicle transport (anterograde and retrograde), vesicle budding, and endocytosis, with pigmentation and locomotion phenotypes that can be tied to vesicle trafficking. While a few terms are more general, the core signal is clearly vesicle movement and endocytosis, justifying this label.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007165","count":2},{"id":"GO:0098586","count":2},{"id":"GO:0042147","count":2},{"id":"GO:0048490","count":2},{"id":"GO:0043473","count":2}]},{"hash":"836227415281563465","title":"Mammalian Developmental Signaling and Meiosis Regulation","description":"The cluster centers on tissue development and differentiation signals (mammary gland alveolus development; Leydig cell differentiation) and key developmental signaling pathways (canonical Wnt signaling; transcriptional regulation via RNA polymerase II). It also includes cell-cycle and meiosis-related terms (G1/S transition, CDK activity regulation, homologous chromosome pairing at meiosis), suggesting coordinated control of development with meiotic/cell-cycle regulation. A secondary note is transcriptional control across these processes, aligning with the DNA-templated transcription term. Overall, the set points to a theme of developmental signaling coupled with meiosis/cell-cycle regulation in mammals.","confidence":"Medium","size":15,"edges":64,"triangles":125,"max_degree":14,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060749","count":12},{"id":"GO:0006351","count":12},{"id":"GO:0033327","count":12},{"id":"GO:0000082","count":11},{"id":"GO:0019086","count":10}]},{"hash":"903490698693189565","title":"Receptor endocytosis and lysosomal trafficking","description":"The top GO terms cluster around receptor internalization and localization to lysosomes, as well as protein catabolic processes in the vacuole, which point to membrane receptor turnover and intracellular degradation. Additional terms touch on signaling pathways and neural/retinal development (photoreceptor differentiation, microglia development), suggesting a core theme of vesicle-mediated receptor trafficking withRelated developmental context. Overall, this label reflects the dominant function among the terms, with some peripheral connections to development. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031623","count":7},{"id":"GO:1900746","count":6},{"id":"GO:0090528","count":6},{"id":"GO:0061462","count":6},{"id":"GO:1904352","count":6}]},{"hash":"1435498195153227276","title":"Ubiquitin-Proteasome Quality Control","description":"The top GO terms cluster around ubiquitination/deubiquitination, autoubiquitination, ERAD, proteasomal regulation, and aggrephagy, indicating a cohesive theme of protein quality control via the ubiquitin-proteasome system and autophagy, with a few stray terms that are less central.","confidence":"High","size":15,"edges":105,"triangles":455,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0030433","count":9},{"id":"GO:0016579","count":8},{"id":"GO:0033132","count":7},{"id":"GO:0035973","count":7},{"id":"GO:1901799","count":7}]},{"hash":"72488355405597645","title":"RNA processing and translation regulation","description":"The cluster is enriched for mRNA processing (splicing, polyadenylation, modification) and multiple translation-related steps (initiation, preinitiation complex formation, reinitiation, and IRES-dependent initiation), indicating a module that coordinates post-transcriptional RNA processing with translational control, with some viral translation terms reflecting related mechanisms. ","confidence":"High","size":15,"edges":80,"triangles":267,"max_degree":14,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":3},{"id":"GO:0045292","count":3},{"id":"GO:0075525","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0075522","count":2}]},{"hash":"933955459395888148","title":"Vascular remodeling and hemostasis","description":"The top terms center on vascular development and tissue remodeling (blood vessel morphogenesis, collagen catabolism) along with immune/hemostatic activity (complement activation pathways and blood coagulation). Epithelial proliferation and stem cell maintenance further support tissue regeneration context, suggesting this cluster represents vascular remodeling and wound-healing processes with immune involvement.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0050673","count":4},{"id":"GO:0035019","count":4},{"id":"GO:1902262","count":4},{"id":"GO:0043046","count":4}]},{"hash":"323068700031039198","title":"Fertilization-Immune Interaction","description":"The cluster\u2019s top GO terms cluster around immune activity (inflammatory response, antimicrobial humoral response, cytolysis) and reproductive processes (sperm-egg recognition, fertilization), suggesting a link between immune defenses and fertilization events. Hormone-response terms (dehydroepiandrosterone, 11-deoxycorticosterone) may reflect signaling context in reproductive tissues, while a few terms (retina homeostasis, lactose biosynthetic process, peptidoglycan catabolism) look like outliers or annotation noise. Overall, the dominant theme points to interactions between immune processes and fertilization.","confidence":"Medium","size":15,"edges":20,"triangles":16,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:1903494","count":5},{"id":"GO:0006954","count":5},{"id":"GO:0035036","count":5},{"id":"GO:1903496","count":5},{"id":"GO:0005989","count":5}]},{"hash":"268588026126331703","title":"Unknown","description":"Unknown","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":4},{"id":"GO:0010446","count":3},{"id":"GO:0098789","count":3},{"id":"GO:0006398","count":3},{"id":"GO:0060291","count":2}]},{"hash":"198410096711536783","title":"Viral translation initiation and reinitiation","description":"This cluster is enriched for GO terms related to viral translation processes, including IRES-dependent initiation, translation reinitiation, and preinitiation complex formation, which together point to a shared function in initiating viral protein synthesis. Some terms about mRNA modification and ncRNA-mediated gene silencing appear as ancillary RNA processing links, but the dominant signal is translation initiation in a viral context.","confidence":"High","size":15,"edges":102,"triangles":419,"max_degree":14,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075525","count":9},{"id":"GO:1900363","count":9},{"id":"GO:0075522","count":9},{"id":"GO:0002188","count":9},{"id":"GO:0001731","count":9}]},{"hash":"1003699384896183114","title":"Membrane-lipid signaling and vesicle regulation","description":"The top GO terms cluster around membrane-related processes (lipid biosynthesis, phospholipid metabolism, IP3 signaling) and vesicle trafficking/exocytosis (intracellular transport, synapse assembly, regulation of synaptic vesicle exocytosis). The presence of angiogenesis and neutrophil/B cell differentiation terms suggests this signaling network also interfaces with vascular and immune regulation. Although there are no edges, the common thread appears to be membrane-associated signaling that governs vesicle dynamics across neural, immune, and vascular contexts. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006886","count":5},{"id":"GO:0009395","count":4},{"id":"GO:2000300","count":3},{"id":"GO:0016525","count":3},{"id":"GO:0006646","count":3}]},{"hash":"462823482534670054","title":"Lamellipodium Formation and Rac Signaling","description":"The cluster is enriched for actin dynamics and membrane protrusion processes: lamellipodium assembly/morphogenesis, Rac protein signal transduction, barbed-end actin filament capping, and positive regulation of ruffle assembly, pointing to coordinated actin cytoskeleton remodeling driving lamellipodium formation and cell movement. While there are immune/trafficking hints (LPS response, transcytosis), the dominant theme is actin-mediated protrusion and Rac signaling.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0060368","count":2},{"id":"GO:0045056","count":2},{"id":"GO:0070830","count":2},{"id":"GO:0016601","count":2}]},{"hash":"2077291370911844358","title":"Unknown","description":"The GO terms span detoxification, biosynthesis, stress/immune response, development, transcription regulation, and various metabolic processes, with no clear shared function or pathway tying all 15 proteins together. The absence of edges/triangles and the diversity of terms support treating this as a heterogeneous set rather than a coherent functional module.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":4},{"id":"GO:0017000","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0030901","count":3}]},{"hash":"2087323883246853666","title":"KIT signaling and synaptic plasticity","description":"The top GO terms point toKIT signaling, regulation of GTPase/Ras activity, IP3 signaling, and long-term synaptic potentiation, suggesting a core theme of extracellular signal transduction through Ras/PI3K/PLC pathways that can influence neuronal synaptic function. The additional terms for synapse assembly and B cell differentiation indicate broader signaling roles spanning immune and neural contexts, but the converging theme remains signaling cascades downstream of growth factor receptors. ","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0038109","count":4},{"id":"GO:0010863","count":4},{"id":"GO:0043552","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0007416","count":3}]},{"hash":"1359951299028970639","title":"Developmental Growth Factor Signaling and Morphogenesis","description":"The cluster is enriched for terms involving growth factor\u2013driven signaling and tissue morphogenesis, including VEGF responses (endothelial migration), axon extension, epithelial proliferation in mammary/lung development, JNK pathway regulation, and protein autophosphorylation/centrosome cycling, pointing to coordinated developmental signaling rather than a single pathway. A few outlier terms (e.g., pancreatic juice secretion regulation) exist, but the core theme is developmentally oriented growth signaling and morphogenesis.","confidence":"High","size":15,"edges":52,"triangles":140,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090188","count":15},{"id":"GO:0035924","count":15},{"id":"GO:0046330","count":15},{"id":"GO:0014043","count":15},{"id":"GO:0045773","count":15}]},{"hash":"1543729654656861380","title":"Embryonic tissue development","description":"The top GO terms span multiple tissues and developmental processes (midbrain, skeletal/osteoblasts, pancreas, uterus, glial differentiation, neuromuscular development), plus collagen biosynthesis, indicating broad embryonic development and differentiation rather than a single pathway. This suggests a multi-tissue developmental theme, hence the label \"Embryonic tissue development\" with medium confidence.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030901","count":6},{"id":"GO:0000122","count":4},{"id":"GO:0032964","count":3},{"id":"GO:0048706","count":3},{"id":"GO:0002076","count":3}]},{"hash":"583999108779972849","title":"Unknown","description":"The listed GO terms span diverse developmental and signaling processes across multiple tissues (muscle, hair follicle, heart; B cell signaling; synaptic activity; transcription; Rho signaling), with no single cohesive function tying the proteins together, so a specific label isn\u2019t justifiable.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014904","count":3},{"id":"GO:0030890","count":3},{"id":"GO:0050853","count":3},{"id":"GO:0071285","count":3},{"id":"GO:0001942","count":3}]},{"hash":"844278712988308808","title":"Ribosome Biogenesis and Translation","description":"This cluster is dominated by GO terms for ribosome biogenesis (GO:0042254) and translation (GO:0006412), pointing to core protein synthesis machinery as the shared function. The other terms (calcineurin-NFAT signaling, reproductive cues in nematodes, dopamine metabolism, cell cycle regulation) suggest additional, context-specific roles or pleiotropy, but the primary signal appears to be protein synthesis-related processes. Confidence: Medium","confidence":"","size":15,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042254","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0033173","count":2},{"id":"GO:0034608","count":2},{"id":"GO:0035039","count":2}]},{"hash":"2099065180706515707","title":"TORC1-Linked Transcription and DNA Replication Regulation","description":"The terms point to a regulatory module where TORC1 signaling coordinates gene expression and replication, with supporting processes in GTPase signaling, mRNA transport, and chromatin/modification (histone deacetylation, desumoylation). While there isn\u2019t a single tightly defined pathway, the dominant theme is growth-signaling coupling to transcription and DNA replication control.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038202","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0051028","count":3},{"id":"GO:0070262","count":3},{"id":"GO:0006351","count":3}]},{"hash":"1918332355107792560","title":"Antiviral Innate Immunity and Antigen Presentation","description":"The terms show a cohesive focus on defense against viruses, innate and adaptive immune responses, and regulation of MHC class I biosynthesis, along with ubiquitin-proteasome\u2013mediated protein catabolism and NF-kappaB signaling, all central to antigen processing and presentation in antiviral immunity. Microtubule-related localization and transport terms also align with intracellular trafficking important for antigen processing/presentation. Overall, the cluster reflects antiviral immune responses and antigen presentation pathways.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0051607","count":9},{"id":"GO:0045087","count":9},{"id":"GO:0007026","count":7},{"id":"GO:0042787","count":6},{"id":"GO:0031146","count":6}]},{"hash":"230463909060983351","title":"Immune signaling and interferon response","description":"This cluster shows a pattern centered on immune system processes, including response to type I interferon, humoral immune response, and central tolerance induction, suggesting roles in immune activation and regulation. While there are cytoskeletal terms related to cell movement, the dominant signal across the top GO terms points to immune signaling and tolerance, with some pleiotropy to cytoskeletal dynamics and development. Confidence: Medium","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000394","count":2},{"id":"GO:0030041","count":2},{"id":"GO:0010596","count":2},{"id":"GO:0034340","count":2},{"id":"GO:0006959","count":2}]},{"hash":"1016918069026864846","title":"Developmental transcriptional regulation","description":"These terms cluster around development and differentiation across neural, glial, adipose tissues, plus transcriptional control and signaling modulation (DNA-templated transcription, Wnt regulation). The pattern suggests proteins involved in guiding lineage specification and tissue formation through transcriptional regulation, rather than a single pathway. Confidence: Medium","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031100","count":2},{"id":"GO:0007399","count":2},{"id":"GO:0090090","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0045819","count":2}]},{"hash":"108061130795464245","title":"Heart and bone development with neural signaling","description":"The proteins cluster around developmental processes such as heart development, angiogenesis, and ossification, with additional signals related to neural activity (excitatory postsynaptic potential and potassium channel clustering), suggesting a coordinated program of cardiovascular and skeletal development with neural signaling components.","confidence":"Medium","size":15,"edges":15,"triangles":1,"max_degree":12,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006490","count":5},{"id":"GO:0001525","count":4},{"id":"GO:0070588","count":4},{"id":"GO:0032516","count":4},{"id":"GO:0060079","count":4}]},{"hash":"1909950911294679998","title":"Dopaminergic GPCR Signaling and Metabolic Regulation","description":"The cluster is enriched for GO terms centered on GPCR signaling, especially dopamine receptor pathways that activate adenylate cyclase, along with related signaling (Rho) and responses (prostaglandin, insulin secretion, blood pressure). These together suggest a core theme of GPCR-mediated signaling that links metabolic and cardiovascular physiology, with some additional associations to proliferation and behavior.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0008283","count":5},{"id":"GO:0007191","count":5},{"id":"GO:0071380","count":5},{"id":"GO:0001662","count":4},{"id":"GO:0008284","count":4}]},{"hash":"1251640516238583220","title":"Immune signaling and inflammatory response","description":"The top GO terms point toward immune activation and inflammatory signaling (lipopolysaccharide detection, I-kappaB phosphorylation/NF-\u03baB, TNF production, dsRNA response). While a few terms relate to metabolism or development (insulin secretion, dopamine response, otolith morphogenesis, meristem regulation, VEGF signaling), the dominant pattern is immune/stress signaling, suggesting the cluster centers on inflammatory signaling processes with some annotation noise.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061178","count":2},{"id":"GO:0032497","count":1},{"id":"GO:1903351","count":1},{"id":"GO:0006963","count":1},{"id":"GO:0043330","count":1}]},{"hash":"1424569003437565566","title":"Unknown","description":"The top GO terms cover a wide range: estrous cycle, immune response, mitotic spindle orientation, sporulation, skeletal morphogenesis, iron ion homeostasis, multicellular development, mechanical stimulus response, oligodendrocyte differentiation, and positive regulation of TLR4 signaling. This spread across reproduction, immunity, development, and signaling indicates no single, cohesive function characterizes the cluster. Therefore the cluster is labeled Unknown.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0044849","count":3},{"id":"GO:0006955","count":3},{"id":"GO:0000132","count":3},{"id":"GO:0030435","count":3},{"id":"GO:0048705","count":2}]},{"hash":"1536928605839254577","title":"Developmental morphogenesis and tissue differentiation","description":"These terms cluster around developmental and differentiation processes across multiple tissues (placenta, cartilage, pancreas) and morphogenesis, including EMT and pattern formation. While there is diversity (e.g., oxidative stress and innate immunity terms), the strongest common thread is embryonic development and tissue differentiation. So the label reflects a broad developmental theme.","confidence":"High","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006977","count":2},{"id":"GO:0060707","count":2},{"id":"GO:0060806","count":2},{"id":"GO:0060536","count":2},{"id":"GO:0035270","count":2}]},{"hash":"366855249690897919","title":"Mitotic spindle and chromosome segregation","description":"Most terms reference mitosis-related processes (astral microtubule organization, spindle assembly, metaphase/anaphase transition, pronuclear migration, pole cell formation). While a few terms such as Wnt signaling or viral process appear, the dominant signal points to components involved in spindle organization and chromosome movement during cell division, justifying this label.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016055","count":2},{"id":"GO:0016032","count":2},{"id":"GO:0031321","count":2},{"id":"GO:1901998","count":2},{"id":"GO:0045444","count":2}]},{"hash":"295750571879201172","title":"Developmental transcription and organogenesis","description":"The terms cluster around broad developmental processes (neuron development, ureteric bud morphogenesis, respiratory system development, pregnancy) and transcriptional regulation (DNA-templated transcription, termination of RNAP II transcription, circadian regulation of gene expression), suggesting a theme of developmental regulation across organ systems rather than a single specific function.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":2},{"id":"GO:0048666","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0070294","count":2},{"id":"GO:0032922","count":2}]},{"hash":"1226994712541891338","title":"Unknown","description":"The GO terms cover a wide range of distinct cellular processes (transcription, mitotic spindle assembly, GTPase signaling, phagolysosome formation, osteoclast differentiation regulation, PI dephosphorylation, estrogen signaling, neural development, chemotaxis regulation, and cytoplasm organization) with no single unifying function, so a specific, representative name cannot be confidently assigned.","confidence":"","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006351","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0001845","count":2},{"id":"GO:0045671","count":2}]},{"hash":"383420403390235135","title":"Endosome-Golgi Transport and RNA Processing","description":"The top GO terms are dominated by vesicle trafficking between endosomes and the Golgi/ melanosomes, indicating a core role in intracellular transport. Several terms also point to RNA metabolism (DNA-templated transcription, mRNA splicing, nuclear export), suggesting some cluster members may engage in gene expression regulation or nuclear-cytoplasmic shuttling. Together, these terms imply a theme centered on endomembrane transport with supporting RNA processing activities.","confidence":"Medium","size":15,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035646","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0006895","count":2},{"id":"GO:0000055","count":1},{"id":"GO:1903026","count":1}]},{"hash":"904806765874728655","title":"Immune Activation and Metal Ion Transport","description":"This cluster shows multiple terms tied to T cell\u2013driven immune responses (TH1 regulation, IL-2/IL-3 production, T cell cytokine production, respiratory burst) alongside transporter and homeostasis terms for various metal ions (iron, cobalt, manganese) and nutrients like nitrite and glucose. The co-occurrence suggests proteins that link immune signaling to metal ion transport and redox processes, consistent with immune cell activation and metabolic support.","confidence":"Medium","size":14,"edges":23,"triangles":1,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0015707","count":6},{"id":"GO:1904659","count":4},{"id":"GO:0002827","count":4},{"id":"GO:0002369","count":4},{"id":"GO:1903988","count":4}]},{"hash":"1407459523196057626","title":"ER-Golgi Trafficking and Synaptic Receptor Sorting","description":"This cluster is dominated by GO terms for ER-to-Golgi and intra-Golgi transport, SNARE complex assembly, and vesicle fusion, plus exocytic insertion of neurotransmitter receptors to the postsynaptic membrane and related synaptic plasticity (LTP). Together these indicate coordinated vesicle trafficking between the ER, Golgi, endosomes, and plasma membrane in neurons, underpinning receptor localization and synaptic strength.","confidence":"High","size":14,"edges":50,"triangles":75,"max_degree":11,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0006888","count":8},{"id":"GO:0098967","count":7},{"id":"GO:0090161","count":7},{"id":"GO:0060291","count":7},{"id":"GO:0048280","count":7}]},{"hash":"511836308804707053","title":"Zinc Ion Transport and Homeostasis","description":"The cluster is enriched for GO terms centered on zinc handling, including zinc ion import across the plasma membrane, intracellular zinc ion homeostasis, detoxification of zinc ion, and cellular responses to zinc ion status, with additional links to cadmium transport and ER-Golgi vesicle trafficking. These together suggest a cohesive group of proteins involved in zinc uptake, distribution, and detoxification, with trafficking through the secretory pathway possibly supporting zinc handling in vesicles. Limb development appears as a less representative annotation, but the zinc-focused terms dominate the cluster\u2019s theme.","confidence":"High","size":14,"edges":10,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0010312","count":2},{"id":"GO:1903615","count":2},{"id":"GO:0034224","count":2},{"id":"GO:0006830","count":2}]},{"hash":"1250868832494996462","title":"Synaptic vesicle trafficking and postsynaptic receptor insertion","description":"These terms converge on vesicle transport through the ER-Golgi network to the Golgi and plasma membrane, SNARE-mediated fusion, and the exocytic delivery of neurotransmitter receptors to the postsynaptic membrane, underpinning synaptic potentiation and receptor localization.","confidence":"High","size":14,"edges":53,"triangles":96,"max_degree":12,"top_function":"cell differentiation","top_go_terms":[{"id":"GO:0098967","count":12},{"id":"GO:0090161","count":12},{"id":"GO:0060291","count":12},{"id":"GO:0006888","count":12},{"id":"GO:0048280","count":12}]},{"hash":"988574774217840203","title":"Mitochondrial Transport and Energy Metabolism","description":"This cluster centers on mitochondrial function, with proteins involved in regulating mitochondrial membrane potential and transporting key metabolites across mitochondrial membranes (ADP, citrate, phosphate, and other ions). The inclusion of the malate-aspartate shuttle and adaptive thermogenesis points to energy production and metabolic regulation, with insulin response reflecting metabolic signaling. Overall, the terms cohere around mitochondrial transport/metabolism rather than unrelated processes.","confidence":"High","size":14,"edges":11,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051881","count":5},{"id":"GO:0097274","count":5},{"id":"GO:0032869","count":4},{"id":"GO:0035435","count":4},{"id":"GO:0043490","count":4}]},{"hash":"267050139825729867","title":"Muscle filament assembly and cytoskeleton organization","description":"This cluster\u2019s top GO terms are dominated by actin filament bundle assembly, sarcomere organization, and skeletal muscle thin filament assembly, suggesting a shared role in muscle structure and cytoskeleton dynamics. Calcium response and energy-related terms support muscle function; obsolete histone acetylation terms appear as noise.","confidence":"High","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":14},{"id":"GO:0051017","count":14},{"id":"GO:0043982","count":14},{"id":"GO:0045214","count":14},{"id":"GO:0030240","count":14}]},{"hash":"1189609875014719188","title":"Neural development and synaptic signaling","description":"The top GO terms cluster around nervous system development, substantia nigra development, and regulation of neuronal synaptic plasticity, with signals from ERK/MAPK pathways and GTPase activity, pointing to a coherent role in neural development and activity-dependent signaling. Some terms relate to other tissues but do not outweigh the neural-centric theme.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007399","count":5},{"id":"GO:0006998","count":5},{"id":"GO:0048169","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0043525","count":4}]},{"hash":"933983832175294983","title":"ER stress response and protein quality control","description":"The factors cluster around unfolded protein response, ER stress, and protein folding/trafficking, including responses to unfolded proteins and heat, translation regulation during ER stress, and post-translational targeting to membranes. Some terms (mesoderm formation, parathyroid hormone response) are less connected and may reflect broader signaling or annotation noise, but the dominant pattern is ER stress\u2013related protein quality control.","confidence":"High","size":14,"edges":89,"triangles":341,"max_degree":13,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0031204","count":13},{"id":"GO:0070389","count":13},{"id":"GO:1900035","count":13},{"id":"GO:0001707","count":13},{"id":"GO:0006986","count":13}]},{"hash":"1474931800041849526","title":"Amino Acid and Energy Metabolism","description":"Top GO terms cluster around amino acid metabolism (biosynthesis and catabolism) and central carbon metabolism, including energy production components (pyruvate decarboxylation to acetyl-CoA, glyoxylate cycle, electron transport chain). This points to a metabolic module rather than signaling, with some noise from plant-specific terms like auxin biosynthesis.","confidence":"Medium","size":14,"edges":36,"triangles":84,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0009851","count":4},{"id":"GO:0009097","count":4},{"id":"GO:0009234","count":4},{"id":"GO:0019310","count":4},{"id":"GO:0006086","count":4}]},{"hash":"1749131057927190526","title":"RNA processing and translation initiation","description":"This cluster is dominated by GO terms for translation reinitiation and the formation of the translation preinitiation complex, along with mRNA splicing and branch site recognition, indicating a cohesive role in RNA processing and translation initiation. Some chromatin modification and developmental terms are present but marked obsolete, suggesting the core function is RNA processing/translation rather than chromatin regulation. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":10},{"id":"GO:0001731","count":10},{"id":"GO:0000398","count":7},{"id":"GO:0007369","count":5},{"id":"GO:0043982","count":5}]},{"hash":"2045642626401320921","title":"Developmental signaling and morphogenesis","description":"This cluster combines terms across tissue development and signaling: morphogenesis-related processes (hemidesmosome assembly, nephric duct morphogenesis, angiogenesis), central signaling pathways (PI3K/AKT signaling, STAT phosphorylation), neuronal development/plasticity (dendrite self-avoidance, long-term synaptic plasticity), and regulatory signals (FSH response, TLR9 signaling). The shared theme is signaling-driven development and tissue organization across multiple contexts rather than a single function, supporting a label of developmental signaling and morphogenesis. ","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0031581","count":12},{"id":"GO:0071372","count":12},{"id":"GO:0070593","count":12},{"id":"GO:0072178","count":12},{"id":"GO:0034164","count":12}]},{"hash":"453656523902497474","title":"Translation initiation and reinitiation","description":"The cluster is dominated by GO terms about forming the translation preinitiation complex, translation initiation and its regulation, and IRES-dependent viral initiation and reinitiation, indicating a cohesive group of proteins involved in ribosome assembly and the initiation phase of translation. Some nearby terms (meiosis, germ-line cyst) appear as minor outliers, but the core theme centers on translation initiation. ","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":5},{"id":"GO:0008283","count":5},{"id":"GO:0048140","count":5},{"id":"GO:0075522","count":5}]},{"hash":"1097669507654551279","title":"Sperm motility and ion transport","description":"This cluster is enriched for GO terms tied to potassium ion transport, membrane potential stabilization, and transmembrane transport, plus a clear signal for flagellated sperm motility. Calcium signaling and temperature response terms further support a role in regulating flagellar beating through ionic homeostasis. While some terms like sensory perception of pain or development appear, the dominant theme centers on sperm motility linked to ion regulation.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019233","count":6},{"id":"GO:0007275","count":5},{"id":"GO:0030322","count":5},{"id":"GO:0030007","count":5},{"id":"GO:1990573","count":4}]},{"hash":"2147466588147552390","title":"Muscle morphogenesis and actin dynamics","description":"The cluster centers on morphogenesis and muscle-related differentiation, with strong signals for actin cytoskeleton remodeling (actin depolymerization, lamellipodium assembly), cell adhesion and signaling (cell-cell junctions, integrin signaling), calcium/NFAT pathways, and stretch sensing, suggesting a coordinated muscle development and cytoskeletal remodeling program across tissues, despite some broader regulatory terms like miRNA silencing.","confidence":"High","size":14,"edges":13,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0048317","count":11},{"id":"GO:2000691","count":11},{"id":"GO:0030835","count":11},{"id":"GO:0045216","count":11},{"id":"GO:0048735","count":11}]},{"hash":"1572182505083259860","title":"GTPase-driven signaling and cytoskeletal remodeling","description":"The cluster is dominated by small GTPase\u2013mediated signaling and processes tied to cytoskeletal changes, such as filopodium assembly and substrate-driven cell spreading, with additional representation of receptor signaling pathways (Ephrin, EGFR, Wnt) and immune signaling. This points to a cohesive theme of signaling cascades that regulate adhesion, motility, and structural remodeling in both immune and neural contexts.","confidence":"High","size":14,"edges":14,"triangles":1,"max_degree":6,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0007264","count":9},{"id":"GO:1900026","count":9},{"id":"GO:0046847","count":9},{"id":"GO:0051835","count":8},{"id":"GO:0048013","count":8}]},{"hash":"159684155518466893","title":"Ubiquitin-Dependent Proteolysis and Signaling","description":"The cluster is dominated by ubiquitin-related processes (ubiquitin-dependent proteolytic process, protein ubiquitination, polyubiquitination), indicating a group involved in tagging and degrading proteins. Additional terms point to intracellular signaling and regulation of ubiquitination, suggesting these proteins influence signaling pathways via ubiquitin modifications. Some terms about NF-kappaB regulation, SA node action potential, and vitamin D response imply broader, context-specific regulatory roles, but the unifying theme remains ubiquitin-mediated proteostasis and signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0035556","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0032088","count":4},{"id":"GO:0098907","count":4}]},{"hash":"503912173079245361","title":"Adhesion-driven vascular and skeletal development","description":"The cluster is dominated by cell adhesion genes (cell-matrix, cell-substrate, and cell-cell adhesion) and development-related terms (aorta development, mesenchymal stem cell differentiation, osteoclast regulation, multicellular organism development), with supporting signals from Wnt pathways and thyroid hormone generation, pointing to adhesion-mediated tissue organization in vascular and skeletal contexts. The immune-related complement term is less central to the main theme. ","confidence":"Medium","size":14,"edges":3,"triangles":0,"max_degree":2,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007160","count":11},{"id":"GO:0010811","count":10},{"id":"GO:0001867","count":10},{"id":"GO:0007275","count":10},{"id":"GO:0007157","count":10}]},{"hash":"615483443999175281","title":"Adipogenesis and adipose tissue development","description":"This cluster is driven by strong adipose-related terms: fat cell differentiation (GO:0045444) and positive regulation of adipose tissue development (GO:1904179), suggesting a core adipogenesis theme. The presence of developmental terms like heart development and growth plate cartilage development indicates broader embryonic-pattern themes that may share pathways with adipose formation. In addition, inflammatory and LPS-response terms point to immune-modulatory aspects often linked to adipose tissue. Overall, the most representative function appears to be adipogenesis and adipose tissue development, with ancillary developmental and immune-related contexts.","confidence":"Medium","size":14,"edges":10,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0045444","count":8},{"id":"GO:0007507","count":7},{"id":"GO:0007566","count":6},{"id":"GO:0071222","count":6},{"id":"GO:0008584","count":6}]},{"hash":"2296368593125290631","title":"Host Cell Adhesion and Immune Modulation","description":"This cluster centers on proteins involved in cell\u2013cell adhesion (homophilic/heterophilic) and immune signaling, including regulation of IL-2/IL-4 production, NK cell cytotoxic susceptibility, and tumor cell detection, with additional context from angiogenesis and synapse assembly, suggesting a role in immune contact and tissue-level communication during host-microbe interactions.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":11},{"id":"GO:0007157","count":11},{"id":"GO:0032516","count":9},{"id":"GO:0001525","count":7},{"id":"GO:0051965","count":6}]},{"hash":"236305499621444053","title":"Cardiovascular Development","description":"The strongest signals are heart- and vessel-related: cardiac vascular smooth muscle cell development, sinus venosus morphogenesis, and regulation of heart rate, pointing to a cardiovascular development/function theme. Some unrelated terms (stomatal development, pigmentation) and obsolete GO terms appear as noise, but the core cluster centers on heart/mate morphogenesis and function.","confidence":"Medium","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:2000820","count":14},{"id":"GO:2000227","count":14},{"id":"GO:0060948","count":14},{"id":"GO:0010374","count":14},{"id":"GO:0006959","count":14}]},{"hash":"617889199149751622","title":"Chondroitin sulfate proteoglycan biosynthesis","description":"Top GO signals point to chondroitin sulfate/ proteoglycan biosynthesis, suggesting extracellular matrix proteoglycan production as the core function of this cluster. Despite a few unrelated or obsolete terms (e.g., telomere maintenance, histone mRNA catabolic processes), the repeated emphasis on chondroitin sulfate proteoglycan biosynthetic processes indicates a cohesive ECM-related theme.","confidence":"High","size":14,"edges":23,"triangles":17,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0030206","count":3},{"id":"GO:0050650","count":3},{"id":"GO:0006486","count":3},{"id":"GO:0000723","count":2},{"id":"GO:1903469","count":2}]},{"hash":"1413121716752345396","title":"Unknown","description":"The GO terms are a mix of neural development and synaptic-related processes (neuroblast differentiation, synapse organization, cholinergic transmission) alongside diverse metabolic and stress responses (glucocorticoid response, xenobiotic response, lipid and fatty acid metabolism, GA signaling, cellulose catabolism). There is no single cohesive function linking all terms, so a specific label cannot be confidently assigned.","confidence":"","size":14,"edges":16,"triangles":3,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0051384","count":3},{"id":"GO:0014016","count":2},{"id":"GO:0009939","count":2},{"id":"GO:0042493","count":2},{"id":"GO:0050808","count":2}]},{"hash":"1234149702534610344","title":"Central carbon metabolism and mitochondrial respiration","description":"The proteins show strong enrichment for glycolysis, TCA cycle, and mitochondrial NADH oxidation/ETC activities, indicating a cohesive energy-production cluster centered on mitochondrial metabolism. A few additional terms (RNA decapping, protein quality control, endothelial proliferation, erythrocyte differentiation) are less connected and likely incidental. Overall, the label reflects the core function: energy metabolism with mitochondrial involvement.","confidence":"High","size":14,"edges":48,"triangles":57,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006099","count":3},{"id":"GO:0009098","count":2},{"id":"GO:0006103","count":2},{"id":"GO:0006096","count":2},{"id":"GO:0006120","count":2}]},{"hash":"1853780365898487198","title":"Aromatic and Lipid Compound Catabolism","description":"Top GO terms indicate multiple catabolic pathways across aromatic substrates (beta-ketoadipate pathway, stilbene and 3-phenylpropionate catabolic processes) and lipid substrates (triglyceride catabolic process, phospholipid dephosphorylation, prostaglandin catabolic process). While some terms are obsolete or broader (e.g., antibiotic biosynthetic process, nitrogen utilization), the common theme is degradation of diverse organic molecules, aligning with a metabolic catabolism cluster focused on aromatics and lipids.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0042952","count":5},{"id":"GO:0046839","count":5},{"id":"GO:0046272","count":5},{"id":"GO:0097755","count":5}]},{"hash":"229393692432226800","title":"Unknown","description":"The cluster shows a mix of unrelated GO terms (transport, photosynthesis, nervous system remodeling, cell polarity, transcriptional regulation, cytokine signaling, cytoskeletal assembly, and chemotaxis) including obsolete terms, with no single dominant theme. This prevents a coherent, specific label.","confidence":"","size":14,"edges":91,"triangles":364,"max_degree":13,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":1},{"id":"GO:0006810","count":1},{"id":"GO:0019684","count":1},{"id":"GO:0035193","count":1},{"id":"GO:0030010","count":1}]},{"hash":"1093631953870064377","title":"Amino sugar and nucleotide-sugar metabolism","description":"This cluster's proteins are centered on amino sugar handling and nucleotide-sugar biosynthesis: UDP-N-acetylglucosamine biosynthesis, GlcNAc/GlcN catabolic routes, and N-acetylneuraminate catabolism, with support from the pentose phosphate shunt and nicotinamide/nicotinate metabolism. Together these terms point to a coherent theme of amino sugar/nucleotide-sugar metabolism within broader carbohydrate metabolism; the phenazine biosynthetic term appears as an outlier but does not negate the overall focus.","confidence":"High","size":14,"edges":6,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0006048","count":1},{"id":"GO:0006098","count":1},{"id":"GO:0019262","count":1},{"id":"GO:0005975","count":1},{"id":"GO:0006043","count":1}]},{"hash":"71866425607189190","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":83,"triangles":286,"max_degree":13,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":5},{"id":"GO:0006260","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0006351","count":4}]},{"hash":"666380953858890475","title":"Diverse metabolite biosynthesis enzymes","description":"This cluster's top GO terms point to a wide range of biosynthetic processes, including retinol metabolism, antibiotic and O-antigen biosynthesis, GDP-mannose and hexose-linked pathways, PHB biosynthesis, and various specialized metabolite productions (tropane alkaloids, acetoin catabolism). While there is one regulatory term present, the dominant signal is diverse biosynthetic metabolism, suggesting the proteins function broadly in metabolite synthesis rather than a single, shared pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0055114","count":7},{"id":"GO:0042572","count":6},{"id":"GO:0006355","count":6},{"id":"GO:0042619","count":6},{"id":"GO:0017000","count":5}]},{"hash":"2008040824823532349","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045740","count":3},{"id":"GO:0051973","count":3},{"id":"GO:0032212","count":3},{"id":"GO:0001944","count":3},{"id":"GO:0010833","count":3}]},{"hash":"1787127519752261432","title":"Placental angiogenesis","description":"The GO terms cluster around placental development and vascular formation (maternal placenta development, labyrinthine layer blood vessel development, VEGF-related response) with supporting signals for cell migration, survival, and hematopoiesis (lamellipodium assembly, PI3K/AKT signaling, hemopoiesis, apoptosis). DNA replication is a common proliferative theme but does not define the specific tissue context as strongly as the placenta- and vessel-related terms. Thus, the cluster most likely reflects placental vascular development and associated hematopoietic processes.","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:0035924","count":3},{"id":"GO:0060716","count":3},{"id":"GO:0043491","count":3},{"id":"GO:0001893","count":3}]},{"hash":"662136195662095478","title":"Embryonic morphogenesis and organ development","description":"The top GO terms point to diverse developmental processes across multiple tissues\u2014palate formation, EMT in heart development, placental and endocrine development, trophoblast differentiation, cartilage morphogenesis, left-right patterning, pancreatic and hair follicle development, and mesoderm formation. This indicates a cluster representing broad embryonic morphogenesis and organogenesis rather than a single tissue-specific function.","confidence":"High","size":14,"edges":16,"triangles":0,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":12},{"id":"GO:0003198","count":11},{"id":"GO:0060806","count":11},{"id":"GO:0035270","count":11},{"id":"GO:0060707","count":11}]},{"hash":"2231425274981347918","title":"Developmental MAPK signaling and vesicle trafficking","description":"The top GO terms cluster around MAPK signaling (ERK1/2 and JNK cascades) and neural development (axon extension, neuron apoptotic regulation), plus epithelial development signals (hair follicle placode formation, cell-cell adhesion). The inclusion of Golgi organization and multivesicular body sorting suggests vesicle trafficking is a key supporting process for these signaling events, with Rap signaling tying into small GTPase\u2013regulated pathways that feed into MAPK cascades. Overall, a coherent theme of signaling-driven development with vesicular transport.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0070374","count":5},{"id":"GO:0043525","count":5},{"id":"GO:0007030","count":4},{"id":"GO:0090136","count":3},{"id":"GO:0060789","count":3}]},{"hash":"544543953664642432","title":"Tissue morphogenesis and vascular development","description":"This cluster centers on developmental processes and tissue formation, highlighted by cell morphogenesis, heart development, vascular/endothelial regulation, and lineage commitment (osteoblasts, adipose). Supporting terms on lamellipodium morphogenesis, centrosome localization, and PI signaling suggest coordinated cell migration and signaling during tissue morphogenesis. Confidence: Medium","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":3},{"id":"GO:0045053","count":3},{"id":"GO:0045907","count":2},{"id":"GO:0007507","count":2},{"id":"GO:2000352","count":2}]},{"hash":"1797532892403557886","title":"Neuronal development and synaptic plasticity","description":"This cluster centers on neural development and synaptic function: positive regulation of neuron projection development, long-term synaptic potentiation, and astrocyte differentiation point to nervous system growth and plasticity. Supporting cellular processes such as COPII vesicle cargo loading and insulin receptor signaling suggest secretory and metabolic pathways that help neuronal signaling. Peripheral terms like interleukin-8 production and uterus development may reflect broader signaling contexts rather than a neural-specific theme. Overall, the core theme is neural development and synaptic plasticity with related cellular signaling.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010976","count":3},{"id":"GO:0060291","count":3},{"id":"GO:0045721","count":3},{"id":"GO:0060065","count":3},{"id":"GO:0090110","count":3}]},{"hash":"2259883719635152259","title":"ECM Collagen Biosynthesis and Fibril Organization","description":"The top GO terms emphasize collagen biosynthetic process and fibril organization, with additional signals regulating coagulation and immune cell chemotaxis, and pathways involving ERK, JAK, PI3K, and tyrosine kinases. This suggests a cluster centered on collagen production/remodeling in the extracellular matrix linked to signaling cascades and inflammatory/coagulation responses.","confidence":"High","size":14,"edges":39,"triangles":62,"max_degree":11,"top_function":"wound healing","top_go_terms":[{"id":"GO:0090026","count":4},{"id":"GO:0070374","count":4},{"id":"GO:0010951","count":3},{"id":"GO:0030199","count":3},{"id":"GO:0032964","count":3}]},{"hash":"1270238635974792385","title":"Vascular and skeletal development via cell adhesion","description":"The cluster is dominated by adhesion-related GO terms (cell-matrix adhesion, heterophilic and homophilic cell-cell adhesion) and developmental processes (aorta and coronary vasculature development, multicellular organism development, ossification). This points to adhesion-mediated tissue morphogenesis spanning vascular and skeletal contexts, with supporting signals for chondrocyte regulation and neural synapse assembly.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007160","count":6},{"id":"GO:0007157","count":6},{"id":"GO:0035904","count":5},{"id":"GO:0060976","count":5},{"id":"GO:0007275","count":5}]},{"hash":"616723120817888878","title":"Developmental morphogenesis and actin dynamics","description":"This cluster features GO terms tied to development across organisms (seed morphogenesis; paramesonephric duct development; anterior head development) and to cytoskeleton remodeling (actin filament bundle assembly; negative regulation of actin depolymerization). Additional terms touch on transcriptional control (RNA polymerase II) and signaling-related processes (ubiquitin-mediated SMAD protein catabolic process) that can influence morphogenesis. The combination of developmental and actin-related terms suggests a cluster centered on morphogenesis guided by cytoskeletal dynamics.","confidence":"Medium","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048317","count":5},{"id":"GO:2000691","count":5},{"id":"GO:0051017","count":5},{"id":"GO:0030579","count":5},{"id":"GO:0061205","count":5}]},{"hash":"2105855406863226195","title":"Receptor-Mediated Signaling and Apoptosis","description":"The top GO terms cluster around receptor-driven signaling pathways (B cell receptor, ephrin receptor, IGF receptor, BMP signaling) and extrinsic apoptotic signaling, with downstream GTPase activity regulation supporting signaling cascades. Some terms (P-body assembly, cell wall glucan biosynthesis) are more orthogonal, but the dominant theme points to signaling networks governing cell fate decisions, suggesting a coherent receptor-mediated signaling cluster with apoptotic links.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008272","count":2},{"id":"GO:0008625","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0050853","count":2},{"id":"GO:1900383","count":2}]},{"hash":"116198323216811085","title":"Thermogenic GPCR-cAMP Signaling and Vascular-Immune Regulation","description":"Top GO terms center on GPCR signaling with adenylate cyclase activation and membrane potential modulation, linked to temperature response and diet-induced thermogenesis, plus vascular and immune processes (blood pressure regulation and monocyte chemotaxis). This suggests a cohesive theme of thermogenic GPCR-cAMP signaling influencing cardiovascular and immune functions.","confidence":"High","size":14,"edges":16,"triangles":1,"max_degree":5,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0071502","count":10},{"id":"GO:0019233","count":10},{"id":"GO:0002024","count":10},{"id":"GO:0042391","count":9},{"id":"GO:0022900","count":9}]},{"hash":"1444469119807383888","title":"Unknown","description":"Unknown","confidence":"","size":14,"edges":13,"triangles":1,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0070588","count":2},{"id":"GO:0060079","count":2},{"id":"GO:0007409","count":2},{"id":"GO:0006469","count":2},{"id":"GO:0016584","count":2}]},{"hash":"2216302992367569776","title":"T and B cell receptor signaling","description":"The cluster is enriched for GO terms tied to B cell receptor signaling, T cell receptor signaling, and adaptive immune response, with supportive terms like IL-2 production and thymus development, suggesting a cohesive lymphocyte activation/immune signaling module.","confidence":"High","size":14,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0050853","count":5},{"id":"GO:0050852","count":4},{"id":"GO:0006915","count":3},{"id":"GO:0002250","count":3},{"id":"GO:0071732","count":3}]},{"hash":"1019711585754923910","title":"Embryonic Development and Morphogenesis","description":"The top GO terms point to broad developmental processes across multiple tissues\u2014hair follicle, palate, mesoderm, heart, placenta, cartilage\u2014with left-right patterning and endocrine system formation. This indicates the proteins function collectively in embryogenesis and tissue morphogenesis rather than a single pathway.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031069","count":11},{"id":"GO:0060021","count":11},{"id":"GO:0007498","count":11},{"id":"GO:0003198","count":11},{"id":"GO:0060806","count":11}]},{"hash":"2216846452578435049","title":"Skeletal and adipose development","description":"These proteins are associated with multiple development-related GO terms, especially bone development, osteoblast fate commitment, and cranial skeletal system development, as well as adipose tissue development. The inclusion of heart development and epithelial polarity terms suggests a broader mesenchymal differentiation program rather than a single specific function. Overall, the cluster seems to reflect developmental pathways steering mesenchymal progenitors toward skeletal and adipose lineages (with some ancillary roles in heart development), rather than a tightly defined molecular pathway.","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904179","count":3},{"id":"GO:0060378","count":3},{"id":"GO:0071800","count":3},{"id":"GO:0002051","count":3},{"id":"GO:0060348","count":3}]},{"hash":"2076812338904259552","title":"Unknown","description":"The top GO terms span diverse areas (fat cell differentiation, GPCR signaling, immune regulation, cardiac action potential regulation, telomere maintenance, SNARE regulation, dendritic and interleukin-12 related processes, chromatid cohesion, and chloroplast protein import), with no clear shared function or pathway. The cluster also has no edges, suggesting a lack of cohesive connectivity, so a specific, representative label cannot be determined. ","confidence":"","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045444","count":6},{"id":"GO:0007205","count":6},{"id":"GO:0010745","count":6},{"id":"GO:0098907","count":6},{"id":"GO:1904355","count":5}]},{"hash":"1876570073320783232","title":"Platelet activation signaling and megakaryocyte development","description":"This cluster is heavily enriched for platelet- and megakaryocyte-related GO terms, including thrombin-activated receptor signaling, positive regulation of platelet activation, platelet secretion, prostaglandin response, GPCR-PLC signaling, and megakaryocyte development, suggesting a coherent platelet activation and megakaryopoiesis signature. The single outlier term (myelin assembly) does not override the dominant platelet biology signal.","confidence":"High","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032288","count":4},{"id":"GO:0010920","count":3},{"id":"GO:0070560","count":3},{"id":"GO:0070493","count":3},{"id":"GO:0030845","count":3}]},{"hash":"986706330754519190","title":"Growth factor signaling and synapse development","description":"GO terms in the cluster primarily point to receptor tyrosine kinase\u2013driven signaling in response to growth factors (PDGF, VEGF, retinoic acid) and neurotrophin pathways, along with processes that promote synapse assembly and tyrosine autophosphorylation, all of which fit a theme of signal transduction leading to neural development and connectivity; transcytosis and actin cytoskeleton regulation support the trafficking and structural changes needed for signaling and synapse formation, while innate immune signaling may reflect shared signaling components rather than a distinct immune-function core. ","confidence":"Medium","size":14,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0036120","count":4},{"id":"GO:0045087","count":4},{"id":"GO:0043547","count":4},{"id":"GO:0035924","count":3},{"id":"GO:0045056","count":3}]},{"hash":"14982107373368338","title":"TGF-\u03b2/SMAD signaling with transcriptional regulation","description":"The top GO terms center on Transforming Growth Factor Beta receptor signaling and SMAD protein complex assembly, indicating a core TGF-\u03b2/SMAD signaling module. Additional terms point to transcriptional regulation (DNA-templated transcription, miRNA transcription) and cellular stress responses (sumoylation, aggresome assembly, cadmium and hydrogen peroxide responses), suggesting a cluster where TGF-\u03b2/SMAD signaling interfaces with transcriptional control and stress-related processes.","confidence":"High","size":13,"edges":65,"triangles":163,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007183","count":7},{"id":"GO:0007179","count":7},{"id":"GO:0016925","count":6},{"id":"GO:0006351","count":6},{"id":"GO:1902894","count":5}]},{"hash":"764003870615201599","title":"Proteostasis and transcriptional regulation under stress","description":"This cluster centers on protein synthesis, turnover, and modification (translation; proteasomal regulation; ubiquitination; sumoylation) and on controlling gene expression (regulation of transcription; DNA methylation). It also includes autophagy-related regulation and cellular stress responses (response to toxic substances), suggesting a cohesive module where proteostasis intersects with transcriptional control under stress. A few members may touch cell cycle processes (spindle pole body duplication), but the dominant theme aligns with proteostasis and gene expression regulation in stress contexts.","confidence":"High","size":13,"edges":68,"triangles":197,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:1901799","count":7},{"id":"GO:0030474","count":7},{"id":"GO:0016925","count":7},{"id":"GO:1901097","count":7}]},{"hash":"308072986263620258","title":"Unknown","description":"The 13 proteins show a highly diverse mix of GO terms, including immune signaling, dendritic cell regulation, mitochondrial electron transport, multiple developmental processes (face morphogenesis, coronary artery morphogenesis, lung alveolus development), and synaptic signaling. There isn\u2019t a single cohesive biological function tying these terms together, so a specific functional label isn\u2019t justifiable.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038095","count":1},{"id":"GO:2001199","count":1},{"id":"GO:0006123","count":1},{"id":"GO:0060325","count":1},{"id":"GO:0007271","count":1}]},{"hash":"941464178770527446","title":"Neural and sensory development with vesicle trafficking","description":"This cluster is enriched for neuronal and sensory development (dendrite development, cochlea morphogenesis, synapse plasticity) and for intracellular trafficking (ER-Golgi and endosome-Golgi transport) and related processes (autophagy, GTPase regulation), suggesting a cohesive theme of neural/sensory structure development tied to vesicle trafficking; some terms like spermatid development and T cell signaling appear as broader differentiation signals but are lesscentral.","confidence":"Medium","size":13,"edges":15,"triangles":3,"max_degree":12,"top_function":"autophagy","top_go_terms":[{"id":"GO:0016358","count":5},{"id":"GO:0045212","count":3},{"id":"GO:0043547","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0006914","count":3}]},{"hash":"1154006728647530462","title":"Unknown","description":"The top GO terms are highly diverse, spanning mRNA splicing, DNA replication and recombination, viral genome replication, SOS response, transcription regulation, developmental morphogenesis, nucleosome positioning, and responses to cold. This mix does not point to a single coherent biological function or pathway for the cluster, so it is not possible to assign a specific, representative label with confidence.","confidence":"","size":13,"edges":55,"triangles":115,"max_degree":12,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000398","count":6},{"id":"GO:0009432","count":5},{"id":"GO:0090394","count":5},{"id":"GO:0006260","count":5},{"id":"GO:0019079","count":5}]},{"hash":"1319813992355428590","title":"ER Stress and Proteostasis","description":"The dominant GO terms center on unfolded protein response, ER stress, chaperone-assisted refolding, and ER-stress\u2013driven translation initiation, pointing to maintaining protein folding homeostasis under stress. Additional terms (ribosome biogenesis, cell cycle) reflect broader cellular context, while innate immune and interferon signaling terms suggest cross-talk between proteostasis and immunity.","confidence":"High","size":13,"edges":5,"triangles":0,"max_degree":3,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0000278","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0006986","count":3}]},{"hash":"963530879651733217","title":"Small GTPase-regulated migration and endocytosis","description":"The top GO terms point to positive regulation of GTPase activity, small GTPase\u2013mediated signaling, and processes tied to cell movement (cell migration, filopodium assembly, cell spreading) along with membrane trafficking processes (clathrin-dependent endocytosis, GPCR internalization). This suggests a cohesive module in which GTPase signaling coordinates cytoskeletal remodeling and endocytic trafficking to drive protrusion and movement. Mitochondrial fission is present but less central to the core theme; overall, the dominant signal reflects GTPase-driven migration and endocytosis.","confidence":"High","size":13,"edges":13,"triangles":0,"max_degree":9,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0043547","count":7},{"id":"GO:0016477","count":5},{"id":"GO:0072583","count":5},{"id":"GO:0002031","count":5},{"id":"GO:0007264","count":5}]},{"hash":"908548619169177154","title":"Spliceosome-Mediated RNA Processing and Regulation","description":"The top GO terms are dominated by mRNA splicing and post-transcriptional regulation (spliceosome-mediated splicing, regulation of mRNA stability in stress, regulatory ncRNA\u2013mediated gene silencing). This points to a cohesive cluster centered on RNA processing and RNA-level regulatory mechanisms, with a few viral interaction terms likely noise. Overall, a clear theme around spliceosome activity and mRNA regulation emerges.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":10},{"id":"GO:0048026","count":7},{"id":"GO:0031047","count":7},{"id":"GO:0000398","count":7},{"id":"GO:0006378","count":7}]},{"hash":"783230370106385410","title":"RNA processing and translation initiation","description":"The top GO terms point to mRNA maturation processes (splicing, polyadenylation, modification) and to mechanisms of initiating and regulating translation (preinitiation complex formation, translation reinitiation, IRES-dependent viral translation), suggesting a cluster centered on RNA processing and translational control, including viral strategies.","confidence":"High","size":13,"edges":72,"triangles":229,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":13},{"id":"GO:0075525","count":12},{"id":"GO:1900363","count":12},{"id":"GO:0075522","count":12},{"id":"GO:0002188","count":12}]},{"hash":"465009985828256390","title":"DUBs and Ubiquitin Signaling Regulators","description":"The top GO terms point to diverse deubiquitination activities across multiple lysine linkages and negative regulation of ubiquitination, indicating a core cluster centered on ubiquitin processing and signaling, with additional hints of Rho signaling and transcription regulation.","confidence":"High","size":13,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0035523","count":4},{"id":"GO:0035871","count":4},{"id":"GO:0001662","count":4},{"id":"GO:0071108","count":4}]},{"hash":"2144777992716030463","title":"Epithelial morphogenesis signaling","description":"This cluster highlights signaling and proliferation driving tissue morphogenesis, especially VEGF-driven, PI3K-AKT and JNK pathways in epithelial development (mammary and lung), with transcytosis supporting epithelial transport.","confidence":"Medium","size":13,"edges":30,"triangles":22,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":13},{"id":"GO:0090188","count":13},{"id":"GO:0035924","count":13},{"id":"GO:0046330","count":13},{"id":"GO:0045056","count":13}]},{"hash":"513019200432596242","title":"Cerebellar neural development and Bergmann glia differentiation","description":"Explanation: The most frequent GO terms emphasize cerebellar development\u2014neuron development, cerebellar cortex formation\u2014and Bergmann glial cell differentiation, with related signals on axon regeneration and myelination. This points to a cohesive program of cerebellar neuron and glia maturation. While insulin receptor and T cell receptor signaling appear among the terms, they are secondary or peripheral to the core cerebellar development theme, so the label reflects the dominant pattern in the cluster.","confidence":"High","size":13,"edges":22,"triangles":9,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0048666","count":6},{"id":"GO:0032435","count":6},{"id":"GO:2001275","count":5},{"id":"GO:0021697","count":5},{"id":"GO:0008286","count":5}]},{"hash":"526222564756823430","title":"Stress-responsive RNA processing and transcription regulation","description":"Top GO terms center on mRNA splicing, spliceosome activity, and regulation of mRNA stability in response to stress, alongside ncRNA-mediated gene silencing and transcriptional activation. The inclusion of cellular response to cold and SOS response further supports a role in adjusting gene expression under stress. Together these terms point to a cluster of proteins coordinating RNA processing and transcription control during cellular stress.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0048026","count":9},{"id":"GO:0031047","count":9},{"id":"GO:0010610","count":7},{"id":"GO:0000398","count":6},{"id":"GO:0016584","count":5}]},{"hash":"2235415430943140937","title":"Lipid metabolism and hormone response","description":"The top GO terms are dominated by lipid-related processes: cholesterol biosynthetic process and fatty acid oxidation, indicating lipid metabolism as a core theme. There are also consistent signals for cellular responses to hormone stimuli and toxic substances, suggesting an integrated metabolic and hormonal/stress-response cluster. Some development-related terms (neuron development, angiogenesis) appear but are less central to the main lipid metabolism theme; overall the cluster seems driven by lipid metabolic pathways with ancillary regulatory signals.","confidence":"Medium","size":13,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006695","count":6},{"id":"GO:0019395","count":6},{"id":"GO:0009636","count":6},{"id":"GO:0071372","count":6},{"id":"GO:0071375","count":6}]},{"hash":"168004974761507429","title":"DNA Damage Response and Mitosis Regulation","description":"The top terms cluster around p53-mediated intrinsic apoptotic signaling in response to DNA damage, cell cycle regulation, and mitotic processes (mitotic spindle assembly, mitotic cell cycle, nuclear import). This suggests a coherent theme of linking DNA damage signaling with cell cycle control and chromosome segregation, with some additional regulatory layers (mRNA transport, GTPase regulation, autophosphorylation) that fit within broader cellular regulation. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0042771","count":5},{"id":"GO:0043547","count":4},{"id":"GO:0007050","count":4},{"id":"GO:0006607","count":3},{"id":"GO:0000278","count":3}]},{"hash":"1099535681706629659","title":"Epigenetic transcriptional regulation and chromatin remodeling","description":"This cluster is enriched for GO terms related to transcriptional control and chromatin state, including DNA-templated transcription, negative regulation of transcription by RNA polymerase I, nucleosome positioning, and peptidyl-lysine deacetylation. These indicate epigenetic regulation of gene expression, with additional terms pointing to transcriptional control of differentiation and signaling pathways (e.g., androgen receptor signaling, osteoblast/myotube differentiation). The overall theme centers on transcriptional repression/modulation via chromatin remodeling.","confidence":"High","size":13,"edges":64,"triangles":170,"max_degree":12,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060766","count":12},{"id":"GO:0045668","count":12},{"id":"GO:0006351","count":11},{"id":"GO:0010832","count":11},{"id":"GO:0043433","count":10}]},{"hash":"1382184302121262206","title":"Organogenesis and metabolic biosynthesis","description":"This cluster pairs developmental processes (nervous system development, bone development, animal organ regeneration) with core metabolic/nucleotide biosynthesis terms (L-glutamine metabolism, nucleoside metabolism, AMP biosynthesis, PRPP biosynthesis, urate biosynthesis). The outlier term fungal-type cell wall organization may reflect annotation noise, but the dominant theme suggests biosynthetic activity supporting tissue development. ","confidence":"Medium","size":13,"edges":16,"triangles":2,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006541","count":8},{"id":"GO:0009116","count":5},{"id":"GO:0031100","count":5},{"id":"GO:0031505","count":5},{"id":"GO:0043086","count":5}]},{"hash":"358965133084498080","title":"Organogenesis across tissues","description":"These proteins show a pattern of broad organ development rather than a single tissue, with GO terms for cardiac muscle tissue development, heart morphogenesis, hindbrain development, and midgut development indicating multi-tissue morphogenesis. The inclusion of a response to cAMP suggests regulatory signaling accompanying development. Some metabolic terms appear incidental, but the dominant signal points to multi-tissue organogenesis.","confidence":"Medium","size":13,"edges":77,"triangles":275,"max_degree":12,"top_function":null,"top_go_terms":[{"id":"GO:0048738","count":13},{"id":"GO:0051591","count":13},{"id":"GO:0003007","count":13},{"id":"GO:0006537","count":13},{"id":"GO:0030902","count":13}]},{"hash":"1656071764195424573","title":"Multi-tissue organogenesis","description":"This cluster\u2019s GO terms cluster around developmental processes across multiple organ systems (heart, kidney, neural development, somites, cranial nerves, endoderm fate). The common theme is embryonic organogenesis and tissue patterning, indicating a multi-tissue developmental program rather than a single tissue function.","confidence":"High","size":13,"edges":22,"triangles":17,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0042663","count":13},{"id":"GO:0003168","count":13},{"id":"GO:1900212","count":13},{"id":"GO:0046513","count":13},{"id":"GO:0021623","count":13}]},{"hash":"893550181631727257","title":"Amino acid and vitamin biosynthesis","description":"This cluster centers on biosynthetic metabolism: amino acid production (aspartate, alanine) and vitamin cofactors (biotin, cobalamin), with supporting oxaloacetate and fatty acid metabolism. Despite some noisy terms and a few outliers, the common theme is biosynthesis and construction of core metabolites.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0019518","count":4},{"id":"GO:0009236","count":4},{"id":"GO:0055089","count":3},{"id":"GO:0032869","count":3},{"id":"GO:0097053","count":3}]},{"hash":"396205431251747401","title":"Microtubule Assembly and Proteostasis","description":"The cluster is driven by tubulin complex assembly and cortical microtubule organization, complemented by protein folding, chaperone-mediated complex assembly, and ubiquitin-proteasome\u2013mediated quality control. This suggests a cohesive theme of cytoskeletal assembly together with protein homeostasis, though some viral-cycle terms appear as peripheral annotations. Overall, microtubule organization plus proteostasis best explains the group.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0007021","count":2},{"id":"GO:0071629","count":2},{"id":"GO:0043622","count":2},{"id":"GO:0032968","count":2},{"id":"GO:0051131","count":2}]},{"hash":"2003712168321697695","title":"Embryonic development and organogenesis","description":"These proteins are associated with a broad set of GO terms all tied to development\u2014from early gastrulation (primitive streak formation) and somitogenesis to later organ formation (heart, midbrain, eye, inner ear). The overlap suggests a cluster of regulators coordinating developmental patterning and morphogenesis rather than a single tissue- or process-specific function.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0007338","count":4},{"id":"GO:0001757","count":3},{"id":"GO:0043010","count":3},{"id":"GO:0007626","count":3}]},{"hash":"415640788404814308","title":"Redox Homeostasis and Detoxification","description":"The cluster centers on redox balance and detoxification, with GO terms such as cellular oxidant detoxification, redox homeostasis, protein glutathionylation, toxin catabolic process, and response to arsenic-containing substances. Additional terms about oxidation-reduction processes, starvation response, and calcium-channel regulation fit a broad oxidative stress and metabolic adaptation theme, supporting a cohesive redox-detox module.","confidence":"High","size":13,"edges":61,"triangles":148,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":9},{"id":"GO:0045454","count":8},{"id":"GO:0030416","count":5},{"id":"GO:0055114","count":4},{"id":"GO:0042594","count":4}]},{"hash":"1518553715801338280","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":57,"triangles":121,"max_degree":12,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0000467","count":5},{"id":"GO:0071038","count":5},{"id":"GO:0000464","count":5}]},{"hash":"982851499077652129","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by translation- and ribosome-related terms (translation, SSU-rRNA maturation, ribosome biogenesis, large subunit biogenesis, translational fidelity), suggesting involvement in ribosome production and protein synthesis. TOR signaling and cell-cycle terms fit with growth control of ribosome synthesis. Some development terms appear less directly connected to the core ribosome-focused theme.","confidence":"High","size":13,"edges":78,"triangles":286,"max_degree":12,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":10},{"id":"GO:0000462","count":5},{"id":"GO:0042254","count":5},{"id":"GO:0007369","count":4},{"id":"GO:0042273","count":3}]},{"hash":"2246798741316635510","title":"RNA processing and translation regulation","description":"This cluster centers on RNA metabolism, spanning splicing regulation, mRNA export, and translation control. The presence of splicing regulation, translation initiation/reinitiation, and preinitiation complex formation, along with mRNA localization, indicates involvement in processing and translation of mRNAs. Some viral translation terms broaden to general translation control rather than a viral-specific function.","confidence":"High","size":13,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0000381","count":5},{"id":"GO:0006406","count":5},{"id":"GO:0006412","count":4},{"id":"GO:0045451","count":4},{"id":"GO:0006417","count":3}]},{"hash":"878416548389108625","title":"Interferon-Responsive Translation Machinery","description":"This cluster is dominated by translation-related GO terms (translation, initiation/termination, elongation, preinitiation complex formation, cytoplasmic translation) indicating core protein synthesis and ribosome assembly components. The presence of interferon-alpha response and negative regulation of viral genome replication suggests these translation-related proteins participate in an interferon-driven antiviral program, potentially modulating translation to inhibit viral replication. The glial cell proliferation term is context-specific and less central to the core theme but may indicate cellular context; overall, the shared theme is translation regulation intertwined with antiviral defense.","confidence":"Medium","size":13,"edges":19,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0035455","count":4},{"id":"GO:0045071","count":4},{"id":"GO:0007049","count":2},{"id":"GO:0006415","count":2}]},{"hash":"1187276140152409601","title":"Transcriptional and cell fate regulation","description":"This cluster shows multiple GO terms centered on regulation of DNA-templated transcription, RNA Pol II transcription, and cell-cycle control, alongside protein ubiquitination and negative regulation of apoptosis and necroptosis, with additional hints from Toll-like receptor signaling and cell-matrix adhesion. Together, these terms point to a cohesive module that coordinates gene expression with cell survival decisions and immune-related signaling, rather than a single specific enzymatic activity.","confidence":"Medium","size":13,"edges":24,"triangles":0,"max_degree":7,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":3},{"id":"GO:0071157","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0000122","count":3}]},{"hash":"395472442718489037","title":"Developmental ECM Remodeling","description":"The cluster combines developmental processes (multicellular organism development, inner ear and oral/malformation-related development, amelogenesis) with extracellular matrix remodeling signals (collagen catabolic process, collagen fibril organization) and proteolysis, plus angiogenesis and neural stem cell maintenance, suggesting proteins functioning together in organogenesis that relies on ECM turnover.","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030574","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0048839","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0060021","count":3}]},{"hash":"432735781725047504","title":"Adaptive immune and angiogenic signaling","description":"The cluster\u2019s top GO terms are dominated by adaptive immune functions (adaptive immune response, B cell receptor signaling, IL-2 production) and vascular-related processes (angiogenesis, endothelial cell migration, transcytosis, nitric oxide response), suggesting proteins involved in immune-vascular signaling and development. Some terms related to general development (CNS, parathyroid) appear as broader context but do not define the main theme.","confidence":"Medium","size":13,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":11},{"id":"GO:0050853","count":10},{"id":"GO:1900042","count":9},{"id":"GO:0007417","count":8},{"id":"GO:0045056","count":8}]},{"hash":"1202421923511881998","title":"Neurodevelopment and transcriptional regulation","description":"Based on the Top Terms, several GO terms point to embryonic/neural development (forebrain development, neural tube closure, multicellular organism development) and lens differentiation, together with DNA-templated transcription and cell cycle processes that underpin development. While some terms are less central (e.g., actin regulation, imprinting), the predominant theme is developmental regulation of gene expression and neural development, justifying a label that emphasizes neurodevelopment and transcriptional control.","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":4},{"id":"GO:0034316","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0070306","count":4}]},{"hash":"27599192885029060","title":"Mitochondrial lipid metabolism and signaling","description":"This cluster is dominated by GO terms for mitochondrial lipid processes and energy production, including mitochondrial ATP synthesis and cardiolipin acyl-chain remodeling, along with multiple lipid biosynthesis/remodeling pathways (ether lipids, phosphatidylcholine remodeling, triglyceride biosynthesis, CDP-diacylglycerol biosynthesis, cardiolipin remodeling). While immune signaling terms (IL-2 production, regulation of T cell death) appear, the strongest and most consistent theme ties to mitochondrial-associated lipid metabolism and lipid signaling, justifying a label centered on that function.","confidence":"High","size":13,"edges":11,"triangles":8,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":7},{"id":"GO:0042775","count":7},{"id":"GO:0035965","count":7},{"id":"GO:0019432","count":7},{"id":"GO:0008611","count":7}]},{"hash":"2138293058034528278","title":"GTPase-driven immune signaling and filopodium formation","description":"This cluster centers on small GTPase\u2013mediated signal transduction and cytoskeletal remodeling (filopodium assembly) with immune system roles, spanning innate and adaptive immune responses. The combination suggests functions in immune cell signaling and actin-driven protrusions, such as migration or target engagement, driven by Ras-family pathways. Some terms appear peripheral (nerve growth factor response, adipose development), but the core theme remains immune signaling linked to actin dynamics via GTPases.","confidence":"Medium","size":13,"edges":12,"triangles":0,"max_degree":12,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":7},{"id":"GO:0046580","count":6},{"id":"GO:0007264","count":6},{"id":"GO:0046847","count":6},{"id":"GO:0051902","count":5}]},{"hash":"1630424118367599281","title":"Neural Ion Transport and Brain Development","description":"The GO terms point to brain-specific processes (CSF secretion, brain morphogenesis, pyramidal neuron development) together with ion transport activities (chloride and bicarbonate transport, pH regulation). This suggests a cohesive theme of neural development coupled with ionic homeostasis in the brain/CSF, with auxiliary terms reflecting broader neural function. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033326","count":3},{"id":"GO:0048854","count":2},{"id":"GO:0021860","count":2},{"id":"GO:1902476","count":2},{"id":"GO:0010036","count":2}]},{"hash":"1972913808769953560","title":"Glutamatergic synapse regulation and brain development","description":"The top GO terms cluster around neuronal communication and synaptic function, especially glutamatergic transmission (synaptic transmission, glutamatergic; neurotransmitter secretion; synaptic vesicle maturation; presynaptic exocytosis) and brain development, with supporting signals from Rho/GTPase regulation that influence synaptic architecture and plasticity. While a couple terms are peripheral (e.g., an obsolete insulin pathway and RNA polymerase III transcription), the dominant theme points to neuronal synapse formation and signaling. High","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043087","count":3},{"id":"GO:0007420","count":3},{"id":"GO:0035249","count":3},{"id":"GO:0038028","count":3},{"id":"GO:0016188","count":3}]},{"hash":"598796399962799713","title":"GPCR-cAMP signaling and organ development","description":"This cluster centers on GPCR-driven signaling (adenylate cyclase activation and Rho pathways) combined with tissue remodeling and development across multiple organs (bone, kidney glomerulus, nipple, lung), plus inflammatory signaling. The common thread is GPCR-mediated signaling guiding organ development and remodeling. ","confidence":"Medium","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":5},{"id":"GO:0035025","count":5},{"id":"GO:0010579","count":5},{"id":"GO:0045777","count":5},{"id":"GO:0007190","count":4}]},{"hash":"1522570284917016148","title":"Unknown","description":"The GO terms are highly diverse, spanning mitotic spindle orientation and centrosome maintenance (cell division), multiple nucleotide catabolic processes (ADP/CDP/GDP/UDP), plasma membrane repair, plant reproductive development (anther dehiscence, pollen exine formation), and methanol response. There isn\u2019t a single coherent function or pathway tying these together, so a unified, representative label cannot be confidently assigned.","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000132","count":3},{"id":"GO:0051661","count":3},{"id":"GO:0001778","count":3},{"id":"GO:0046032","count":3},{"id":"GO:0046706","count":3}]},{"hash":"633804161551574553","title":"Unknown","description":"Unknown","confidence":"","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032088","count":2},{"id":"GO:1902065","count":2},{"id":"GO:0000380","count":1},{"id":"GO:0048024","count":1},{"id":"GO:0051209","count":1}]},{"hash":"2072933073597851347","title":"Embryonic placental and mesoderm development","description":"The cluster is dominated by terms for placenta and mesoderm formation, trophoblast differentiation, left-right patterning, and EMT-related heart development, suggesting a shared role in early embryogenesis with a focus on placental and mesoderm lineages; transcriptional regulation terms further support developmental control. ","confidence":"High","size":13,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060806","count":11},{"id":"GO:0035270","count":11},{"id":"GO:0060707","count":11},{"id":"GO:0060972","count":11},{"id":"GO:0003198","count":11}]},{"hash":"1606634433172820335","title":"Immune signaling and cytoskeletal regulation","description":"The top GO terms point to adaptive immune response, TGF-beta\u2013related signaling, regulation of GTPase activity, actin filament capping, and tyrosine phosphorylation\u2014all key aspects of signaling pathways that coordinate immune function and cytoskeletal dynamics. Some terms about adipose development and nerve growth factor response may reflect broader signaling roles across cell types, but the core theme remains immune signaling intertwined with cytoskeletal regulation.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0000747","count":10},{"id":"GO:0051016","count":10},{"id":"GO:0071560","count":10},{"id":"GO:0043547","count":10},{"id":"GO:0050731","count":10}]},{"hash":"579394680497594871","title":"Mitotic exit and vesicle-mediated protein turnover","description":"Top GO terms cluster around mitosis regulation and division completion (exit from mitosis, spindle assembly, nucleus organization) together with vesicle trafficking and ubiquitin-dependent degradation (MVB sorting, vacuole transport, ER targeting). This suggests a cohesive role in coordinating cell division with targeted protein turnover via endomembrane pathways.","confidence":"High","size":12,"edges":13,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0009838","count":5},{"id":"GO:0015031","count":3},{"id":"GO:0036438","count":3},{"id":"GO:1901673","count":3},{"id":"GO:0043162","count":3}]},{"hash":"2008547805342216907","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by GO terms tied to translation, including translation itself, translational elongation, and regulation of translation, as well as maturation of SSU rRNA and ribosome maturation, indicating a cohesive group of proteins involved in ribosome assembly and protein synthesis. Some iron-sulfur cluster assembly and protein maturation terms may reflect cofactors and enzymes linked to translation machinery, but the unifying theme is ribosome function.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0009399","count":1},{"id":"GO:0051604","count":1},{"id":"GO:0006880","count":1},{"id":"GO:0016226","count":1}]},{"hash":"1953555249611671780","title":"Lymphoid organ development and lymphocyte homeostasis","description":"Based on the prominent GO terms linking spleen and lymph node development and T/B cell homeostasis, the cluster appears enriched for immune system development and adaptive lymphocyte maintenance. While ubiquitin-dependent proteolysis and some muscle-related terms appear, the strongest, cohesive signal is lymphoid organogenesis and regulation of germinal center activity.","confidence":"High","size":12,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0046597","count":2},{"id":"GO:0050884","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0007519","count":2},{"id":"GO:0030433","count":2}]},{"hash":"1972018777615092422","title":"Unknown","description":"The top GO terms cover a wide range of functions (epoxygenase P450 pathway, calcium homeostasis, testosterone response, stilbene catabolism, metal ion transport, phospholipid remodeling, LPS biosynthesis, and serine biosynthesis) with no clear, single cohesive biological theme linking all proteins. This diversity suggests the cluster does not map to a specific common function, hence Unknown.","confidence":"","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0019373","count":3},{"id":"GO:0006874","count":3},{"id":"GO:0033574","count":3},{"id":"GO:0046272","count":3},{"id":"GO:0071577","count":3}]},{"hash":"1012322157011079940","title":"Vesicle trafficking and signaling regulation","description":"The dominant GO terms point to vesicle trafficking processes (endocytosis regulation, synaptic vesicle priming, acrosome reaction) paired with modulation of signaling pathways (Ras, Rho, phosphatidylinositol signaling, B cell receptor signaling). This suggests a cluster of proteins coordinating vesicle dynamics with signaling regulation across immune and neural/gamete contexts.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0048260","count":9},{"id":"GO:0043314","count":8},{"id":"GO:0060313","count":8},{"id":"GO:0046580","count":8},{"id":"GO:0007340","count":8}]},{"hash":"232942505027557833","title":"Regulators of Signaling Pathways","description":"This cluster is enriched for terms describing regulation of multiple signaling cascades (canonical Wnt, T cell receptor signaling, JNK cascade) and regulatory protein turnover, with supporting processes like mRNA processing and cell migration. The common thread is modulation of signaling outputs and gene expression rather than a single enzymatic action, making \u201cRegulators of Signaling Pathways\u201d a concise, representative label.","confidence":"Medium","size":12,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0090263","count":3},{"id":"GO:0050852","count":3},{"id":"GO:0007205","count":3},{"id":"GO:2001275","count":3},{"id":"GO:0006397","count":3}]},{"hash":"1941936162219359254","title":"Developmental gene expression and chromatin modification","description":"The top GO terms point to key developmental processes (gastrulation, forebrain and gonad development) alongside DNA-templated transcription and histone modifications, suggesting a cluster of proteins coordinating gene regulation during development via chromatin remodeling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007369","count":4},{"id":"GO:0007275","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0007568","count":4},{"id":"GO:0016575","count":4}]},{"hash":"693084214230938143","title":"Mitotic progression and genome maintenance","description":"The dominant GO terms point to mitosis and chromosome segregation (G2/M transition, exit from mitosis, chromosome segregation) and protein turnover via the ubiquitin-proteasome system, with neddylation as a modifying mechanism. Nucleotide-excision repair underscores genome maintenance. Together these suggest a functional cluster centered on cell-cycle control and genome integrity, with a few dispersed terms (viral process, neuron projection development) likely reflecting broader annotations.","confidence":"High","size":12,"edges":66,"triangles":220,"max_degree":11,"top_function":"chromosome segregation","top_go_terms":[{"id":"GO:0031146","count":12},{"id":"GO:0070911","count":12},{"id":"GO:0010458","count":12},{"id":"GO:0007059","count":12},{"id":"GO:0016032","count":12}]},{"hash":"1654563585064462504","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":5},{"id":"GO:0003407","count":3},{"id":"GO:0045216","count":3},{"id":"GO:0051965","count":3},{"id":"GO:0007626","count":3}]},{"hash":"1128570119234783886","title":"Calcium Signaling and Junction Organization","description":"These proteins cluster around membrane signaling with calcium involvement (calcium transport, voltage-gated calcium channel assembly, GABA secretion) and junctional/polarity organization (zonula adherens, epithelial polarity), along with phosphorylation and signaling cascade regulation. The common theme is Ca2+-dependent signaling intertwined with membrane junction assembly, spanning neural and epithelial contexts.","confidence":"Medium","size":12,"edges":7,"triangles":0,"max_degree":7,"top_function":"DNA repair","top_go_terms":[{"id":"GO:0016310","count":6},{"id":"GO:0046037","count":5},{"id":"GO:0045186","count":5},{"id":"GO:0070588","count":5},{"id":"GO:1903760","count":5}]},{"hash":"358021511365766953","title":"Rho-regulated cytoskeleton and cell adhesion","description":"This cluster is dominated by GO terms related to Rho protein signal transduction regulation, sarcomere organization, cell adhesion, and maintenance of cell\u2013cell junctions, pointing to proteins that govern cytoskeletal dynamics and intercellular contacts. The presence of transcription regulation and adaptive immune terms likely reflects regulatory proteins linked to these processes rather than a single pathway, but the core theme remains cytoskeletal organization and adhesion.","confidence":"Medium","size":12,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0045214","count":2},{"id":"GO:1900042","count":2},{"id":"GO:0007155","count":2},{"id":"GO:0006355","count":2}]},{"hash":"537779496134612387","title":"Ubiquitin-mediated NF-\u03baB signaling regulation","description":"The terms are dominated by ubiquitin-related processes (various ubiquitin linkages, autoubiquitination, ubiquitin-dependent proteolysis) and their connections to inflammatory signaling pathways (canonical NF-\u03baB and TNF), with a note on negative regulation of necroptosis and histone turnover. This points to a cohesive function of the cluster in ubiquitin-driven protein turnover and modulation of NF-\u03baB/TNF signaling.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":8},{"id":"GO:0051865","count":6},{"id":"GO:0070534","count":6},{"id":"GO:0043123","count":5},{"id":"GO:1903265","count":5}]},{"hash":"321855055351017658","title":"Mitochondrial tRNA charging and translation","description":"Dominant signals are mitochondrial tRNA aminoacylation across multiple amino acids and translation, with tRNA processing; together these imply a cluster of mitochondrial translation machinery components. Some obsolete lysyl-lysine modification terms appear but do not change the overall interpretation.","confidence":"High","size":12,"edges":37,"triangles":42,"max_degree":10,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070154","count":7},{"id":"GO:0070146","count":7},{"id":"GO:0071915","count":7},{"id":"GO:0006412","count":7},{"id":"GO:0070145","count":7}]},{"hash":"1183779330330231474","title":"Immune signaling and xenobiotic stress response","description":"This cluster has strong signals for immune cell\u2013related processes (T cell receptor signaling, monocyte differentiation, neutrophil chemotaxis) and responses to xenobiotics, suggesting proteins involved in immune activation and foreign compound/stress responses. Although there are some non-immune signaling terms, the dominant theme is immune signaling with xenobiotic/stress responsiveness, supporting a High confidence label.","confidence":"High","size":12,"edges":16,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0035690","count":5},{"id":"GO:0071560","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0019933","count":5},{"id":"GO:1903206","count":4}]},{"hash":"16268851563261326","title":"Developmental Regulation and Organogenesis","description":"The terms point to various tissue- and organ-specific developmental processes (nervous system, hypothalamus, inner ear, bone, gonads) plus a shared role in transcriptional regulation, suggesting these proteins collaborate in embryonic development and organogenesis.","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":6},{"id":"GO:0030901","count":4},{"id":"GO:0048935","count":3},{"id":"GO:0090009","count":3},{"id":"GO:0021979","count":3}]},{"hash":"1632215548054730780","title":"Developmental organogenesis and transcription regulation","description":"The cluster is enriched for GO terms across multiple developmental processes (bone/osteoblast, palate, uterus, digestive tract) and for transcriptional control (RNA polymerase II transcription and its negative regulation) plus SMAD signaling, suggesting proteins that coordinate organogenesis through transcriptional networks.","confidence":"Medium","size":12,"edges":51,"triangles":101,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":4},{"id":"GO:0071542","count":4},{"id":"GO:0060065","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0060021","count":4}]},{"hash":"2273247095190125873","title":"Neural development and cell adhesion","description":"This cluster is best described by processes related to nervous system development and cellular adhesion. The top GO terms emphasize cell-cell adhesion (homophilic and heterophilic) and zonula adherens assembly, alongside nervous system development, retina homeostasis, and positive regulation of synapse assembly. Although there are a few less directly related terms (ossification, melanin biosynthesis, and an obsolete Wnt signaling term), the dominant signal is proteins involved in adhesion at neural/retinal interfaces and synapse formation, pointing to a cohesive neural-development/adhesion function.","confidence":"High","size":12,"edges":2,"triangles":0,"max_degree":1,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0007156","count":10},{"id":"GO:0007157","count":10},{"id":"GO:0043931","count":9},{"id":"GO:0051965","count":8},{"id":"GO:0007399","count":8}]},{"hash":"1293754169624170377","title":"Neurodevelopmental Transcription Programs","description":"The cluster shows a clear pattern of neurodevelopment-related terms (neural crest cell migration; spinal cord oligodendrocyte fate; cerebral cortex GABAergic interneuron differentiation; rhombomere development) alongside transcriptional regulation (RNA polymerase II\u2013mediated transcription, DNA-templated transcription, and negative regulation of transcription). This suggests proteins involved in guiding neural development through transcriptional control; peripheral terms like endocrine pancreas or osteoblast development are less central. ","confidence":"High","size":12,"edges":64,"triangles":201,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0031018","count":6},{"id":"GO:0006366","count":6},{"id":"GO:0006351","count":5},{"id":"GO:0002076","count":4},{"id":"GO:0002087","count":4}]},{"hash":"2017954874061566092","title":"Developmental transcriptional regulation","description":"The cluster is enriched for transcriptional control (DNA-templated transcription, negative regulation of transcription by RNA Pol II) and chromatin remodeling, along with several development-related terms such as cardiac ventricle formation, trachea/bronchus cartilage development, and skeletal muscle differentiation, which together suggest a module involved in regulating gene expression during tissue development and differentiation. Cytokine signaling terms (IL-4, TGF-beta) may modulate these developmental programs.","confidence":"Medium","size":12,"edges":52,"triangles":121,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071353","count":9},{"id":"GO:0043044","count":9},{"id":"GO:0003211","count":9},{"id":"GO:0006351","count":9},{"id":"GO:0071560","count":9}]},{"hash":"1610881324941312444","title":"Chromatin Remodeling and Heterochromatin Formation","description":"The cluster shows a strong enrichment for chromatin-related processes: transcriptional regulation via chromatin remodeling, DNA replication\u2013dependent chromatin assembly, and multiple forms of heterochromatin formation (rDNA, pericentric, subtelomeric). Protein heterotetramerization aligns with assembly of chromatin-modifying complexes. While a few terms reference development or signaling contexts, the dominant theme is chromatin organization and transcription control. ","confidence":"High","size":12,"edges":62,"triangles":182,"max_degree":11,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":10},{"id":"GO:0051290","count":9},{"id":"GO:0045815","count":9},{"id":"GO:0006335","count":9},{"id":"GO:0000183","count":9}]},{"hash":"764055660288820356","title":"RNAi and miRNA Processing Cluster","description":"The GO terms point to RNA silencing and miRNA pathways, including regulatory ncRNA-mediated post-transcriptional gene silencing, primary miRNA processing, and RNA interference\u2013related dsRNA/siRNA processing, suggesting a cohesive RNAi machinery core. Additional terms for translation and ubiquitination likely reflect general regulation of gene expression and protein turnover, while a few terms relate to plant defense and development contexts (defense against Gram-negative bacteria, adaxial/abaxial patterning), consistent with RNAi involvement in these processes. Overall, the cluster appears centered on RNA interference and miRNA processing with broader regulatory roles.","confidence":"High","size":12,"edges":38,"triangles":52,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0042276","count":2},{"id":"GO:0016567","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0045071","count":1},{"id":"GO:2000011","count":1}]},{"hash":"1898861926485621373","title":"Neuronal Morphogenesis and Intracellular Trafficking","description":"The cluster centers on neuronal development processes (axon extension, dendrite morphogenesis) alongside intracellular transport and vesicle trafficking (Golgi-to-ER transport, intracellular protein and mitochondria distribution), with supporting signaling pathways (GPCR and small GTPases) and protein turnover (ubiquitination). This combination points to a cohesive theme of neuronal morphogenesis linked to intracellular transport and signaling rather than general immunity or unrelated processes.","confidence":"Medium","size":12,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045773","count":3},{"id":"GO:0048813","count":3},{"id":"GO:0048312","count":3},{"id":"GO:0090316","count":2},{"id":"GO:0043552","count":2}]},{"hash":"1363758696549276225","title":"Ribosome biogenesis and translation","description":"This cluster is dominated by translation and ribosome-related processes: cytoplasmic translation, ribosomal subunit biogenesis/export, and rRNA maturation. Additional cell-cycle terms are supportive but secondary. The overall theme is ribosome assembly and function.","confidence":"High","size":12,"edges":23,"triangles":19,"max_degree":7,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":4},{"id":"GO:0000462","count":3},{"id":"GO:0000055","count":2},{"id":"GO:0007049","count":2}]},{"hash":"366641715677572872","title":"Embryonic Morphogenesis and Mesoderm Development","description":"This cluster\u2019s GO terms cluster around developmental processes and tissue morphogenesis: mesoderm development, hair follicle morphogenesis, roof of mouth (palate) development, endocardial cushion EMT, and endocrine system development. There\u2019s also transcriptional regulation activity (negative regulation of transcription by RNA polymerase II), which is common in developmental gene regulation. Together, these terms point to embryonic development and morphogenesis with lineage specification, making this an appropriate, specific label. ","confidence":"Medium","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":11},{"id":"GO:0006351","count":10},{"id":"GO:0007576","count":8},{"id":"GO:0031069","count":8},{"id":"GO:0060021","count":8}]},{"hash":"961685579883200108","title":"Translation and Secretory Pathway Regulation","description":"This cluster centers on components of translation initiation and reinitiation (GO:0001731, GO:0002188) and TORC1 signaling (GO:0038202), together with vesicle trafficking between the endoplasmic reticulum and Golgi (GO:0006888, GO:0006890). It also includes protein quality control (ERAD) and processing steps like splicing (GO:0000398) and regulatory activities such as peptidyl-serine dephosphorylation and GTPase activity modulation, plus cell division context. The combined GO terms suggest a theme of coordinating protein synthesis with the secretory pathway and growth-related signaling, rather than a single isolated function.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0001731","count":6},{"id":"GO:0002188","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0038202","count":4}]},{"hash":"1530487231345791692","title":"Unknown","description":"The listed GO terms cover viral release and transcription, immune and growth factor signaling, MAPK pathways, and diverse RNA processing activities, with no clear single function linking all terms. This spread suggests either heterogeneous roles or annotation noise rather than a cohesive cluster function, so a specific functional label cannot be confidently assigned beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0019076","count":2},{"id":"GO:0003342","count":2},{"id":"GO:0046782","count":2},{"id":"GO:0097011","count":2},{"id":"GO:0045085","count":2}]},{"hash":"804916033543633397","title":"Plant PI metabolism and ABA signaling","description":"The cluster is best captured by activities related to inositol and phosphatidylinositol biosynthesis and signaling (PI metabolism) and the abscisic acid-activated signaling pathway, which are prominent among the GO terms. This points to a plant-specific lipid signaling/metabolic axis that supports development and stress responses; other terms such as multicellular development, fertilization, and histone acetylation appear less central or are broader context annotations. Overall, the core theme is inositol/PI metabolism coupled with ABA signaling in plants.","confidence":"Medium","size":12,"edges":13,"triangles":2,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0007338","count":2},{"id":"GO:0043966","count":2},{"id":"GO:0006661","count":2},{"id":"GO:0006021","count":2}]},{"hash":"1658733630433780991","title":"Glycan biosynthesis and processing","description":"The top GO terms are dominated by glycosylation and glycan metabolism (N-glycan processing, glycosylceramide and ganglioside biosynthesis, oligosaccharide metabolism, Lewis a epitope biosynthesis), with an additional reference to protein glycosylation. A few terms relate to development (pollen and olfactory placode morphogenesis), but the overall signal centers on glycan synthesis and modification.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006486","count":3},{"id":"GO:0010493","count":2},{"id":"GO:0075015","count":2},{"id":"GO:0001574","count":2},{"id":"GO:0006491","count":2}]},{"hash":"2295994597691197576","title":"RNA Methylation and Cofactor Biosynthesis","description":"The top GO terms center on RNA methylation (tRNA and rRNA methylation, plus other methylation) and biosynthetic processes for cofactors such as ubiquinone, menaquinone, and biotin, suggesting a cluster tied to RNA modification alongside metabolic cofactor biosynthesis; a few additional terms are peripheral and less representative. ","confidence":"Medium","size":12,"edges":43,"triangles":61,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0030488","count":3},{"id":"GO:0043951","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0018364","count":2},{"id":"GO:0070476","count":2}]},{"hash":"1660819250823531110","title":"Unknown","description":"The GO terms are split between mitochondrial-related processes (protein import into the mitochondrial intermembrane space, cristae formation, mitochondrial calcium ion homeostasis) and diverse non-mitochondrial processes (neural precursor proliferation, collagen catabolic, intramembranous ossification, xenobiotic/toxic responses). With no edges and no clear shared function linking these proteins, there isn't a coherent theme to label the cluster beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045041","count":1},{"id":"GO:0042407","count":1},{"id":"GO:0051560","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0030574","count":1}]},{"hash":"263892082321946390","title":"Mitochondrial Transport and Energy Metabolism","description":"The cluster centers on GO terms for transmembrane transport of mitochondrial substrates and cofactors (ADP, citrate, phosphate, thiamine pyrophosphate, manganese, ornithine) and mitochondrial metabolic shuttles (malate-aspartate shuttle), with an additional link to insulin response and adaptive thermogenesis, indicating a cohesive theme of mitochondrial transport processes driving energy production and metabolic regulation.","confidence":"Medium","size":12,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":5},{"id":"GO:0035435","count":5},{"id":"GO:0043490","count":5},{"id":"GO:0015866","count":5},{"id":"GO:0006843","count":5}]},{"hash":"766810559871573911","title":"Ubiquitin-Proteasome Regulation in Meiosis/Oocyte Maturation","description":"This cluster is dominated by GO terms describing ubiquitin-dependent protein catabolic processes and polyubiquitination (including SCF-dependent proteasomal degradation), pointing to the ubiquitin\u2013proteasome system's role in protein turnover. Several terms also tie to meiosis and oocyte maturation (spindle assembly in female meiosis I, oocyte maturation, and regulation of DNA replication initiation), suggesting a cohesive function in cell-cycle control during oogenesis. Some terms are less directly related (cadmium response, histone demethylation), but the core signal supports ubiquitin-mediated proteolysis governing meiosis/oocyte maturation.","confidence":"High","size":12,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":7},{"id":"GO:1903378","count":6},{"id":"GO:0070544","count":5},{"id":"GO:0001556","count":5},{"id":"GO:0007057","count":5}]},{"hash":"528175818880996692","title":"Unknown","description":"Unknown","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010606","count":2},{"id":"GO:0006307","count":2},{"id":"GO:0000289","count":2},{"id":"GO:0002107","count":2},{"id":"GO:0034415","count":2}]},{"hash":"1309421363674304809","title":"Regulators of transcription and signaling","description":"The cluster\u2019s top GO terms point to broad regulatory roles across multiple processes: positive regulation of transcription by RNA polymerase II, various signaling and metabolic regulation (e.g., interleukin-23 production, insulin receptor signaling, nitric oxide biosynthesis), and control of cell differentiation and proliferation in bone and vascular tissues. This pattern suggests proteins that modulate signaling pathways and gene expression rather than a single shared pathway, justifying a high-level label of regulators of transcription and signaling.","confidence":"Medium","size":12,"edges":11,"triangles":0,"max_degree":11,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":3},{"id":"GO:0032747","count":3},{"id":"GO:0045672","count":3},{"id":"GO:1903779","count":2},{"id":"GO:0048662","count":2}]},{"hash":"562544087525344278","title":"TLR Signaling and Innate Immunity","description":"The top GO terms point to multiple Toll-like receptor pathways (TLR2/4/7/9) and an innate immune response, including type II interferon signaling, indicating a cluster centered on TLR-driven innate immunity. There is some unrelated noise (nipple morphogenesis, angiogenesis regulation), but the dominant theme is innate immune activation via TLR signaling.","confidence":"High","size":12,"edges":12,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0034162","count":2},{"id":"GO:0034154","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0060335","count":2},{"id":"GO:0060658","count":2}]},{"hash":"112896339121857188","title":"Glutamatergic signaling and sensory transduction","description":"The cluster's top GO terms cluster around neuronal communication and sensory processing: nerve impulse transmission, nervous system development, ionotropic glutamate receptor signaling, calcium ion transport, and detection of mechanical stimulus in sound. While a few terms touch on unrelated areas, the core theme is neuronal signaling and sensory perception, particularly glutamatergic transmission.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0019226","count":5},{"id":"GO:0007399","count":4},{"id":"GO:2000649","count":4},{"id":"GO:0050910","count":4},{"id":"GO:0035235","count":3}]},{"hash":"1075246681200209181","title":"Unknown","description":"The top terms span ubiquitination, cardiac action potential regulation, vitamin D response, telomere capping, SNARE assembly regulation, dendritic cell differentiation, IL-12 regulation, telomere cohesion during mitosis, chloroplast thylakoid import, and synaptic plasticity regulation, indicating a highly diverse set of functions with no single unifying theme. Therefore, there is no coherent cluster-level function to assign beyond Unknown.","confidence":"","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":9},{"id":"GO:0098907","count":9},{"id":"GO:0033280","count":9},{"id":"GO:1904355","count":7},{"id":"GO:0035544","count":7}]},{"hash":"1193008942577679037","title":"Mitotic cell cycle regulation","description":"The terms are dominated by cell-cycle transitions (G1/S, G2/M, re-entry into mitosis) and mitotic processes (spindle separation), with accompanying transcription-related activity, suggesting a cohesive theme of cell cycle control and mitosis.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0046626","count":5},{"id":"GO:0000082","count":5},{"id":"GO:0033598","count":4},{"id":"GO:0006351","count":4},{"id":"GO:2000775","count":4}]},{"hash":"770572798911579169","title":"Actin cytoskeleton remodeling in heart morphogenesis","description":"This cluster is enriched for actin-related processes (actin filament organization, depolymerization, barbed-end capping) and morphogenesis terms, including animal organ morphogenesis and heart development, plus signaling links (TGF-beta response, GTPase activity regulation, tyrosine phosphorylation). Together these terms point to a module of proteins coordinating cytoskeletal dynamics with signaling pathways to drive heart morphogenesis.","confidence":"High","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000902","count":2},{"id":"GO:0030042","count":2},{"id":"GO:0030036","count":2},{"id":"GO:0009887","count":2},{"id":"GO:0051016","count":2}]},{"hash":"792125114185722285","title":"Mechanosensory response","description":"The top GO terms are dominated by mechanosensation-related processes: detection of mechanical stimulus and cellular response to mechanical stimulus (including pain). While a few other terms in the list reference unrelated processes, the strongest and most frequent signals point to mechanosensory signaling and response as the cluster\u2019s theme.","confidence":"Medium","size":12,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050966","count":5},{"id":"GO:0007205","count":5},{"id":"GO:0071260","count":5},{"id":"GO:1904355","count":4},{"id":"GO:0035544","count":4}]},{"hash":"685767143198928164","title":"RNA Pol II Transcription Regulation and Chromatin Remodeling","description":"This cluster centers on transcription regulation by RNA Pol II and chromatin dynamics, highlighted by terms for transcription termination and positive regulation of transcription, chromatin remodeling, heterochromatin maintenance, and nucleosome positioning, plus associated processes like DNA replication primer synthesis and ribosome assembly. Some outlier terms (sperm binding, SOS response, cellular cold response) appear incidental. Overall, the dominant theme is nuclear transcription control and chromatin organization.","confidence":"Medium","size":11,"edges":22,"triangles":35,"max_degree":6,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006369","count":6},{"id":"GO:0007339","count":3},{"id":"GO:0016584","count":3},{"id":"GO:0009432","count":3},{"id":"GO:0045944","count":3}]},{"hash":"1469890756459360081","title":"Hair follicle morphogenesis and epidermal adhesion","description":"This cluster is driven by skin development terms, especially hair follicle placode formation and epithelial cell\u2013cell adhesion, suggesting a coordinated role in hair/skin morphogenesis and tissue organization. Supporting signals like JNK regulation, axon extension, and trafficking-related terms may reflect broader developmental signaling and cellular control in epidermal contexts.","confidence":"Medium","size":11,"edges":23,"triangles":30,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0007612","count":5},{"id":"GO:0051291","count":4},{"id":"GO:0090136","count":3},{"id":"GO:0060789","count":3},{"id":"GO:0046330","count":3}]},{"hash":"1485741859675145185","title":"Nucleotide biosynthesis and protein autophosphorylation","description":"This cluster is enriched for nucleotide biosynthetic processes (dGTP, UTP, CTP biosynthesis) and protein autophosphorylation, pointing to a link between nucleotide metabolism and kinase-driven signaling. The presence of nervous system development and keratinocyte differentiation terms suggests broader developmental roles, but the core themes appear to be nucleotide metabolism and phosphorylation. Confidence: Medium","confidence":"","size":11,"edges":40,"triangles":78,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0006187","count":5},{"id":"GO:0046777","count":5},{"id":"GO:0061508","count":5},{"id":"GO:0045618","count":5},{"id":"GO:0010976","count":5}]},{"hash":"1618793374155745922","title":"Developmental Genome Maintenance","description":"The terms cluster around genome integrity and chromatin regulation (base-excision repair, G-quadruplex DNA formation, subtelomeric heterochromatin formation) and DNA damage/stress responses (UV, gamma radiation, xenobiotic stimulus), plus developmental processes (cerebral cortex development, in utero embryonic development) and cytokinesis, suggesting a coherent role for proteins maintaining genome stability and chromatin state during development.","confidence":"Medium","size":11,"edges":13,"triangles":1,"max_degree":7,"top_function":"cytokinesis","top_go_terms":[{"id":"GO:0021987","count":4},{"id":"GO:0034644","count":3},{"id":"GO:0001701","count":3},{"id":"GO:0071320","count":3},{"id":"GO:0071480","count":3}]},{"hash":"1730979333802858579","title":"Amino acid and cofactor biosynthesis","description":"The top GO terms cluster around biosynthetic processes for amino acids (L-serine, lysine, cysteine) and cofactors (biotin, porphyrinogen/heme precursor), plus transsulfuration and even antibiotic biosynthesis. This pattern suggests a shared theme of metabolic biosynthesis rather than a single dedicated function, justifying a label focused on amino acid and cofactor production. ","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006565","count":4},{"id":"GO:0009089","count":3},{"id":"GO:0017000","count":3},{"id":"GO:0019878","count":3},{"id":"GO:0009102","count":3}]},{"hash":"1926255513295075344","title":"Unknown","description":"The terms span telomere maintenance, SNARE regulation, dendritic cell differentiation, cytokine regulation, chloroplast thylakoid protein import, synaptic plasticity regulation, Notch-mediated heart development, hepatocyte apoptosis, and prostate gland epithelial maturation, with no single shared function or pathway tying them together. They appear too diverse across processes and possibly species to assign a cohesive label.","confidence":"","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1904355","count":5},{"id":"GO:0035544","count":5},{"id":"GO:0002268","count":5},{"id":"GO:0045083","count":5},{"id":"GO:1904908","count":5}]},{"hash":"1373198010527386290","title":"Unknown","description":"Top GO terms span epithelial adhesion, hormone signaling, neural development, organ morphogenesis, immune regulation, and general signaling pathways, with no single cohesive function tying all proteins together. This diversity makes it impossible to assign a concise, representative name for the cluster.","confidence":"","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0031581","count":5},{"id":"GO:0071372","count":5},{"id":"GO:0070593","count":5},{"id":"GO:0072178","count":5},{"id":"GO:0034164","count":5}]},{"hash":"2148243674639180652","title":"Wnt-regulated embryonic morphogenesis","description":"This cluster is dominated by GO terms tying development and tissue morphogenesis to Wnt signaling regulation (notably negative regulation of canonical Wnt signaling and involvement in embryonic morphogenesis), with supporting terms for specific developmental processes (cranial ganglion, hair follicle placode, fungiform papilla, prostate epithelial proliferation) suggesting a cohesive role in Wnt-controlled embryonic tissue formation. A couple of housekeeping terms are present but do not override the main theme. ","confidence":"Medium","size":11,"edges":46,"triangles":102,"max_degree":10,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0015991","count":6},{"id":"GO:0060789","count":4},{"id":"GO:0090090","count":4},{"id":"GO:0044336","count":4},{"id":"GO:0061550","count":4}]},{"hash":"1717550196203418778","title":"Mitotic Cell Cycle Proteins","description":"The top GO terms cluster around cell cycle and mitotic processes (cell division, cell cycle, mitotic cell cycle). Supporting terms suggest broader cellular machinery involvement (protein heterooligomerization, ribosomal subunit export, endocytic recycling), but the dominant signal is mitosis-related functions. Overall, the label reflects the primary function of the cluster.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":10,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0051291","count":3},{"id":"GO:0007049","count":3},{"id":"GO:0070374","count":2}]},{"hash":"1802667291475017869","title":"Rho-GTPase\u2013regulated vesicle fusion","description":"The cluster is driven by vesicle fusion and exocytosis regulation, reinforced by Rho GTPase signaling and GTPase activity control terms, suggesting a core role in vesicle trafficking modulated by Rho-family GTPases. The brain/nervous system and skeletal development terms likely reflect broader roles of these pathways in morphogenesis and neuronal differentiation across species, while the ABA signaling term may indicate cross-species annotation noise. Overall, the theme is Rho-regulated vesicle trafficking and exocytosis with developmental context.","confidence":"Medium","size":11,"edges":55,"triangles":165,"max_degree":10,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0001302","count":11},{"id":"GO:0007124","count":11},{"id":"GO:0006906","count":11},{"id":"GO:0007266","count":11},{"id":"GO:0007420","count":11}]},{"hash":"166505584390664192","title":"Skeletal muscle ion transport and excitability","description":"The cluster\u2019s top GO terms predominantly involve transmembrane transport of cations (calcium, potassium, zinc, monoatomic ions), maintenance of the electrochemical gradient, and processes related to fast-twitch skeletal muscle contraction and membrane excitability. This pattern points to proteins that regulate ion flux and membrane potential critical for skeletal muscle function, with calcium and other ions driving excitation-contraction coupling. Some terms (epoxygenase P450 pathway, phospholipid dephosphorylation) are ancillary but do not override the core theme of ion handling and muscle excitability. Confidence that this label reflects the cluster\u2019s main function is High.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031448","count":5},{"id":"GO:1990573","count":5},{"id":"GO:0071577","count":5},{"id":"GO:0086009","count":5},{"id":"GO:0010248","count":5}]},{"hash":"1139559133559275134","title":"p53-Mediated DDR and RNA Processing","description":"Top GO terms indicate a convergence on DNA damage response mediated by p53, protein ubiquitination, and regulation of translation and RNA processing/splicing, with concurrent anti-apoptotic signaling. This suggests a functional cluster centered on stress-induced gene expression regulation and cell fate decisions, linking DDR with post-transcriptional control mechanisms. The presence of telomere capping and migration signals may reflect broader regulatory roles in genome maintenance and cellular remodeling.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016567","count":3},{"id":"GO:0006977","count":3},{"id":"GO:0006412","count":3},{"id":"GO:0043066","count":3},{"id":"GO:0000381","count":3}]},{"hash":"2190049765412052865","title":"Light-responsive circadian regulation in sensory tissues","description":"The cluster\u2019s top GO terms cluster around light sensing (detection of visible light, response to low-fluence red light) and circadian regulation of gene expression, with supporting indications of sensory tissue function (cochlea morphogenesis) and ion transport relevant to sensory cells (potassium ion transport). Together, these points suggest a theme of genes/proteins involved in light-driven, circadian regulation in sensory tissues, particularly in the inner ear, rather than a single narrowly defined process. Some terms relate to transcriptional regulation or stress responses, which can intersect with circadian control but are less central to the core theme.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006813","count":5},{"id":"GO:0043619","count":3},{"id":"GO:0090103","count":3},{"id":"GO:0010203","count":3},{"id":"GO:0032922","count":3}]},{"hash":"978680756545402325","title":"Skeletal and CNS Development with Cell Adhesion","description":"The cluster is strongly enriched for GO terms related to skeletal system development, CNS development, and cartilage condensation, pointing to a shared role in forming bone/cartilage and neural tissues. Additional terms emphasize intercellular adhesion (positive regulation of heterotypic cell-cell adhesion) and barrier formation (establishment of blood-nerve barrier), suggesting coordinated tissue organization and neural vasculature development. Some regulatory terms (negative regulation of inflammatory response, regulation of DNA damage signaling) imply supportive control of cellular stress and immunity during development. Overall, the core theme appears to be developmental processes linking skeletal and nervous tissue formation with adhesion and barrier dynamics.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001501","count":10},{"id":"GO:0007417","count":10},{"id":"GO:0001502","count":10},{"id":"GO:0043154","count":9},{"id":"GO:1902166","count":9}]},{"hash":"610475083386636594","title":"Central metabolism and redox regulation","description":"This cluster centers on core metabolic pathways (TCA cycle, 2-oxoglutarate and amino acid biosynthesis) and redox-related processes (glutathione metabolism, oxidative stress response). It also shows regulation of lipid biosynthesis and hormone response, but the dominant theme is energy metabolism and redox balance.","confidence":"High","size":11,"edges":31,"triangles":37,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0019878","count":6},{"id":"GO:0006099","count":5},{"id":"GO:0009098","count":4},{"id":"GO:0006103","count":4},{"id":"GO:0006537","count":3}]},{"hash":"2007147269106750030","title":"Nicotinamide/NAD metabolism and related catabolic processes","description":"The Top Terms are dominated by nicotinamide metabolic process, nicotinate nucleotide salvage, and related nitrogen-containing compound metabolism (uracil catabolic, creatinine catabolic, nitrogen utilization), indicating a cohesive NAD/Nicotinamide metabolism theme. An outlier term for MyD88-dependent toll-like receptor signaling appears, but it does not override the metabolic \uc911\uc2ec. Overall, these terms support a metabolism-focused cluster rather than a single signaling pathway.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006769","count":2},{"id":"GO:0002047","count":2},{"id":"GO:0019358","count":2},{"id":"GO:0006212","count":2},{"id":"GO:0006602","count":2}]},{"hash":"508252030130123754","title":"Complement system activation and coagulation","description":"This cluster\u2019s top GO terms are dominated by complement activation (classical and alternative pathways) and MAC activation, along with coagulation-related processes (intrinsic pathway) and platelet activation, plus IL-10 production. These indicate a core theme of immune defense linked to coagulation and immune regulation, with a few peripheral development or junction-related terms. Confidence: Medium","confidence":"","size":11,"edges":16,"triangles":0,"max_degree":5,"top_function":"photosynthesis","top_go_terms":[{"id":"GO:0001970","count":5},{"id":"GO:0001701","count":5},{"id":"GO:0006957","count":5},{"id":"GO:0006958","count":5},{"id":"GO:0007157","count":5}]},{"hash":"2298570523487030058","title":"Chondrogenesis and skeletal development","description":"This cluster centers on cartilage and skeletal tissue formation: multiple GO terms describe chondrocyte differentiation, endochondral bone morphogenesis, cartilage development, and skeletal joint morphogenesis, with supporting roles for cell\u2013matrix adhesion and mesenchymal transitions that accompany morphogenesis. The common theme is chondrogenesis and skeletal development.","confidence":"High","size":11,"edges":10,"triangles":0,"max_degree":6,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0007160","count":8},{"id":"GO:2000353","count":8},{"id":"GO:0042535","count":8},{"id":"GO:0002053","count":8},{"id":"GO:0060351","count":8}]},{"hash":"480970036362199956","title":"Developmental signaling and organ morphogenesis","description":"GO terms point to developmental processes across multiple tissues: peripheral nervous system development, optic fissure closure, and digestive tract morphogenesis, along with somatic stem cell maintenance. The presence of Wnt signaling regulation and TGF-beta response, plus DNA-templated transcription, suggests coordinated signaling and transcriptional control driving organogenesis. While diverse, these terms collectively indicate a developmental program rather than a single cellular process.","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0007422","count":7},{"id":"GO:0090090","count":6},{"id":"GO:2001200","count":6},{"id":"GO:0071504","count":6},{"id":"GO:0048546","count":6}]},{"hash":"2203151143965494042","title":"Placental and embryonic development","description":"The top GO terms are dominated by placental-related processes (trophoblast giant cell differentiation, regulation of cell differentiation in embryonic placenta development, epithelial-to-mesenchymal transition in endocardial cushion formation, left/right pattern formation, endocrine system development, cartilage morphogenesis, etc.), pointing to placental and broader embryonic development. The inclusion of DNA-templated transcription, nucleosome assembly, and ribosomal subunit export suggests active gene expression machinery in developing tissues. Overall, the cluster seems centered on placental/embryonic development with supporting general expression processes.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060707","count":6},{"id":"GO:0060806","count":5},{"id":"GO:0060536","count":5},{"id":"GO:0035270","count":5},{"id":"GO:0060972","count":5}]},{"hash":"2184191238423354907","title":"Cell Adhesion and Developmental Processes","description":"The top GO terms cluster around cell-cell adhesion, cell migration and tissue remodeling (e.g., wound healing, sprouting angiogenesis), and developmental programs (nephron development, endodermal differentiation, amelogenesis, oocyte growth), with additional immune-related signaling (complement receptor signaling, leukocyte tethering). This suggests a theme of adhesion-mediated interactions guiding development and tissue remodeling, with immune context. ","confidence":"Medium","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0007157","count":7},{"id":"GO:0072006","count":5},{"id":"GO:0046718","count":5},{"id":"GO:0097186","count":5},{"id":"GO:0002042","count":5}]},{"hash":"41923330383644382","title":"LPS-induced NF-kB innate immune signaling","description":"This cluster is dominated by terms related to detection and response to lipopolysaccharide, cellular responses to LPS, and I-kappaB phosphorylation, which are central to NF-kB\u2013mediated innate immune signaling. Additional terms about dsRNA response and regulation of protein kinase activity support a theme of signaling control during immune activation, though a few outlier terms (e.g., otolith morphogenesis, meristem organization) may reflect broader or non-specific annotations.","confidence":"Medium","size":11,"edges":15,"triangles":0,"max_degree":9,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006469","count":6},{"id":"GO:0032497","count":5},{"id":"GO:1903351","count":5},{"id":"GO:0006963","count":5},{"id":"GO:0043330","count":5}]},{"hash":"1617480669307067610","title":"RNA processing and translational regulation","description":"These proteins collectively center on post-transcriptional control: ncRNA-mediated gene silencing, mRNA splicing and modification, polyadenylation, and key steps of translation initiation/termination (including preinitiation complex formation and IRES-dependent translation). The recurring GO terms indicate a shared role in RNA metabolism and regulation of translation, justifying a combined label for RNA processing and translational control.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:1901407","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0075525","count":4},{"id":"GO:1900363","count":4}]},{"hash":"1643425760624154906","title":"Unknown","description":"Unknown","confidence":"","size":11,"edges":54,"triangles":156,"max_degree":10,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0031047","count":5},{"id":"GO:0048026","count":5},{"id":"GO:0000398","count":4},{"id":"GO:0000467","count":4},{"id":"GO:0071038","count":4}]},{"hash":"725237022871063223","title":"Calcium signaling and vascular development","description":"This cluster shows strong representation of calcium signaling terms (phosphatidylinositol-mediated signaling, store-operated calcium channel activation, regulation of calcium ion sequestration) together with vascular development terms (angiogenesis, endothelial cell migration, labyrinthine layer development). While there are a few more peripheral terms (bitter taste perception, egg activation, B-1a B cell differentiation), the cohesive theme appears to be calcium-dependent signaling pathways linked to blood vessel formation and vascular processes.","confidence":"Medium","size":11,"edges":3,"triangles":0,"max_degree":2,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050913","count":11},{"id":"GO:0048015","count":11},{"id":"GO:0051282","count":11},{"id":"GO:0060716","count":11},{"id":"GO:0001525","count":11}]},{"hash":"1266301379909486407","title":"B cell and Fc receptor signaling in adaptive immunity","description":"The top GO terms center on adaptive immunity and B cell/ Fc receptor signaling (adaptive immune response, positive regulation of B cell receptor signaling, regulation of Fc receptor mediated stimulatory signaling). This points to a coherent theme of immune cell signaling, particularly in B cells and dendritic/ Fc receptor pathways. Some terms reflect broader signaling or regulation (Rho, PI3K, ER stress-related transcriptional regulation), which may provide context but do not override the core immune signaling theme.","confidence":"High","size":11,"edges":16,"triangles":10,"max_degree":6,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0060368","count":11},{"id":"GO:0048009","count":11},{"id":"GO:2000670","count":11},{"id":"GO:0035023","count":11},{"id":"GO:0051902","count":10}]},{"hash":"1117962884373941714","title":"B cell activation and adaptive immune signaling","description":"The cluster is dominated by GO terms related to B cell receptor signaling, adaptive immune response, and affinity maturation, indicating a focus on B cell\u2013mediated adaptive immunity and associated signaling pathways. Additional terms like IL-2 production and cell adhesion support immune signaling context, though a few terms (e.g., heart development) appear as noise; overall the group aligns with B cell\u2013driven immune function.","confidence":"Medium","size":11,"edges":5,"triangles":0,"max_degree":5,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0045087","count":10},{"id":"GO:0050853","count":10},{"id":"GO:0002250","count":9},{"id":"GO:0002344","count":9},{"id":"GO:0010863","count":9}]},{"hash":"214217700889486739","title":"Rho GTPase\u2013driven actin remodeling and cell spreading","description":"This cluster is enriched for GO terms tied to Rho signaling and GTPase activation, along with assembly of actin-based structures like filopodia and lamellipodia, and adhesion-dependent cell spreading. These convergent terms point to coordinated cytoskeletal remodeling governed by Rho-family GTPases, with a secondary developmental context suggested by midbrain morphogenesis. ","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":2},{"id":"GO:0046847","count":2},{"id":"GO:1904693","count":2},{"id":"GO:0090630","count":2},{"id":"GO:0030032","count":2}]},{"hash":"2189222647162440664","title":"Secretory Trafficking and Growth Signaling","description":"The terms point to ER\u2013Golgi and Golgi\u2013plasma membrane transport, protein targeting, and oligomerization, with overlaps in cell division, BMP and fibroblast proliferation, insulin responsiveness, and T cell homeostasis\u2014together suggesting a cluster of proteins coordinating vesicle trafficking with growth and immune signaling.","confidence":"Medium","size":11,"edges":10,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1902259","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0051301","count":2},{"id":"GO:0043029","count":2}]},{"hash":"2179301944991793342","title":"Adaptive immune signaling and phagocytosis","description":"The top GO terms point to adaptive immune response, T cell signaling (STAT phosphorylation, CD8 T cell apoptosis), cytokine regulation, and phagocytosis, suggesting a cluster of proteins involved in immune signaling and engulfment processes. Some terms like pigmentation regulation or symbiont entry may be noise, but do not override the overall immune-focused theme.","confidence":"Medium","size":11,"edges":1,"triangles":0,"max_degree":1,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0002250","count":8},{"id":"GO:0050712","count":8},{"id":"GO:0048070","count":8},{"id":"GO:0045217","count":8},{"id":"GO:0046777","count":8}]},{"hash":"1966338995611579615","title":"TGF-\u03b2/BMP signaling inhibitors","description":"The GO terms cluster around negative regulation of activin, TGF-\u03b2 receptor, and BMP signaling, plus SMAD-mediated transduction, indicating proteins that dampen this pathway. Some terms also relate to development and sexual differentiation, which are processes commonly influenced by TGF-\u03b2 family signaling, supporting a cohesive theme of pathway inhibition in developmental contexts.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032926","count":1},{"id":"GO:0010944","count":1},{"id":"GO:0060395","count":1},{"id":"GO:0030512","count":1},{"id":"GO:0030514","count":1}]},{"hash":"167607304083535252","title":"Rho/Rac-driven cytoskeletal remodeling and morphogenesis","description":"The dominant terms point to Rho/Rac signaling and actin-based structures (filopodium, podosome) driving morphogenesis and cell adhesion, consistent with ectoderm/organ development.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035023","count":3},{"id":"GO:0090263","count":3},{"id":"GO:0009887","count":2},{"id":"GO:0051835","count":2},{"id":"GO:0016601","count":2}]},{"hash":"1595219894487534783","title":"Neuronal plasticity and neural development","description":"The cluster is dominated by GO terms related to synaptic plasticity and neuronal development, including regulation of long-term neuronal synaptic plasticity, regulation of synaptic plasticity by receptor localization to the synapse, and guanylate kinase-associated protein clustering (a postsynaptic density scaffold). Additional terms point to neural morphogenesis (corticospinal tract) and related neural maturation, supporting a neural-function theme. Some non-neural terms exist but do not override the neural-plasticity signal.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071372","count":3},{"id":"GO:0021957","count":3},{"id":"GO:0007584","count":2},{"id":"GO:1904355","count":2},{"id":"GO:1904908","count":2}]},{"hash":"316053042195069265","title":"Unknown","description":"The terms span development (multicellular organism development; oligodendrocyte differentiation), wound healing, stress responses (hypoxia, mechanical stimulus), basic cellular processes (translation regulation), glycosylation/metabolism, and immune output (immunoglobulin production). There isn\u2019t a single cohesive biological theme linking all functions, so a clear, specific label is not evident.","confidence":"","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050965","count":2},{"id":"GO:0060054","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0071260","count":2},{"id":"GO:0048709","count":2}]},{"hash":"2122370131419056173","title":"Chromosome Segregation and Ubiquitin-Dependent Cell Cycle Control","description":"The cluster is dominated by terms related to mitotic and meiotic cell division, APC/C-dependent protein degradation, K11-linked ubiquitination, and protein localization to chromosomes, which together point to regulation of chromosome segregation via ubiquitin-mediated cell-cycle control. Some terms like pollen development or cadmium response are peripheral or cross-species artifacts but do not override the core theme.","confidence":"High","size":11,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0031145","count":2},{"id":"GO:0071276","count":2},{"id":"GO:2001162","count":2},{"id":"GO:0051301","count":2}]},{"hash":"1976590265411605809","title":"Unknown","description":"The GO terms are spread across immune antigen presentation, endocrine-renin-angiotensin signaling, various developmental processes (retina, mesonephros), digestion, cellular response to xenobiotics, and amyloid-beta metabolism, with no single cohesive function linking them all. There isn't a clear common theme to assign a specific, interpretable label, so the cluster is best described as Unknown.","confidence":"","size":10,"edges":12,"triangles":3,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0051591","count":2},{"id":"GO:0050435","count":2},{"id":"GO:0045476","count":2},{"id":"GO:0019886","count":2},{"id":"GO:0002003","count":2}]},{"hash":"1795438117690576110","title":"Nucleotide-sugar biosynthesis","description":"Top GO terms cluster around O antigen biosynthesis and sugar-nucleotide pathways (GDP-mannose, ADP-L-glycero-beta-D-manno-heptose, UDP-rhamnose) plus galactose metabolism, pointing to a cohesive theme of sugar-nucleotide\u2013driven biosynthesis for polysaccharide assembly. Some lipid-related terms appear (fatty-acyl-CoA, ergosterol, sporopollenin), indicating broader metabolic context but not obscuring the core sugar-nucleotide signal. Confidence: Medium","confidence":"","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0009243","count":2},{"id":"GO:0019673","count":2},{"id":"GO:0097171","count":2},{"id":"GO:0010253","count":2},{"id":"GO:0035336","count":2}]},{"hash":"936675940664448049","title":"Mitochondrial import and electron transport","description":"The cluster centers on mitochondrial energy metabolism: assembly of respiratory chain complex II, NADH dehydrogenase to ubiquinone, protein import into the mitochondrial inner membrane and matrix, and proton transmembrane transport. A chloroplast import term may reflect dual-targeting proteins, with a few broader metabolic terms as ancillary signals. Overall, these proteins appear to function together in mitochondrial respiration and targeting. ","confidence":"High","size":10,"edges":43,"triangles":105,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0034553","count":2},{"id":"GO:0006120","count":2},{"id":"GO:0045039","count":2},{"id":"GO:0030150","count":2},{"id":"GO:0000002","count":2}]},{"hash":"748494159975061097","title":"BMP signaling and tissue homeostasis","description":"This cluster is anchored by GO terms related to development and tissue maintenance, notably the BMP signaling pathway, negative regulation of skeletal muscle tissue development, and intestinal stem cell homeostasis. These terms point to a core theme of developmental signaling guiding tissue formation and stem cell regulation. Additional terms such as protein folding, protein complex oligomerization, and autophagy of peroxisomes suggest concurrent engagement of general proteostasis and organelle turnover that often accompany developmental and homeostatic processes. Given the mixed, broader set of functions, the label captures the dominant developmental-tissue theme but with modest confidence. ","confidence":"Medium","size":10,"edges":25,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0008101","count":2},{"id":"GO:0048642","count":2},{"id":"GO:0036335","count":2},{"id":"GO:0070236","count":2},{"id":"GO:0032781","count":1}]},{"hash":"1084961755714258174","title":"Unknown","description":"The top terms are a mixed bag (immune cell chemotaxis, vision-related terms, fungal cell wall organization, apoptosis and autophagy regulation, GPI anchor biosynthesis, and acute-phase response) with no single dominant function or pathway connecting them, and no edges among the proteins. This lacks a coherent theme to name a specific cluster function.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048247","count":2},{"id":"GO:0045494","count":1},{"id":"GO:0031505","count":1},{"id":"GO:0007601","count":1},{"id":"GO:0042771","count":1}]},{"hash":"1525031443093689706","title":"Unknown","description":"The top GO terms cover a mix of plant-specific (floral organ abscission) and animal cellular processes (endosome-lysosome trafficking, lipid biosynthesis regulation, podosome assembly, circadian-like ultradian rhythm, VLDL particle assembly, cytokinesis, hepatocyte apoptosis, epithelial polarity, and GTPase activity regulation). This lack of a single unifying function or pathway suggests the proteins participate in diverse roles rather than a cohesive cluster function, so a specific label cannot be confidently assigned.","confidence":"","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0010227","count":4},{"id":"GO:1902824","count":4},{"id":"GO:1902647","count":4},{"id":"GO:0071803","count":4},{"id":"GO:0007624","count":4}]},{"hash":"906510393860086075","title":"Inflammation-Linked Vascular Remodeling and Liver Regeneration","description":"The top GO terms converge on inflammatory signaling, regulation of blood vessel/ECM processes, and liver-related regeneration: heat response, bradykinin catabolic, angiotensin regulation, and plasminogen/fibrinolysis control. Together these point to a module coordinating inflammation, vascular remodeling, and liver tissue repair, with some neural-development signals incidental.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009408","count":3},{"id":"GO:0050729","count":2},{"id":"GO:0002002","count":2},{"id":"GO:0010815","count":2},{"id":"GO:0003331","count":2}]},{"hash":"770578297586644405","title":"Cardiac Muscle Signaling and Development","description":"This cluster centers on GO terms tied to heart biology, notably ventricular cardiac muscle tissue morphogenesis and positive regulation of heart contraction force, along with calcium-channel regulation and phosphatidylinositol signaling, which are key components of cardiac signaling and contraction. Some outlier terms (digestion, transcription regulation, cell budding) likely reflect annotation noise, but the dominant theme points to cardiac muscle development and contraction regulation.","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0097274","count":4},{"id":"GO:0051343","count":3},{"id":"GO:0045944","count":3},{"id":"GO:0007114","count":3},{"id":"GO:0048015","count":3}]},{"hash":"1409155868876936436","title":"Chromatin remodeling and telomere maintenance","description":"This cluster is dominated by GO terms linked to chromatin state control: heterochromatin formation (subtelomeric and pericentric), nucleosome positioning, and histone deacetylation, along with regulation of transcription by RNA polymerase I and telomere maintenance. While some muscle-related regulatory terms appear, the core signal centers on chromatin regulation and genome stability. ","confidence":"High","size":10,"edges":37,"triangles":71,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006348","count":9},{"id":"GO:0016584","count":8},{"id":"GO:0034983","count":8},{"id":"GO:0016479","count":8},{"id":"GO:0010882","count":8}]},{"hash":"700578552587133262","title":"Neuronal Axon Guidance and Migration","description":"GO terms cluster around neural development: axon extension and guidance, neuron-specific pathfinding (corticospinal, retinal ganglion), tangential migration, and synapse assembly. Additional terms like inflammatory response and mechanical stimulus may reflect context in neural tissue, but the central pattern is axon guidance and neuronal migration.","confidence":"High","size":10,"edges":16,"triangles":6,"max_degree":7,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0048846","count":7},{"id":"GO:0021972","count":6},{"id":"GO:0051965","count":6},{"id":"GO:0090260","count":6},{"id":"GO:0050929","count":6}]},{"hash":"220905314313322890","title":"Lymphocyte development and cytokine signaling","description":"Reasoning: The dominant terms point to immune cell development and cytokine signaling (B cell affinity maturation, NK T cell differentiation, IL-4 production, cellular response to IL-7). Additional terms involve signaling regulation (Wnt, GTPase) and migration, with some broader developmental pathways, but the core theme is lymphocyte development and cytokine signaling.","confidence":"High","size":10,"edges":7,"triangles":1,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0007507","count":7},{"id":"GO:0006915","count":7},{"id":"GO:0016477","count":6},{"id":"GO:0002344","count":6},{"id":"GO:0090263","count":6}]},{"hash":"1114407406185097320","title":"RTK signaling in vascular and hematopoietic processes","description":"This cluster's top GO terms converge on receptor tyrosine kinase\u2013driven signaling (peptidyl-tyrosine autophosphorylation, ERK1/2 cascade, TRK signaling) plus calcium signaling, retinoic acid response, and processes tied to endothelial migration and transcytosis, as well as hematopoiesis and GM-CSF production. The shared theme appears to be growth factor\u2013like signaling that coordinates vascular dynamics with hematopoietic/immune regulation.","confidence":"High","size":10,"edges":10,"triangles":3,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045056","count":8},{"id":"GO:0043536","count":8},{"id":"GO:0071300","count":8},{"id":"GO:0050850","count":8},{"id":"GO:0048011","count":8}]},{"hash":"113572326889294668","title":"Nucleocytoplasmic Transport and Mitosis","description":"The top GO terms point to nuclear import processes (NLS-bearing import, general protein import into nucleus, NPC assembly) and mitotic events (sister chromatid separation), with a note on intraciliary transport. This suggests a cohesive role in coordinating transport between the nucleus and cytoplasm during cell division, with regulatory inputs from desumoylation and GTPase signaling that modulate the cell cycle. Overall, the cluster appears centered on nuclear transport coupled to mitotic progression.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein-containing complex assembly","top_go_terms":[{"id":"GO:0060188","count":6},{"id":"GO:0043547","count":6},{"id":"GO:0051301","count":6},{"id":"GO:0042176","count":6},{"id":"GO:0006610","count":6}]},{"hash":"1621030923205811732","title":"Wnt signaling modulation and ubiquitin-mediated proteolysis","description":"This cluster centers on regulation of the canonical Wnt pathway (both positive and negative regulation) and several ubiquitin-related processes (SCF-dependent ubiquitination, deubiquitination, and proteasomal degradation), with accompanying immune signaling (T cell receptor and TNF pathways) and transcription/apoptosis signals. The common theme appears to be how Wnt signaling is modulated in conjunction with ubiquitin-proteasome\u2013mediated control of protein turnover, potentially influencing immune and transcriptional responses.","confidence":"High","size":10,"edges":29,"triangles":36,"max_degree":8,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090090","count":4},{"id":"GO:0090263","count":4},{"id":"GO:0051436","count":4},{"id":"GO:0050852","count":4},{"id":"GO:0006351","count":3}]},{"hash":"1119801982231746106","title":"Synaptic Transmission and Plasticity Regulation","description":"The cluster is dominated by terms related to neuronal signaling and plasticity, including long-term potentiation, glutamatergic synaptic transmission, and regulation of synaptic plasticity. While other terms like plasma membrane repair and myoblast fusion point to broader membrane dynamics or non-neuronal processes, the strongest common theme across the top terms is synaptic communication and its regulation.","confidence":"Medium","size":10,"edges":30,"triangles":37,"max_degree":9,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0001778","count":7},{"id":"GO:0007520","count":6},{"id":"GO:0009738","count":5},{"id":"GO:0034351","count":5},{"id":"GO:0043065","count":5}]},{"hash":"1973904179252369512","title":"Amino acid and cofactor biosynthesis","description":"The cluster shows enrichment in several biosynthetic and metabolic processes, including amino acid biosynthesis (aspartate, alanine; lysine via a biosynthetic route) and cofactors such as biotin and porphyrin precursor biosynthesis (protoporphyrinogen IX), along with related metabolism (oxaloacetate, fatty acid homeostasis). While not tied to a single pathway, the common thread is anabolic metabolism for building blocks and cofactors, justifying a label focused on amino acid and cofactor biosynthesis.","confidence":"Medium","size":10,"edges":30,"triangles":42,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0009102","count":6},{"id":"GO:0006782","count":6},{"id":"GO:0006107","count":5},{"id":"GO:0019551","count":5},{"id":"GO:0019878","count":5}]},{"hash":"459852151506183340","title":"ECM remodeling and immune signaling","description":"The cluster is dominated by terms tied to the extracellular matrix and how cells respond to the extracellular environment (extracellular matrix organization and regulation of cell growth by extracellular stimulus), along with immune-related processes such as neutrophil degranulation and positive regulation of IL-2 production. These patterns suggest a functional theme around extracellular matrix remodeling coupled with immune modulation, even though some metabolic/endocrine terms (retinol metabolism, thyroid hormone transport) appear less tightly linked and may reflect broader metabolic context. ","confidence":"Medium","size":10,"edges":16,"triangles":8,"max_degree":7,"top_function":"extracellular matrix organization","top_go_terms":[{"id":"GO:0042572","count":3},{"id":"GO:0030198","count":3},{"id":"GO:0006144","count":3},{"id":"GO:0043312","count":3},{"id":"GO:0019428","count":3}]},{"hash":"484453416808145615","title":"Nuclear Export and Cell Division Regulation","description":"This cluster centers on GO terms tied to nuclear transport (ribosomal subunit export), transcriptional regulation (negative regulation of RNA Pol II), and progression of the cell cycle (cell division, cytokinesis), with additional links to protein catabolic regulation and cytoskeletal dynamics (pseudopodium assembly). Together these suggest a module coordinating gene expression with nuclear export and cell division processes, hence the label.","confidence":"Medium","size":10,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0046825","count":4},{"id":"GO:0060789","count":4},{"id":"GO:0000056","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0051301","count":4}]},{"hash":"652322070829941795","title":"RNA Pol II Transcription Termination","description":"Most terms indicate termination of RNA polymerase II transcription, including poly(A)-coupled and exosome-dependent termination, which points to RNA processing/termination as the main theme. Other terms (cell budding, locomotion, calcium detection, sphingomyelin catabolic process) are present but appear less central, suggesting the cluster is primarily linked to transcription termination with some broader multifunctionality.","confidence":"Medium","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0030846","count":10},{"id":"GO:0051343","count":10},{"id":"GO:0030847","count":10},{"id":"GO:0007114","count":10},{"id":"GO:0031987","count":10}]},{"hash":"1167121133976058899","title":"Transcription and RNA processing with ribosome biogenesis","description":"This cluster co-occurs with transcription-related terms (positive regulation of transcription by RNA polymerase II), RNA processing (prespliceosome assembly, spliceosomal complex disassembly), and ribosome biogenesis (ribosome assembly, maturation of rRNA), along with chromatin remodeling and DNA repair processes, plus stress-related terms (SOS response, cellular response to cold). Together these point to a coherent theme of gene-expression regulation and ribosome production under stress. ","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0009432","count":7},{"id":"GO:0045944","count":7},{"id":"GO:0070417","count":7},{"id":"GO:0042255","count":7},{"id":"GO:0006269","count":7}]},{"hash":"2252211548145201906","title":"Amino acid and lipid biosynthesis","description":"The top GO terms cluster around biosynthetic and metabolic processes: L-aspartate and alanine biosynthesis, oxaloacetate metabolism, lipid A and O antigen biosynthesis, and antibiotic biosynthesis. This points to a cohesive theme of producing amino acids, lipids, and related cell-surface or secondary metabolites. Some terms relate to regulation or catabolic pathways (response to cAMP, insulin stimulus, kynurenine catabolic process) and are less central, but they do not override the core biosynthesis signal. Overall, the cluster appears to reflect biosynthetic and metabolic functions.","confidence":"Medium","size":10,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0097053","count":1},{"id":"GO:0051591","count":1},{"id":"GO:0032869","count":1},{"id":"GO:0055089","count":1},{"id":"GO:0006107","count":1}]},{"hash":"1203434821190367338","title":"Diverse Signaling and Immune Pathways","description":"The GO terms span several signaling axes (dephosphorylation, TGF-beta, TRK, NF-kappaB) plus immune and hematopoietic contexts (LPS response, B cell regulation, platelet formation) and hormonal/mechanical responses. This suggests a cluster of proteins involved in multiple signaling cascades that modulate immune, neural, hormonal, and hematopoietic processes rather than a single dedicated pathway.","confidence":"Medium","size":10,"edges":28,"triangles":56,"max_degree":7,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0006470","count":9},{"id":"GO:0071560","count":9},{"id":"GO:0046325","count":9},{"id":"GO:0048011","count":9},{"id":"GO:0032496","count":9}]},{"hash":"1144369284039204507","title":"Translational initiation in development","description":"The top GO terms are dominated by translation initiation and preinitiation complex formation (translation reinitiation, preinitiation complex assembly, IRES-dependent initiation), suggesting the cluster centers on the translation machinery. Additional terms point to developmental regulation (multicellular growth, gastrulation) and gene-expression control via ubiquitination and histone modifications, indicating a broader regulatory context linking translation to development. Overall, a cohesive label is translational initiation with developmental regulation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0002188","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0016567","count":4},{"id":"GO:0007369","count":3}]},{"hash":"2265873232398622551","title":"Plant Embryogenesis and Gametogenesis","description":"The cluster\u2019s strongest terms are somatic embryogenesis and microgametogenesis, pointing to plant reproductive development. A supporting term for differentiation reinforces a developmental theme, while ribosome biogenesis and rRNA processing suggest general cellular maintenance rather than a specific pathway. Some unrelated terms (e.g., extrinsic apoptotic signaling) are present but not dominant. Overall, the cluster appears centered on plant embryogenesis and gametogenesis, hence the label.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045466","count":2},{"id":"GO:0010262","count":2},{"id":"GO:0055046","count":2},{"id":"GO:1903142","count":2},{"id":"GO:0000462","count":1}]},{"hash":"2006826613081374354","title":"Neural and Sensory System Development","description":"This cluster centers on nervous system and sensory organ development, including inner ear and retina homeostasis, Purkinje cell development, and synapse assembly with cell adhesion, indicating a theme of neural connectivity and sensory maturation.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0048839","count":9},{"id":"GO:0007156","count":8},{"id":"GO:0007157","count":8},{"id":"GO:0051965","count":7},{"id":"GO:0043931","count":7}]},{"hash":"810745968707645499","title":"Embryonic and Tissue Growth Signaling","description":"The top GO terms point to developmental and tissue-growth processes (embryonic development, multicellular growth, mammary gland alveolus development, cartilage growth) with a common signaling thread through the p38MAPK cascade, indicating stress-related or growth-regulating signaling that coordinates tissue development; a few terms relate to translation regulation and circadian homeostasis, which can modulate growth programs. This supports a cohesive theme of developmental growth signaling. ","confidence":"Medium","size":10,"edges":12,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0038066","count":4},{"id":"GO:0045994","count":4},{"id":"GO:0001701","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0060749","count":4}]},{"hash":"2085182826213128023","title":"Vertebrate organogenesis and nervous system development","description":"The top GO terms cover neural development (forebrain neuron fate, dorsal spinal cord, retina) and development of diverse organs (heart, pituitary, inner ear, palate, skeletal muscle, olfactory placode). This points to a group of proteins broadly involved in vertebrate developmental programs across tissues rather than a single pathway.","confidence":"Medium","size":10,"edges":10,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0021882","count":5},{"id":"GO:0021983","count":5},{"id":"GO:0007626","count":4},{"id":"GO:0021516","count":4},{"id":"GO:0048839","count":4}]},{"hash":"2236176802351639538","title":"Spliceosome and RNA Processing","description":"Dominant GO terms indicate nuclear RNA maturation and splicing: mRNA splicing via spliceosome, spliceosomal snRNP and complex assembly, tRNA processing, and maturation of SSU-rRNA, plus transcription termination and mRNA decapping. These connections point to a cluster enriched in splicing and RNA processing factors. Other terms (pericentric heterochromatin formation, ABA response) may reflect broader regulatory roles but do not define the core function.","confidence":"High","size":10,"edges":45,"triangles":120,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":9},{"id":"GO:0000290","count":8},{"id":"GO:0006369","count":8},{"id":"GO:0070317","count":8},{"id":"GO:0000387","count":8}]},{"hash":"1358823638327719518","title":"Vertebrate embryogenesis and morphogenesis","description":"This cluster's GO terms cohere around vertebrate embryonic development and tissue formation, including placental differentiation, organ morphogenesis (cartilage, palate, endocrine organs), and patterning events (left-right formation, EMT in heart development). The shared theme is regulation and execution of embryonic differentiation and morphogenesis, justifying a label focused on vertebrate embryogenesis and tissue formation.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":5},{"id":"GO:0060707","count":4},{"id":"GO:0060806","count":4},{"id":"GO:0060536","count":4},{"id":"GO:0035270","count":4}]},{"hash":"202833072870308971","title":"Unknown","description":"Unknown","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032781","count":2},{"id":"GO:0051259","count":2},{"id":"GO:0097428","count":2},{"id":"GO:0007286","count":2},{"id":"GO:0018406","count":2}]},{"hash":"556599564989975097","title":"Neuronal signaling and dendrite growth","description":"The set's most represented terms center on neuronal signaling and plasticity: long-term synaptic potentiation, positive regulation of dendrite extension, calcium ion concentration changes, and phosphatidylinositol signaling, all of which relate to synaptic efficacy and dendrite development. The presence of lipid remodeling and PI signaling terms supports this neuronal signaling theme. Some terms such as acute-phase response, ABA-activated signaling, and VEGF pathway suggest broader signaling cross-talk or annotation noise, but do not redefine the cluster's core function. The edges indicate a connected signaling module tied to calcium- and lipid-mediated neuronal signaling and dendrite growth.","confidence":"Medium","size":10,"edges":9,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0006953","count":2},{"id":"GO:0007204","count":2},{"id":"GO:0048015","count":2},{"id":"GO:1903861","count":2}]},{"hash":"1011506780547575663","title":"GPCR signaling regulation and cardiac muscle signaling","description":"This cluster centers on regulation and modulation of G protein-coupled receptor (GPCR) signaling, including internalization and desensitization, and links to cardiac/striated muscle contraction. While there are additional terms related to MAPK and Wnt signaling and host immune pathways, the strongest shared theme among the top terms is GPCR pathway regulation and its influence on muscle physiology, with some contextual signaling cross-talk.","confidence":"Medium","size":10,"edges":16,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071877","count":3},{"id":"GO:0085033","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0035414","count":3},{"id":"GO:0002031","count":3}]},{"hash":"2079939433087345297","title":"Chromatin Organization and Nucleosome Assembly","description":"The cluster is dominated by GO terms related to chromatin architecture and nucleosome processes (nucleosome assembly, heterochromatin organization, and localization to chromatin) with notes on histone modifications; only a couple terms hint at neuronal signaling, which likely represent incidental associations. This supports a chromatin-centric functional theme across the proteins.","confidence":"High","size":10,"edges":13,"triangles":4,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0016584","count":2},{"id":"GO:0071169","count":2},{"id":"GO:0080182","count":2},{"id":"GO:0098532","count":2},{"id":"GO:0070828","count":2}]},{"hash":"1053451452110443297","title":"Reproductive Development Across Species","description":"The top GO terms point to reproductive development processes across species, including luteinization, placental/maternal processes, and pollen development, with supporting signals involved in developmental growth (hippo signaling, fibroblast migration). Additional terms for mitochondrial membrane permeabilization and DNA repair-related events (meiosis, recombination) reflect cellular stress and germline development aspects that accompany reproduction. Altogether, the cluster seems to reflect a theme of reproductive development and germline-related signaling across organisms.","confidence":"Medium","size":10,"edges":28,"triangles":38,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0035332","count":3},{"id":"GO:0010761","count":3},{"id":"GO:0001553","count":3},{"id":"GO:0001893","count":2},{"id":"GO:1903547","count":2}]},{"hash":"648948362169019935","title":"Mitochondrial Substrate Transporters","description":"The top GO terms cluster around transport of various substrates across mitochondrial membranes (ADP, citrate, phosphate, thiamine pyrophosphate, manganese, ornithine) and related energy metabolism processes like the malate-aspartate shuttle, plus insulin responsiveness and adaptive thermogenesis, indicating a cohesive group of mitochondrial transporter functions supporting energy metabolism.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032869","count":6},{"id":"GO:0035435","count":6},{"id":"GO:0043490","count":6},{"id":"GO:0015866","count":6},{"id":"GO:0006843","count":6}]},{"hash":"630095845901896382","title":"Cranial nerve development and neural crest morphogenesis","description":"The cluster\u2019s terms concentrate on neural crest\u2013driven development and cranial nerve formation, with neural crest migration, trigeminal nerve structure, branchiomotor neuron axon guidance, and sympathetic neuron projection extension. Additional terms like angiogenesis and kidney development point to broader embryonic morphogenesis accompanying neural differentiation, while proteolysis and complement activation may reflect tissue remodeling during development.","confidence":"High","size":10,"edges":9,"triangles":0,"max_degree":9,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":4},{"id":"GO:0036486","count":4},{"id":"GO:0006508","count":4},{"id":"GO:0097490","count":4},{"id":"GO:0001822","count":4}]},{"hash":"1657238238192747882","title":"Liver lipid oxidation and energy metabolism","description":"The top GO terms point strongly to fatty acid beta-oxidation (including long- and medium-chain FA catabolism) and related energy pathways (carnitine biosynthesis, amino acid catabolism like L-valine, glycogen biosynthesis) with a tissue-context cue from liver development and starvation response. This pattern suggests a cluster centered on lipid-based energy production and storage in the liver, especially under nutrient scarcity.","confidence":"High","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":6},{"id":"GO:0033540","count":6},{"id":"GO:0042758","count":6},{"id":"GO:0006574","count":6},{"id":"GO:0051793","count":6}]},{"hash":"1579191411247987055","title":"Embryonic Morphogenesis and Development","description":"The top GO terms cluster around embryonic development and morphogenesis across multiple tissues (palate, hair follicles, mesoderm, heart cushion EMT, placenta, cartilage, left-right patterning). This suggests a broad embryogenesis-related program rather than a single tissue-specific function.","confidence":"High","size":10,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":9},{"id":"GO:0031069","count":8},{"id":"GO:0007498","count":8},{"id":"GO:0003198","count":8},{"id":"GO:0060806","count":8}]},{"hash":"1097421030118262103","title":"Immune Signaling and Adaptive Response","description":"The top GO terms are dominated by immune-related signaling: TNF-mediated signaling, stimulatory C-type lectin receptor signaling, and adaptive immune response, suggesting these proteins participate in immune activation and antigen recognition. While there are additional terms spanning chromatin modification, ERAD-related processing, iron homeostasis, and cell cycle-related processes, the strongest and most coherent cluster theme is immune signaling and response. Therefore, this label best captures the core function represented by the enriched terms, with moderate confidence given the presence of diverse, non-immune annotations. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":3},{"id":"GO:0002223","count":2},{"id":"GO:0090337","count":2},{"id":"GO:0002250","count":2},{"id":"GO:0070512","count":2}]},{"hash":"128328679822724823","title":"Dendritic Cell Differentiation and Antigen Presentation","description":"This cluster centers on dendritic cell biology and adaptive immunity, with terms for positive regulation of DC differentiation, antigen processing and presentation via MHC I, and modulation of cytotoxic T cell and NK cell activity, suggesting a DC-driven immune activation theme. Additional terms related to chemokine production and cell\u2013cell adhesion support immune synapse formation, while a few terms (e.g., myelination) may reflect broader signaling contexts. ","confidence":"Medium","size":10,"edges":8,"triangles":1,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0046718","count":6},{"id":"GO:0051963","count":6},{"id":"GO:0090138","count":6},{"id":"GO:0002859","count":6},{"id":"GO:0043318","count":6}]},{"hash":"909830095297814378","title":"TGF-\u03b2/BMP signaling regulation","description":"The GO terms cluster around modulation of TGF-\u03b2/BMP signaling: cellular response to TGF-\u03b2 stimulus, BMP signaling, SMAD complex assembly regulation, and negative regulation of TGF-\u03b2 receptor signaling, plus related dephosphorylation activities and regulatory connections. While some terms touch on other processes, the dominant theme is regulation of TGF-\u03b2/BMP pathways, suggesting proteins that modulate this signaling axis.","confidence":"Medium","size":10,"edges":29,"triangles":29,"max_degree":8,"top_function":"wound healing","top_go_terms":[{"id":"GO:0071560","count":6},{"id":"GO:0010074","count":5},{"id":"GO:0080005","count":5},{"id":"GO:0035970","count":5},{"id":"GO:0042006","count":5}]},{"hash":"2163198561135782924","title":"Diverse membrane transporters for nutrients and xenobiotics","description":"The GO terms are dominated by various transmembrane transport activities for xenobiotics, vitamins, amino acids, sugars, and lipoproteins, plus export of pheromones, indicating a cluster of membrane transporter proteins with broad substrate specificity. An outlier SOS response term suggests stress-linked regulation but does not define the core function. Therefore, this cluster is best labeled as membrane transporters with diverse substrates.","confidence":"High","size":10,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006855","count":8},{"id":"GO:0035461","count":8},{"id":"GO:0009432","count":7},{"id":"GO:0031460","count":7},{"id":"GO:0008643","count":7}]},{"hash":"1298392903422383439","title":"Nuclear RNA processing and transcription regulation","description":"The cluster\u2019s top GO terms cluster around nuclear RNA metabolism (ribosomal large subunit export from the nucleus, snoRNA and mRNA splicing) and transcriptional regulation (RNA Pol II regulatory region control, DNA replication initiation), with a hint of signaling (p38 MAPK) and development. This suggests a core theme of RNA processing coupled to gene expression control, rather than a single specific pathway.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0032298","count":2},{"id":"GO:0003342","count":1}]},{"hash":"539040979555871683","title":"Coenzyme Q and lipid metabolism","description":"The top GO terms point to cofactors and lipid-related biosynthesis and regulation, notably ubiquinone biosynthesis and regulation of tocopherol cyclase activity, along with lipid homeostasis. Some terms (thyreonine biosynthesis, methionine salvage) are metabolic but less directly connected, and a neural development term appears as an outlier, suggesting overall themes around metabolic pathways affecting lipid/cofactor biology rather than a single, cohesive function. Therefore, the label reflects the most coherent shared signal among the annotations, with some noise from unrelated processes. ","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009088","count":2},{"id":"GO:0019509","count":2},{"id":"GO:0010795","count":2},{"id":"GO:0021692","count":2},{"id":"GO:0019284","count":2}]},{"hash":"2207743969486839535","title":"Nutrient-Responsive Metabolism and Signaling","description":"These proteins show associations with metabolic processes (fatty acid biosynthesis, starch catabolic) and nutrient responses (nitrogen levels, sucrose, glucose limitation), along with signaling activity (regulation of protein kinase activity) and circadian rhythm. The common theme is coordination of metabolism with nutrient status and temporal cues, rather than a single shared pathway; a few terms (e.g., nail development) appear as outliers or annotation noise.","confidence":"Medium","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006370","count":2},{"id":"GO:0043562","count":1},{"id":"GO:0006633","count":1},{"id":"GO:0009744","count":1},{"id":"GO:0051291","count":1}]},{"hash":"721251457457831594","title":"Unknown","description":"The Top Terms point to a wide range of processes\u2014trafficking to the vacuole, sugar transport, mitotic spindle dynamics, developmental patterning, ciliary motility, neuron development, oligosaccharide and glycosphingolipid metabolism, and pollen tube growth\u2014without a common pathway or shared cellular context. With no edges and no cohesive theme, there isn\u2019t a clear, specific label that represents the cluster beyond Unknown.","confidence":"","size":10,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043328","count":2},{"id":"GO:1904659","count":2},{"id":"GO:1990755","count":1},{"id":"GO:0061371","count":1},{"id":"GO:0060296","count":1}]},{"hash":"1676197248970312552","title":"Multiorgan Development","description":"The top GO terms cluster around development in several different organs (cardiac tissue, heart morphogenesis, hindbrain, midgut), suggesting a shared theme of organogenesis across tissues rather than a single, cohesive pathway. Some metabolic or obsolete terms appear, but they don\u2019t override the overarching developmental pattern.","confidence":"Medium","size":9,"edges":20,"triangles":20,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0048738","count":5},{"id":"GO:0051591","count":5},{"id":"GO:0003007","count":5},{"id":"GO:0006537","count":5},{"id":"GO:0030902","count":5}]},{"hash":"933010902175601933","title":"Specialized metabolite biosynthesis","description":"The proteins here link to diverse biosynthetic and metabolic processes, including antibiotic biosynthesis, tropane alkaloid biosynthesis, retinoid/vitamin metabolism (retinoic acid, retinal, retinol), sphingolipid and lipid biosynthesis (3-keto-sphinganine, mycolic acid), and cofactor biosynthesis (tetrahydrobiopterin). A single unifying theme is the broad set of pathways that produce specialized metabolites and related cofactors, with an additional nod to transcriptional regulation of these processes. ","confidence":"Medium","size":9,"edges":5,"triangles":0,"max_degree":3,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":6},{"id":"GO:0017000","count":6},{"id":"GO:0009710","count":6},{"id":"GO:0045150","count":6},{"id":"GO:0002138","count":6}]},{"hash":"1058876620186001036","title":"Bacterial lipid and carbohydrate biosynthesis","description":"The cluster shows enriched GO terms for lipid biosynthesis (glycolipid, phospholipid, steroid) and carbohydrate metabolism (sucrose), plus bacillithiol biosynthesis, indicating a cohesive theme around lipid and sugar biosynthesis in bacteria. Some osmotic/stress response terms are present but less represented.","confidence":"Medium","size":9,"edges":15,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006490","count":2},{"id":"GO:0006694","count":1},{"id":"GO:0072708","count":1},{"id":"GO:0009405","count":1},{"id":"GO:0009247","count":1}]},{"hash":"161274658146004535","title":"DNA Replication and Replisome Assembly","description":"The top GO terms are dominated by DNA replication and replisome assembly (DNA replication, strand elongation, pre-replicative complex, mitotic DNA replication). A few terms appear incidental (xenobiotic response, female gamete generation, chlorophyll biosynthesis), but the core signal points to DNA replication machinery.","confidence":"High","size":9,"edges":7,"triangles":1,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006260","count":8},{"id":"GO:0006271","count":4},{"id":"GO:0006267","count":4},{"id":"GO:0030494","count":4},{"id":"GO:1902969","count":4}]},{"hash":"1229622955152351901","title":"Epithelial and neural development signaling","description":"This cluster centers on epithelial adhesion and hair follicle placode formation, indicating skin development, while also including neural development signals such as axon extension and forebrain radial glial differentiation. The presence of signaling pathway terms (Rap, JNK, androgen receptor, NF-kappaB) and endosomal sorting (multivesicular body) suggests coordinated development and intracellular signaling across epithelial and neural contexts.","confidence":"Medium","size":9,"edges":7,"triangles":2,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090136","count":9},{"id":"GO:0060789","count":9},{"id":"GO:0046330","count":9},{"id":"GO:0045773","count":9},{"id":"GO:0071985","count":9}]},{"hash":"47309569956620754","title":"Cardiac Muscle Contraction Signaling","description":"This cluster is dominated by GO terms tied to cardiac muscle function and development, including positive regulation of heart contraction, ventricular muscle morphogenesis, and calcium/calcium-channel\u2013related signaling (ryanodine receptor modulation, cAMP response). The presence of phosphatidylinositol signaling and actin/cytoskeletal organization supports excitation-contraction coupling and muscle cell structure, with glucocorticoid responsiveness adding a broader hormonal regulation aspect. Overall, the proteins appear to participate in cardiac muscle contraction signaling and development.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051591","count":9},{"id":"GO:0051343","count":8},{"id":"GO:0007114","count":8},{"id":"GO:0048015","count":8},{"id":"GO:1903479","count":8}]},{"hash":"932101461652659224","title":"Epithelial Growth and Morphogenesis Signaling","description":"Most terms point to growth, signaling, and morphogenesis in epithelial tissues: mammary gland epithelial proliferation, epithelial proliferation involved in lung morphogenesis, VEGF response, PI3K/AKT signaling, and JNK cascade regulation. Transcytosis fits with epithelial transport, while some terms (neuron maturation regulation; symbiont-mediated transformation of host cell) are less directly connected, suggesting a mix of signaling and development processes but with a core emphasis on epithelial growth and tissue remodeling.","confidence":"Medium","size":9,"edges":36,"triangles":84,"max_degree":8,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":9},{"id":"GO:0090188","count":9},{"id":"GO:0035924","count":9},{"id":"GO:0046330","count":9},{"id":"GO:0045056","count":9}]},{"hash":"1183631113510397570","title":"Developmental processes and ubiquitin-mediated degradation","description":"This cluster combines clear developmental signals (multicellular organism development, skin development, and cardiac signaling) with protein turnover pathways (ubiquitin-dependent degradation and ERAD) and microtubule-associated localization, suggesting proteins that coordinate development with proteostasis and intracellular trafficking. Some terms are obsolete, reducing coherence, but the main theme points to development-related functions tied to ubiquitin-mediated proteolysis.","confidence":"Medium","size":9,"edges":14,"triangles":5,"max_degree":6,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007275","count":5},{"id":"GO:0030433","count":5},{"id":"GO:0043588","count":5},{"id":"GO:0005513","count":5},{"id":"GO:0042787","count":5}]},{"hash":"1774875202545826150","title":"RNA Splicing Regulation and Silencing","description":"The cluster centers on post-transcriptional control of gene expression, with multiple GO terms referencing mRNA splicing via the spliceosome (and its regulation, both positive and negative), as well as related processes like mRNA stability in response to stress and ncRNA/miRNA\u2013mediated gene silencing. This suggests a cohesive theme around RNA processing and silencing pathways after transcription. Some terms are obsolete or peripheral, but the dominant signal is spliceosome-mediated splicing regulation and RNA silencing.","confidence":"Medium","size":9,"edges":24,"triangles":33,"max_degree":7,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0010610","count":8},{"id":"GO:0048025","count":6},{"id":"GO:0048026","count":5},{"id":"GO:0031047","count":5},{"id":"GO:0000398","count":5}]},{"hash":"1113284915648632274","title":"Endocytosis and actin remodeling in immune signaling","description":"Top GO terms include clathrin-dependent endocytosis and GPCR internalization, as well as lamellipodium assembly and actin cytoskeleton organization, with immune-context terms like T cell activation and hematopoiesis. This suggests a cohesive theme where receptor internalization and actin-driven cytoskeletal remodeling are coordinated in immune cell signaling, despite limited interaction data. ","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0072583","count":5},{"id":"GO:0002031","count":5},{"id":"GO:0002291","count":5},{"id":"GO:0030032","count":5},{"id":"GO:0030097","count":5}]},{"hash":"1451103352455101388","title":"Immune cell signaling and chemotaxis","description":"The cluster\u2019s terms cluster around immune-related processes: neutrophil chemotaxis, monocyte differentiation, and cellular responses to GM-CSF, epinephrine, and cGMP, indicating signaling and recruitment of immune cells. Other enriched terms involve broader signaling pathways (PKA, guanylyl cyclase), which can be shared across cells. A couple of terms (retinal cone development and regulation of cardiac muscle contraction) are outliers, likely reflecting protein multifunctionality rather than a core immune-specific function. Overall, immune signaling and chemotaxis is the most coherent theme.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":2},{"id":"GO:0030224","count":2},{"id":"GO:0071321","count":2},{"id":"GO:0086004","count":2},{"id":"GO:0030593","count":2}]},{"hash":"1838749829088309874","title":"TGF-\u03b2/BMP Signaling Regulation","description":"This cluster centers on GO terms related to transforming growth factor beta (TGF-\u03b2) stimulus response and BMP signaling, including negative regulation of TGF-\u03b2 receptor signaling and SMAD complex assembly, indicating a common theme of TGF-\u03b2/BMP pathway modulation. A few terms (meristem identity, photosystem stoichiometry) are peripheral or potentially noisy annotations, but the core signals point to pathway regulation.","confidence":"Medium","size":9,"edges":14,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":4},{"id":"GO:0010074","count":3},{"id":"GO:0080005","count":3},{"id":"GO:0035970","count":3},{"id":"GO:0042006","count":3}]},{"hash":"2135731723177852922","title":"PI3K/ERK signaling and immune cell migration","description":"This cluster centers on positive regulation of PI3K signaling and the ERK cascade, with additional signals for actin filament polymerization, monocyte chemotaxis, and immune responses (including response to lipopolysaccharide). The convergence of these terms suggests a theme of signaling-driven immune activation that promotes cytoskeletal changes and directed monocyte movement, hence the label focusing on PI3K/ERK signaling and immune cell migration.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0051897","count":3},{"id":"GO:0043552","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0071222","count":2}]},{"hash":"1588907181714293832","title":"Neural stress response and ubiquitin regulation","description":"This cluster centers on neural-related terms (brain development, adult locomotory behavior) and stress response processes (hypoxia, toxic substances, hydrogen peroxide), suggesting functions in neural adaptation to stress. The presence of multiple deubiquitination terms indicates a regulatory layer at the protein level (ubiquitin processing). Some terms (spermatogenesis, cell-surface localization) appear peripheral, but the dominant signal ties neural development/function with stress response and ubiquitin regulation.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":2},{"id":"GO:0008344","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0070301","count":2}]},{"hash":"1748818323143006309","title":"Unknown","description":"There is no coherent, single biological theme linking the top GO terms (metabolic processes for vitamins and cAMP, development/differentiation like root/heart/muscle formation, and signaling regulation), suggesting the proteins span diverse functions or species; thus no representative function emerges from the cluster.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006171","count":1},{"id":"GO:0042357","count":1},{"id":"GO:0006772","count":1},{"id":"GO:0048364","count":1},{"id":"GO:0032926","count":1}]},{"hash":"764895878264431619","title":"Bacterial antibiotic and cell-envelope biosynthesis","description":"The strongest GO signal is antibiotic biosynthetic process, paired with lipopolysaccharide and O antigen biosynthesis, which are classic prokaryotic pathways for producing antibiotics and building the bacterial cell envelope. Other terms touch on related metabolic processes (sporulation, fatty acid biosynthesis, retinal metabolism, acetoin catabolism), but the dominant theme centers on bacterial biosynthesis of bioactive compounds and surface components.","confidence":"Medium","size":9,"edges":8,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":4},{"id":"GO:0055114","count":3},{"id":"GO:0019878","count":3},{"id":"GO:1902321","count":2},{"id":"GO:0009243","count":2}]},{"hash":"838689378244431892","title":"Nucleotide Salvage and Metabolism","description":"The top GO terms cluster around salvage and metabolism of nucleotides (CMP/UMP/CTP salvage; GMP biosynthesis; purine and pyrimidine nucleobase metabolism), indicating a core theme of nucleotide salvage and biosynthesis. Coenzyme A biosynthesis appears as a secondary signal, but the dominant signal is nucleotide salvage. Overall, the cluster centers on nucleotide metabolism rather than a single non-nucleotide function.","confidence":"High","size":9,"edges":11,"triangles":3,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":3},{"id":"GO:0055114","count":2},{"id":"GO:0044211","count":2},{"id":"GO:0044206","count":2},{"id":"GO:0006238","count":2}]},{"hash":"1245827480773704896","title":"Unknown","description":"The GO terms describe a mix of metabolic pathways (retinol/retinoic acid biosynthesis, glycolysis, lipopolysaccharide and poly-hydroxybutyrate biosynthesis) alongside responses to xenobiotics and ethanol, with no clear single function tying all proteins together. There isn\u2019t a cohesive, representative theme to label the cluster beyond Unknown.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0009103","count":2},{"id":"GO:0042619","count":2},{"id":"GO:0042572","count":2},{"id":"GO:0045471","count":2}]},{"hash":"406837115413534072","title":"Regulation of tissue development","description":"The terms point to regulatory roles across multiple tissues, including cartilage development, adipose tissue development, and cardiac tissue morphogenesis, plus various regulatory processes (e.g., negative/positive regulation) and circadian-related homeostasis. This suggests a coherent theme of tissue development and morphogenesis regulation rather than a single pathway, hence a label focused on tissue development regulation. Examples include growth plate cartilage development, positive regulation of adipose tissue development, and ventricular cardiac muscle tissue morphogenesis.","confidence":"Medium","size":9,"edges":14,"triangles":9,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090188","count":9},{"id":"GO:0003417","count":9},{"id":"GO:1904179","count":9},{"id":"GO:1903208","count":9},{"id":"GO:0060086","count":9}]},{"hash":"2094501462898531144","title":"Embryonic Eye Morphogenesis and Neural Patterning","description":"This cluster is dominated by terms specific to eye development (camera-type eye development, embryonic eye morphogenesis, amacrine cell differentiation) and neural patterning (left/right pattern formation, floor plate development, somitogenesis), with additional references to broader morphogenesis of vertebrate tissues (lung vasculature, venous development). The strongest signal centers on eye formation and neural/tissue patterning during embryogenesis, making this a cohesive theme.","confidence":"High","size":9,"edges":31,"triangles":55,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0006366","count":5},{"id":"GO:0060972","count":4},{"id":"GO:0043010","count":3},{"id":"GO:0060441","count":3},{"id":"GO:0060841","count":3}]},{"hash":"2107114515494868054","title":"Spliceosome and RNA Processing Machinery","description":"This cluster is dominated by GO terms related to RNA splicing and processing, including mRNA splicing via spliceosome, spliceosomal complex/snRNP assembly, and RNA processing steps (tRNA and rRNA maturation), indicating a cohesive group of proteins involved in RNA maturation and splicing. A few terms (chromatin-related and ABA response) are ancillary and less central to the core theme.","confidence":"High","size":9,"edges":32,"triangles":60,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0045292","count":4},{"id":"GO:0000245","count":4},{"id":"GO:0000290","count":3},{"id":"GO:0006369","count":3},{"id":"GO:0070317","count":3}]},{"hash":"745340006482329465","title":"Chromatin remodeling and heterochromatin formation","description":"Dominant GO terms are about heterochromatin formation and chromatin assembly/remodeling (rDNA heterochromatin, pericentric and subtelomeric heterochromatin, DNA replication-dependent chromatin assembly, transcription initiation-coupled chromatin remodeling). There are a few related processes (sperm DNA condensation; Rho signaling) that can influence chromatin dynamics, but the overall cluster theme is clearly centered on chromatin organization and heterochromatin maintenance.","confidence":"High","size":9,"edges":2,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000183","count":4},{"id":"GO:0051290","count":4},{"id":"GO:0006335","count":4},{"id":"GO:0045815","count":4},{"id":"GO:0031508","count":3}]},{"hash":"1426324196058589927","title":"Cofactor Biosynthesis and RNA Methylation","description":"This cluster is dominated by biosynthetic processes for several cofactors (menaquinone, biotin, pyrroloquinoline quinone, molybdopterin cofactor, and protoporphyrinogen IX) and by RNA modification activities (tRNA and rRNA base methylation). These patterns suggest a cohesive theme around production of essential cofactors and RNA modification, with a few outlier terms (e.g., neurotransmitter secretion, GPCR signaling) likely reflecting broader or context-dependent annotations rather than core cluster function.","confidence":"High","size":9,"edges":25,"triangles":29,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":3},{"id":"GO:0009234","count":3},{"id":"GO:0009102","count":3},{"id":"GO:0007205","count":2},{"id":"GO:0007269","count":2}]},{"hash":"572732864704214603","title":"Neuronal excitability and dopamine signaling","description":"The GO terms cluster around neuronal signaling and excitability: sodium, calcium, and potassium ion transport leading to membrane depolarization and excitatory postsynaptic potentials, together with startle response and regulation of dopamine secretion. The presence of circadian sleep/wake cycle regulation suggests involvement in timing aspects of neuronal signaling as well. Overall, these terms point to a cohesive theme of ion-channel\u2013driven excitability coupled with dopaminergic regulation.","confidence":"High","size":9,"edges":26,"triangles":35,"max_degree":8,"top_function":null,"top_go_terms":[{"id":"GO:0035725","count":5},{"id":"GO:0098703","count":4},{"id":"GO:0045188","count":4},{"id":"GO:0001964","count":4},{"id":"GO:0051899","count":4}]},{"hash":"233347715461469510","title":"RNA processing and splicing, including small RNAs","description":"The cluster is driven by RNA processing and splicing terms (mRNA processing, siRNA/miRNA processing, RNA splicing), indicating a core theme of post-transcriptional RNA regulation and small RNA pathways. Additional terms like innate immune response and telomere maintenance may reflect broader cellular contexts but do not supersede the RNA-processing signal.","confidence":"Medium","size":9,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006397","count":2},{"id":"GO:0030422","count":2},{"id":"GO:0035196","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0008380","count":2}]},{"hash":"1239531402058958149","title":"Nuclear import machinery and mitotic chromosome movement","description":"Based on the GO terms, the cluster is enriched for nuclear transport processes (nuclear pore assembly, ribosomal protein import into the nucleus, NLS-bearing protein import, and related import terms) and components of chromosome segregation (protein localization to kinetochore, mitotic chromosome movement toward spindle pole). Together these point to a core function in nuclear transport coupled with mitotic chromosome dynamics. Confidence: High","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060188","count":5},{"id":"GO:0051292","count":5},{"id":"GO:0043547","count":5},{"id":"GO:0006610","count":5},{"id":"GO:0000060","count":5}]},{"hash":"837149230733788395","title":"ECM Remodeling in Development","description":"These GO terms cluster around extracellular matrix remodeling (basement membrane disassembly, collagen catabolic process, bone resorption) and developmental processes such as lung branching morphogenesis, neural precursor proliferation, and decidualization. The unifying theme appears to be ECM turnover guiding tissue morphogenesis and organ development.","confidence":"Medium","size":9,"edges":8,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0034769","count":3},{"id":"GO:2000179","count":3},{"id":"GO:0050790","count":3},{"id":"GO:0060448","count":3},{"id":"GO:0030574","count":3}]},{"hash":"1153641851151310042","title":"Multi-tissue Development and Patterning","description":"The terms point to involvement in a variety of developmental processes across different tissues (follicle development, imaginal disc segmentation, intestinal epithelial development, hypochord development, female meiosis, B cell differentiation) and pattern specification, with some notes on Notch signaling. This suggests a broad role in development and tissue differentiation rather than a single unified function, so a label centered on multi-tissue development and patterning fits best. Confidence: Low.","confidence":"","size":9,"edges":8,"triangles":2,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":2},{"id":"GO:0032092","count":2},{"id":"GO:1902367","count":2},{"id":"GO:0007386","count":2},{"id":"GO:0001541","count":2}]},{"hash":"1234088736892954144","title":"Signaling and trafficking pathways","description":"Top GO terms show signaling-related processes (positive regulation of JNK cascade, Rap protein signaling, axon extension) and trafficking/endosomal functions (multivesicular body sorting, ribosomal small subunit export from nucleus), suggesting the cluster centers on cellular signaling modulated by trafficking events. Some terms (viral RNA genome replication, hair follicle placode formation) are outliers, so the label emphasizes the core theme without overfitting.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000056","count":3},{"id":"GO:0039694","count":3},{"id":"GO:0016311","count":2},{"id":"GO:0090136","count":2},{"id":"GO:0060789","count":2}]},{"hash":"552412412528585781","title":"Unknown","description":"The top terms are highly heterogeneous, including plant light/clock\u2013related processes (phototropism, brassinosteroid signaling, circadian rhythm) alongside metabolism, immune response, protein oligomerization, and development terms, with only a single edge connecting proteins. This lack of a cohesive functional theme makes it impossible to assign a specific, representative label. ","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:0019380","count":2},{"id":"GO:0006828","count":2},{"id":"GO:0042092","count":2},{"id":"GO:0045214","count":2}]},{"hash":"892140876532075248","title":"RNA Pol II Transcription Regulation","description":"This cluster is dominated by GO terms related to transcription by RNA polymerase II, including negative regulation of transcription by Pol II and DNA-templated transcription, with supporting terms about DNA binding and transcription regulation. Additional signals point to ER stress response and redox/protein repair processes, which can intersect with transcriptional control. Overall, the strongest common theme is regulation of RNA Pol II\u2013mediated transcription.","confidence":"High","size":9,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:1903206","count":4},{"id":"GO:0033158","count":4},{"id":"GO:1903026","count":4},{"id":"GO:0000122","count":4},{"id":"GO:0030091","count":4}]},{"hash":"655642790678478823","title":"Carbohydrate metabolism and redox balance","description":"The cluster highlights glycolysis, gluconeogenesis, fructose metabolism, and pentose-phosphate pathway/PPP regulation, along with dephosphorylation and respiratory burst, pointing to a cohesive theme of sugar metabolism and NADPH-related redox processes. The brain development term is less central to the core metabolic themes, but the dominant signal supports labeling around carbohydrate metabolism and redox balance.","confidence":"Medium","size":9,"edges":11,"triangles":1,"max_degree":4,"top_function":"autophagy","top_go_terms":[{"id":"GO:0007420","count":6},{"id":"GO:0009410","count":4},{"id":"GO:0006096","count":4},{"id":"GO:0006003","count":4},{"id":"GO:0016311","count":4}]},{"hash":"112001026233486158","title":"Unknown","description":"The top terms are highly heterogeneous, including RNA processing, translation initiation, protein maturation/proteolysis, collagen catabolic process, chromatin organization, protein stabilization, and even glomerular filtration, with several obsolete GO terms and no clear shared function or interaction pattern. Therefore no cohesive label can be confidently assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0001731","count":2},{"id":"GO:0035551","count":1},{"id":"GO:0030574","count":1}]},{"hash":"370875725105068899","title":"Unknown","description":"The terms span diverse processes (ascospore formation, brain region development, epithelial proliferation, potassium transport, and mitochondrial respiration) with no clear unifying function. This heterogeneity makes it hard to assign a coherent, specific label to the cluster.","confidence":"","size":9,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030437","count":2},{"id":"GO:0033601","count":2},{"id":"GO:0071805","count":2},{"id":"GO:0021794","count":1},{"id":"GO:0021854","count":1}]},{"hash":"242253195470206866","title":"Glycosylation and glycosphingolipid biosynthesis","description":"Mostly GO terms reflect glycan processing and glycosphingolipid metabolism (N-glycan processing, oligosaccharide metabolic process, glycosylceramide metabolism, ganglioside biosynthesis, and protein sialylation). A few terms about olfactory development or pollen appear incidental; the dominant theme is the synthesis and modification of glycoconjugates. ","confidence":"High","size":9,"edges":12,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0001574","count":2},{"id":"GO:0006491","count":2},{"id":"GO:0009311","count":2},{"id":"GO:0071699","count":2},{"id":"GO:0009846","count":2}]},{"hash":"1726219757798706273","title":"Ubiquitin-dependent proteolysis and transcription regulation","description":"Based on the top GO terms, the cluster is strongly enriched for ubiquitination processes (K48- and K6-linked ubiquitination, autoubiquitination, ubiquitin-dependent protein catabolic process), indicating a core theme of ubiquitin-mediated protein turnover. The presence of DNA-templated transcription and histone catabolic processes suggests that this turnover affects transcriptional regulation and chromatin dynamics. While other terms touch on signaling and organelle dynamics, the ubiquitination-focused terms provide the most coherent functional thread for this cluster.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0090141","count":4},{"id":"GO:0090394","count":4},{"id":"GO:0071287","count":4},{"id":"GO:0051865","count":4},{"id":"GO:0036205","count":4}]},{"hash":"812238543214364333","title":"Unknown","description":"Unknown","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070478","count":3},{"id":"GO:0071051","count":3},{"id":"GO:0000465","count":3},{"id":"GO:0000467","count":3},{"id":"GO:0070651","count":3}]},{"hash":"1484733194732594021","title":"Epithelial Growth and Morphogenesis Signaling","description":"The top GO terms cluster around growth factor\u2013responsive signaling (VEGF response, PI3K/AKT, JNK regulation) and epithelial proliferation in developing tissues such as mammary gland and lung, pointing to a common theme of signaling-driven epithelial morphogenesis. Some terms (neuronal development) are less central, but overall the pattern supports a growth/morphogenesis in epithelia interpretation.","confidence":"Medium","size":9,"edges":26,"triangles":29,"max_degree":7,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":9},{"id":"GO:0090188","count":9},{"id":"GO:0035924","count":9},{"id":"GO:0046330","count":9},{"id":"GO:0045056","count":9}]},{"hash":"276757413813529627","title":"Vesicle trafficking and SNARE-mediated transport","description":"This cluster mainly features GO terms for ER-to-Golgi vesicle transport, retrograde transport from endosome to Golgi, and SNARE complex assembly, plus several transmembrane transporter activities (biotin, pantothenate, glucose, inositol, sodium export). Together these point to a cohesive theme of vesicle trafficking and membrane transport, with SNARE machinery as a core component.","confidence":"High","size":9,"edges":9,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0006888","count":2},{"id":"GO:0008292","count":2},{"id":"GO:0015878","count":2},{"id":"GO:0015798","count":2},{"id":"GO:0071436","count":2}]},{"hash":"488988084718953726","title":"Unknown","description":"The GO terms cover immune signaling, endocrine and organ development, neural migration, and metabolic regulatory processes with no clear single theme; plus the network has no edges, suggesting the proteins do not share a cohesive function in a common pathway. ","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0072643","count":2},{"id":"GO:2000664","count":1},{"id":"GO:0090295","count":1},{"id":"GO:0021942","count":1},{"id":"GO:0002572","count":1}]},{"hash":"1892674549502763036","title":"Unknown","description":"The GO terms are highly heterogeneous, including plant meristem regulation, otolith morphogenesis, immune/dopamine responses, and basic cellular processes like vacuolar acidification and proton transport, with no clear shared function. The absence of edges also suggests a lack of cohesive, single-function grouping, so a specific label cannot be confidently assigned.","confidence":"","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009826","count":3},{"id":"GO:0007035","count":3},{"id":"GO:0015991","count":3},{"id":"GO:0071222","count":2},{"id":"GO:0032497","count":1}]},{"hash":"1648241139370542687","title":"Neural signaling and synaptic remodeling","description":"The cluster\u2019s top GO terms cluster around neuronal communication and synaptic regulation, including actin cytoskeleton organization, small GTPase signaling, ephrin receptor signaling, and regulation of synaptic plasticity by receptor localization to the synapse. These point to proteins involved in neural signaling and structural changes at synapses, with additional peripheral signals (e.g., GPCR signaling, IGF pathway, membrane trafficking) that support broader signaling contexts. Overall, the dominant theme is neural signaling and synaptic remodeling.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043314","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0060313","count":3},{"id":"GO:0030036","count":3},{"id":"GO:0007605","count":3}]},{"hash":"891439688403796038","title":"Neuronal signaling and synaptic plasticity","description":"This cluster is dominated by GO terms linking neuronal communication and synaptic modulation: Rho-mediated signaling and actin cytoskeleton remodeling suggest structural plasticity; receptor clustering and long-term synaptic depression point to changes in synaptic efficacy; sensory perception of bitter taste and social behavior reflect neural signaling contributing to behavior. While a few terms (e.g., peroxisome/ER organization) are less central, the strongest pattern centers on neuronal signaling and synaptic plasticity.","confidence":"High","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031532","count":2},{"id":"GO:0007266","count":2},{"id":"GO:0010667","count":2},{"id":"GO:0007168","count":2},{"id":"GO:0060292","count":2}]},{"hash":"2264685816108881128","title":"Skin development and innate immune signaling","description":"The GO terms point to transcriptional regulation (GO:0006355) alongside skin/epithelial development signals (hair follicle placode formation, epithelial cell-cell adhesion) and innate immune signaling (MyD88-dependent TLR4 pathway), suggesting a cluster of proteins coordinating transcriptional control with epithelial differentiation and immune responses in skin. While diverse, the recurring themes are transcriptional regulation linked to skin/epithelial signaling and innate immune pathways.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0006355","count":5},{"id":"GO:0035660","count":5},{"id":"GO:0007527","count":5},{"id":"GO:0097011","count":2},{"id":"GO:0001782","count":2}]},{"hash":"1316211470191831558","title":"Developmental Signaling and Cell Polarity","description":"The top GO terms point to multiple signaling pathways (Wnt, Rho, EGFR, thrombin receptor) and processes that control cell shape, polarity, and growth, with additional mentions of pinocytosis and mitotic spindle assembly. This suggests a cohesive theme of signaling networks governing development-related cell behavior and polarity rather than a single isolated pathway, justifying a label focused on signaling and polarity in a developmental context.","confidence":"Medium","size":9,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":2},{"id":"GO:0035023","count":2},{"id":"GO:0016055","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0071364","count":2}]},{"hash":"1094781462605546958","title":"Diverse Biosynthetic Pathways","description":"The cluster shows a clear tilt toward biosynthetic processes, including biotin, chlorophyll, proline, lysine, and antibiotic biosynthesis (GO:0009102, GO:0015995, GO:0055129, GO:0038166, GO:0017000, GO:0019878, GO:0019481). A couple of terms like angiotensin-activated signaling and regulation of blood pressure appear only once and may reflect annotation noise or cross-species mappings, but the predominant signal is participation in various biosynthetic pathways. Confidence: Medium","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0038166","count":1},{"id":"GO:0008217","count":1},{"id":"GO:0009089","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0010121","count":1}]},{"hash":"1025710216907879394","title":"Histone modification and rDNA chromatin regulation","description":"This cluster\u2019s GO terms point to chromatin-related regulation, notably histone acetylation and deacetylation (H4, H2A), and negative regulation of RNA Pol I transcription and rDNA heterochromatin formation. Additional items refer to DNA damage response and oxidative stress signaling (hydrogen peroxide, redox processes), suggesting a role in chromatin remodeling under cellular stress. ","confidence":"Medium","size":8,"edges":7,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0061188","count":3},{"id":"GO:0070301","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0043981","count":2},{"id":"GO:0043968","count":2}]},{"hash":"362879552571384591","title":"Growth signaling and angiogenesis regulation","description":"This cluster centers on insulin-like growth factor receptor signaling, BMP secretion, and factors regulating vascular permeability and sprouting angiogenesis, suggesting a core theme of growth-factor\u2013mediated signaling controlling vascular remodeling. The presence of GO terms for cell cycle and transcription regulation likely reflects downstream effects on proliferation and gene expression, while a couple of terms (fungal cell wall glucan biosynthesis, obsolete sulfate transport) appear less aligned, possibly noise or broad annotations.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007049","count":2},{"id":"GO:0006357","count":2},{"id":"GO:0048009","count":2},{"id":"GO:0090334","count":2}]},{"hash":"568057131844068237","title":"Central nervous system signaling and sensory regulation","description":"The cluster shows terms related to neuronal activity (neuronal action potential), brain region development (globus pallidus development), sensory pathways (optic nerve organization and touch perception), and autonomic/circadian regulation (circadian sleep/wake cycle and heart rate). These converge on CNS signaling with sensory and autonomic control, with a few secondary cytoskeletal/detoxification terms. ","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0098869","count":2},{"id":"GO:1902260","count":2},{"id":"GO:0021759","count":2},{"id":"GO:0035024","count":2},{"id":"GO:0043149","count":2}]},{"hash":"2157233285052680237","title":"Ribosome Biogenesis and Translation","description":"The cluster is dominated by GO terms related to protein synthesis: translation, tRNA modification/aminoacylation, and ribosome biogenesis, indicating a group of proteins involved in ribosome function and assembly. A few other terms (NF-kappaB regulation, nuclear translocation, stress/insulin responses) are present but less representative of the core function. Thus, the label reflects the central theme of protein synthesis machinery.","confidence":"High","size":8,"edges":5,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":4},{"id":"GO:0006400","count":3},{"id":"GO:0043124","count":2},{"id":"GO:0000060","count":2},{"id":"GO:0006425","count":2}]},{"hash":"17259264359473179","title":"Fungal lipid and sterol metabolism","description":"The strongest signals are lipid biosynthesis and sterol metabolism, notably ergosterol biosynthesis and MIPC sphingolipid metabolism, with supporting terms for unsaturated fatty acid biosynthesis. A few terms (sebaceous gland differentiation, myelin maintenance) seem unrelated and may reflect cross-species annotation noise. Overall, the cluster appears to reflect eukaryotic lipid and sterol metabolism, with a fungal emphasis.","confidence":"Medium","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":5},{"id":"GO:0032286","count":5},{"id":"GO:0042128","count":5},{"id":"GO:0000001","count":5},{"id":"GO:0006809","count":5}]},{"hash":"413547351436178148","title":"B cell activation and phagocytosis regulation","description":"The top GO terms cluster around positive regulation of B cell receptor signaling, follicular B cell differentiation, and regulation of phagocytosis, with supporting PI signaling (phosphatidylinositol, IP3, PI3K) and Rho/Ras pathway modulation. This points to a module of immune signaling in B cells that also tunes cytoskeletal and endocytic processes, hence a label focusing on B cell activation and phagocytosis regulation is appropriate.","confidence":"Medium","size":8,"edges":11,"triangles":10,"max_degree":5,"top_function":"intracellular protein transport","top_go_terms":[{"id":"GO:0050861","count":5},{"id":"GO:0009395","count":5},{"id":"GO:0032959","count":5},{"id":"GO:0002316","count":5},{"id":"GO:0046580","count":5}]},{"hash":"1605758821459176290","title":"Neuron Microtubule Dynamics and Transport","description":"This cluster is clearly centered on microtubule behavior: minus- and plus-end directed movements, plus-end vesicle transport, microtubule polarity, and regulation of microtubule-based processes. The cerebellar granular layer term suggests neuron-specific cytoskeletal organization, while nuclear migration along microtubules and stress granule disassembly tie RNA/protein granule dynamics to the microtubule network; zonula adherens maintenance also relates to cytoskeletal integrity in cells. Altogether, the dominant theme is microtubule dynamics and intracellular transport in neurons.","confidence":"High","size":8,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":8},{"id":"GO:0031534","count":8},{"id":"GO:0072383","count":8},{"id":"GO:0000743","count":8},{"id":"GO:0035617","count":8}]},{"hash":"432031733486165937","title":"Fungal ER stress response and cell wall biosynthesis","description":"This cluster is dominated by GO terms pointing to fungal-specific processes: unfolding protein response and chaperone-related refolding, post-translational targeting to membranes (ER-associated), and especially beta-glucan biosynthesis for the fungal cell wall, plus karyogamy related to fungal mating. While some general terms like DNA replication and morphogenesis appear, the recurring fungal-centric themes support labeling this as fungal ER stress response and cell wall biosynthesis.","confidence":"High","size":8,"edges":21,"triangles":35,"max_degree":6,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":7},{"id":"GO:0006260","count":7},{"id":"GO:1902037","count":7},{"id":"GO:0031204","count":7},{"id":"GO:0034620","count":7}]},{"hash":"1459250931067194972","title":"RNA silencing and chromatin regulation","description":"The cluster centers on RNA interference pathways and regulatory ncRNA\u2013mediated post-transcriptional gene silencing, including lsiRNA processing and RNAi-mediated antiviral immunity, coupled with deubiquitination and histone-related chromatin remodeling terms. This points to a cohesive module of RNA-based gene silencing integrated with transcriptional/chromatin regulation; while a few terms (like translational initiation and PI signaling) are less central, the RNAi and chromatin themes predominate.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0035871","count":2},{"id":"GO:0070537","count":2},{"id":"GO:0000335","count":2},{"id":"GO:0006413","count":2}]},{"hash":"1015387719944798748","title":"Chromatin remodeling and transcription regulation","description":"The top terms point to chromatin remodeling, nucleosome positioning, and RNA Pol II\u2013mediated transcription regulation, indicating a core theme of chromatin dynamics controlling gene expression; other terms (SOS response, cold response, exploration behavior, DNA replication primer synthesis, ribosome assembly) are broader or older annotations that may reflect regulatory connections but do not dominate the cluster.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045944","count":5},{"id":"GO:0035640","count":5},{"id":"GO:0090394","count":5},{"id":"GO:0016584","count":4},{"id":"GO:0009432","count":4}]},{"hash":"2290545223214575155","title":"Mitotic spindle and cytoskeletal dynamics","description":"This cluster is dominated by mitosis- and cytoskeleton-related GO terms: mitotic spindle assembly, CENP-A chromatin assembly, cell division, microtubule severing, and actin filament depolymerization, indicating a focus on mitotic machinery and cytoskeletal remodeling. A subset of terms about ER-Golgi transport and ERAD appears as broader housekeeping processes but does not outweigh the mitosis/cytoskeleton signal. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006888","count":4},{"id":"GO:0061641","count":4},{"id":"GO:0051013","count":4},{"id":"GO:0051260","count":4},{"id":"GO:0090307","count":4}]},{"hash":"1485319130864839159","title":"Unknown","description":"The GO terms span diverse and seemingly unrelated processes, including lipid homeostasis, multiple tissue-specific developmental morphogenesis (retina, white fat, female genitalia, vagina), forebrain cell proliferation, insulin signaling, lipopolysaccharide response, and broad gene expression regulation. There isn't a single coherent function or pathway tying these together, so a specific, representative label is not evident.","confidence":"","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0055091","count":3},{"id":"GO:0060059","count":3},{"id":"GO:0050872","count":3},{"id":"GO:0071222","count":3},{"id":"GO:0021846","count":3}]},{"hash":"1913374327750487725","title":"Mitotic Cell Cycle and Development","description":"This cluster centers on mitotic processes (mitotic cell cycle, cell division, APC-dependent catabolic process) and developmental programs (multicellular organism development, forebrain development), with supporting signals tied to cellular stress and apoptosis (ER stress\u2013related apoptotic signaling) and environmental responses. The convergence of cell-cycle machinery with development suggests a module coordinating proliferation with growth and stress responses.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":4},{"id":"GO:0001403","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0031145","count":3},{"id":"GO:0071276","count":3}]},{"hash":"2051459590481734391","title":"Hair Follicle Development and Skin Signaling","description":"The presence of hair follicle placode formation and epithelial cell-cell adhesion terms points to epidermal development and hair follicle initiation. Positive regulation of JNK cascade and Rap signaling support coordinated signaling controlling adhesion and cytoskeletal dynamics in skin. Endosomal trafficking and NF-kappaB-related regulation further fit with regulatory signaling in developing epidermal tissues.","confidence":"High","size":8,"edges":7,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043124","count":3},{"id":"GO:0090136","count":2},{"id":"GO:0060789","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0045773","count":2}]},{"hash":"1995651545004230453","title":"TLR4 signaling and inflammasome activation","description":"This cluster centers on innate immune sensing and inflammatory signaling: detection of bacteria and LPS, TLR4 signaling, response to dsRNA, inflammatory response, TNF production, and NLRP3 inflammasome complex assembly, suggesting coordinated activation of innate immunity and inflammasome-driven inflammation, with potential oligomerization of signaling components.","confidence":"High","size":8,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0043330","count":2},{"id":"GO:0032760","count":2},{"id":"GO:0071222","count":2},{"id":"GO:0032498","count":2}]},{"hash":"1149518623885123965","title":"Unknown","description":"The top GO terms span very different biology (developmental processes like brain and gonad development, translation initiation, signaling and gene regulation, immune defense, and mitotic machinery) with no clear shared mechanism. There are no edges or interactions linking these proteins, so there isn\u2019t a single cohesive function to label. Therefore, the cluster cannot be confidently assigned a specific functional label.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051092","count":3},{"id":"GO:0071260","count":3},{"id":"GO:0043087","count":3},{"id":"GO:0008584","count":2},{"id":"GO:0002188","count":2}]},{"hash":"1612378265698104179","title":"Epigenetic chromatin regulation and transcription control","description":"The terms converge on nuclear chromatin processes: histone deacetylation, heterochromatin formation, regulation of telomere maintenance, and repression of transcription (RNA polymerase I). These indicate an epigenetic, chromatin-state\u2013driven module governing gene expression, with additional links to transcriptional regulation pathways such as androgen receptor signaling. Overall, the cluster appears to reflect chromatin remodeling and transcriptional control.","confidence":"High","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0016584","count":8},{"id":"GO:0034983","count":8},{"id":"GO:0016479","count":8},{"id":"GO:0010882","count":8},{"id":"GO:0032204","count":8}]},{"hash":"244274990699946546","title":"Unknown","description":"The top GO terms mix mitochondrial-related processes (protein import into mitochondrial matrix; regulation of mitochondrial membrane permeability) with development (neural retina development) and various biosynthetic processes (antibiotic, menaquinone, triglyceride biosynthesis). There is no single, coherent theme tying all functions together, suggesting heterogeneous or noisy annotations. Therefore, a specific, representative label cannot be confidently assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030150","count":2},{"id":"GO:0003407","count":1},{"id":"GO:0014823","count":1},{"id":"GO:2000134","count":1},{"id":"GO:0010867","count":1}]},{"hash":"1524359811745303409","title":"Ribosome biogenesis and RNA processing","description":"The strongest signals are ribosome biogenesis, maturation of SSU-rRNA, and mRNA splicing, which together point to proteins involved in RNA production and processing and ribosome assembly. The inclusion of cell division and chromatid segregation terms may reflect overlap with proliferative cell cycle functions or historical annotations. Overall, the cluster centers on foundational RNA/RNP biogenesis processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":4},{"id":"GO:0000747","count":3},{"id":"GO:0051301","count":3},{"id":"GO:0000462","count":3},{"id":"GO:0000398","count":3}]},{"hash":"1226934761219780226","title":"Growth signaling and polarity regulation","description":"Top terms include establishment of epithelial cell polarity, TORC1 signaling, regulation of GTPase activity, protein autophosphorylation, and cell cycle, along with ER-to-Golgi transport and developmental processes. This combination points to a module that coordinates growth signals, cellular architecture, and trafficking, rather than a narrowly defined pathway. Therefore the label Growth signaling and polarity regulation captures the shared theme.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090162","count":4},{"id":"GO:0097284","count":3},{"id":"GO:2000171","count":3},{"id":"GO:0033028","count":3},{"id":"GO:0007049","count":3}]},{"hash":"378114380156183268","title":"Unknown","description":"The term set is highly heterogeneous, including DNA repair (NER), hypoxia response, aging (obsolete), hair cell differentiation, embryonic development, hair follicle maturation, membrane repair, and GTPase regulation, with several obsolete GO entries. There is no clear, cohesive functional theme linking these proteins, making a single intuitive label unreliable. ","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001666","count":3},{"id":"GO:0000717","count":2},{"id":"GO:0007568","count":2},{"id":"GO:0035315","count":2},{"id":"GO:0048568","count":2}]},{"hash":"1791303453992759391","title":"Drosophila follicle cell development and ciliary/cytoskeletal dynamics","description":"The top GO terms cluster around developmental processes in Drosophila follicles (follicle cell development, sensory organ precursor division) and ciliary/cytoskeletal activities (cilium assembly, intraflagellar transport, actin filament-based movement, formin-nucleated actin assembly, mitotic contractile ring). Hedgehog signaling via Smoothened links these developmental cues with signaling pathways. While triglyceride storage is a less central term, the overall theme is cytoskeletal remodeling and ciliary signaling during development in Drosophila.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030707","count":3},{"id":"GO:0030730","count":3},{"id":"GO:0030048","count":2},{"id":"GO:0060271","count":1},{"id":"GO:0007224","count":1}]},{"hash":"1777801134791373376","title":"Broad regulatory signaling and growth processes","description":"The proteins cover diverse regulatory roles\u2014cell division control (centrosome cycle), stress and growth signaling (JNK cascade, VEGF response), neural development (axon extension, neuron maturation), tissue proliferation (mammary gland epithelium), and trafficking (transcytosis). Because there is no single, specific pathway tying all terms together, the label captures a broad theme of regulatory signaling and growth-related processes.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007098","count":2},{"id":"GO:0008542","count":2},{"id":"GO:0020021","count":1},{"id":"GO:0090188","count":1},{"id":"GO:0035924","count":1}]},{"hash":"1204056595695585332","title":"Calcium\u2013NFAT signaling and immune-related processes","description":"The terms show calcineurin-NFAT signaling cascade and GPCR signaling pathway, innate immune response, and monocyte chemotaxis, suggesting calcium-dependent signal transduction influencing immune cell behavior. Other entries like mitotic cell cycle, heart development, and visual perception may reflect broader pleiotropy or cluster breadth, but the shared emphasis on calcium/Ca2+-dependent signaling and immune-related processes supports this theme.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0007205","count":2},{"id":"GO:0000122","count":2},{"id":"GO:0007507","count":2}]},{"hash":"1001564080540985641","title":"Unknown","description":"The top GO terms are scattered across DNA repair, nucleotide salvage/catabolism, and miscellaneous metabolic processes, with an outlier term for IL-2 production. There is no clear cohesive theme linking these terms, and with no edges connecting the proteins, the cluster does not converge on a single function, so a concise, representative label cannot be confidently assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0009234","count":1},{"id":"GO:0034356","count":1},{"id":"GO:0019358","count":1},{"id":"GO:0046115","count":1}]},{"hash":"829202657575766654","title":"Developmental differentiation and morphogenesis","description":"This cluster shows a set of GO terms related to tissue development and differentiation across diverse lineages (lens fiber cell differentiation, paraxial mesoderm development, paranodal junction assembly, regulation of angiogenesis, and cellular responses to growth factors like TGF-beta). While the terms span multiple tissues and processes, the overarching theme is developmental differentiation and morphogenesis rather than a single specific pathway. Confidence: Medium","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070306","count":4},{"id":"GO:2000060","count":3},{"id":"GO:0071560","count":3},{"id":"GO:0008284","count":3},{"id":"GO:0001845","count":3}]},{"hash":"1472668509536170854","title":"Nutrient-responsive amino acid biosynthesis","description":"This cluster is dominated by biosynthetic processes for amino acids (tryptophan, arginine, citrulline) and related metabolites (carbamoyl phosphate, 4-aminobenzoate), with supporting terms in nucleotide metabolism. The addition of \"response to starvation\" and \"response to food\" alongside \"midgut development\" suggests a gut-associated module where nutrient status modulates amino acid and related biosynthetic pathways.","confidence":"Medium","size":8,"edges":28,"triangles":56,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":5},{"id":"GO:0007494","count":5},{"id":"GO:0000162","count":5},{"id":"GO:0071548","count":5},{"id":"GO:0045984","count":5}]},{"hash":"1869475890003817997","title":"Unknown","description":"The top GO terms span neuronal synaptic plasticity, cell adhesion, brush border assembly, balance sensing, metabolism, hormone response, and angiogenesis, with no single unifying function connecting all proteins. This diverse mix suggests the cluster does not reflect one coherent biological theme, so a generic Unknown label is most appropriate.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051835","count":3},{"id":"GO:0051497","count":3},{"id":"GO:0033628","count":3},{"id":"GO:1904970","count":3},{"id":"GO:0050957","count":3}]},{"hash":"1649512555907591827","title":"Light-responsive transcriptional regulators","description":"The cluster is dominated by GO terms for DNA-templated transcription and regulation of transcription by RNA polymerase II, indicating a core set of transcriptional regulators. The presence of a light-signaling term (red, far-red light phototransduction) alongside metabolic regulation terms (glucose metabolism, hydrogen peroxide biosynthesis) suggests these proteins modulate transcription in response to light and metabolic cues, though some terms are obsolete. Overall, a cohesive theme is transcriptional control tied to light signaling and metabolism.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0007576","count":3},{"id":"GO:0070895","count":3},{"id":"GO:0010729","count":3},{"id":"GO:0000122","count":3}]},{"hash":"1978625415423232068","title":"Unknown","description":"The top terms cover metabolism (CoA and pantothenate biosynthesis), sporulation, Golgi trafficking, and cytoskeletal/cell division processes, with no clear single theme linking all functions. This makes it hard to assign a specific, representative label; the cluster appears to reflect diverse cellular roles rather than a coherent function.","confidence":"","size":8,"edges":7,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0015937","count":1},{"id":"GO:0015941","count":1},{"id":"GO:1901285","count":1},{"id":"GO:0030435","count":1},{"id":"GO:0043001","count":1}]},{"hash":"1323174978729024335","title":"Drosophila Eye and Ovary Development Signaling","description":"This cluster centers on developmental processes in Drosophila, notably eye morphogenesis and egg chamber/germarium-associated ovarian development, involving TGF-\u03b2/SMAD signaling, transcription regulation, and cell-cycle control. The mix of eye- and ovary-specific GO terms suggests a shared theme of developmental signaling and morphogenesis in these tissues, with some terms hinting at broader transcriptional regulation. Overall, it points to signaling-driven developmental programs in eye and ovarian tissues, rather than a single tightly defined process.","confidence":"Medium","size":8,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048593","count":3},{"id":"GO:0030713","count":3},{"id":"GO:0030708","count":3},{"id":"GO:0007269","count":3},{"id":"GO:0007183","count":3}]},{"hash":"570720894131800359","title":"Unknown","description":"The Top Terms are highly heterogeneous, spanning chromatin remodeling and transcription-related processes (e.g., transcription elongation, chromatin remodeling, nucleosome positioning), but also developmental events (nose and heart valve/canal development), vernalization, and chloroplast protein import, with several terms marked obsolete. The lack of a single, coherent functional theme and no observed interactions make a reliable, specific label unlikely.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016584","count":1},{"id":"GO:0048752","count":1},{"id":"GO:0036302","count":1},{"id":"GO:0045038","count":1},{"id":"GO:0010048","count":1}]},{"hash":"361444963133031703","title":"Neurodevelopment and Craniofacial Sensory Signaling","description":"These terms strongly point to development of head and brain-related structures (globus pallidus, inner ear, palate), plus functions tied to neural signaling and sensory biology (pain detection, vasopressin release, calcium transport). While a few terms are more general (RNA Pol II transcription, endothelial remodeling), the overall theme is neurodevelopmental and craniofacial maturation with sensory/neuroendocrine activity. The label captures this combined theme without overfitting to a single pathway.","confidence":"Medium","size":8,"edges":8,"triangles":1,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0021759","count":4},{"id":"GO:0048839","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0006366","count":3}]},{"hash":"670098180692496970","title":"Signaling and transcription regulation","description":"This cluster centers on regulatory activities: regulation of DNA-templated transcription, protein autophosphorylation, and modulation of signaling pathways (including interferon signaling) plus protein localization and response-related terms. While there are some niche terms (otolith tethering, phototransduction, cocaine response), the dominant themes point to proteins that control signaling cascades and gene expression.","confidence":"Medium","size":8,"edges":13,"triangles":10,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0035889","count":2},{"id":"GO:0032092","count":2},{"id":"GO:0060334","count":2},{"id":"GO:0051973","count":2}]},{"hash":"1990149184064146166","title":"Unknown","description":"The top GO terms span neural development (myelination, substantia nigra development, synaptic plasticity), immune signaling (B cell receptor signaling, B cell differentiation), vascular biology (endothelial barrier establishment), and membrane organization (raft polarization, eisosome assembly). There is no clear, single biological process linking these functions, and the sparse interactions (no edges) suggest a heterogeneous set of proteins rather than a cohesive pathway. Therefore, a definitive, specific label is not supported.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":2},{"id":"GO:0001766","count":2},{"id":"GO:0090038","count":2},{"id":"GO:0021762","count":2},{"id":"GO:0061028","count":2}]},{"hash":"319747942736376085","title":"Embryonic organogenesis","description":"The proteins show a broad set of developmental processes spanning heart (Purkinje myocyte differentiation, pulmonary myocardium development), kidney (metanephric mesenchyme development, pronephric nephron tubule development), and nervous system patterning (midbrain-hindbrain boundary development, oculomotor nerve formation, somite specification), indicating a general theme of embryonic organogenesis and patterning rather than a single pathway. Ceramide biosynthesis may relate to lipid signaling during development but does not define a specific tissue function here. ","confidence":"Medium","size":8,"edges":10,"triangles":0,"max_degree":5,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0042663","count":6},{"id":"GO:0003168","count":6},{"id":"GO:1900212","count":6},{"id":"GO:0046513","count":6},{"id":"GO:0021623","count":6}]},{"hash":"2009523648349919026","title":"Embryonic development and tissue morphogenesis","description":"Group centers on developmental morphogenesis and lineage specification: roof of mouth development, hair follicle morphogenesis, mesoderm development, endocardial cushion EMT, placental/t trophoblast differentiation, and endocrine system development. While there are also general gene expression processes (RNA polymerase II regulation, mRNA splicing, ribosomal export), the dominant signal is embryonic tissue development and morphogenesis.","confidence":"Medium","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":7},{"id":"GO:1903026","count":6},{"id":"GO:0031069","count":6},{"id":"GO:0007498","count":6},{"id":"GO:0003198","count":6}]},{"hash":"1241737459522057108","title":"Plant cell wall polysaccharide biosynthesis","description":"The GO terms cluster around plant cell wall construction and polysaccharide biosynthesis, including secondary cell wall biogenesis, mucilage, glucuronoxylan, and homogalacturonan synthesis, with protein glycosylation supporting wall component maturation. This points to a cohesive function in plant cell wall assembly and modification.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016266","count":3},{"id":"GO:0005978","count":3},{"id":"GO:0071555","count":3},{"id":"GO:0035269","count":3},{"id":"GO:0009834","count":3}]},{"hash":"865357953979548068","title":"Innate immune signaling and inflammation","description":"This cluster centers on innate immune functions: Fc-gamma receptor signaling, phagocytosis recognition, complement activation via the lectin pathway, basophil activation, and regulation of NK cell chemotaxis, as well as arachidonate-related inflammatory signaling. These together suggest a theme of immune cell activation and inflammatory responses, with oxidative stress-related senescence possibly reflecting stress conditions. The cartilage condensation term is less connected but may relate to immune-modulated tissue remodeling. Overall, the dominant theme is innate immune activation and inflammation.","confidence":"Medium","size":8,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0090403","count":2},{"id":"GO:0006910","count":1},{"id":"GO:0038094","count":1},{"id":"GO:0060355","count":1},{"id":"GO:0090238","count":1}]},{"hash":"2114819110633237731","title":"Unknown","description":"The terms point to a mix of neuronal postsynaptic membrane organization, various catabolic carbohydrate metabolism processes, and a developmental term, with several GO terms marked obsolete. There is no clear, cohesive biological function or pathway uniting these terms, so a single meaningful label cannot be assigned.","confidence":"","size":8,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001941","count":3},{"id":"GO:0009089","count":2},{"id":"GO:0019877","count":2},{"id":"GO:0019262","count":2},{"id":"GO:0042838","count":2}]},{"hash":"2204752092632471541","title":"Unknown","description":"The top GO terms are highly diverse (sperm capacitation, visual/sensory perception, transcription regulation, ERK signaling, endosome transport, and yeast growth programs), with no clear shared function across most proteins. Because there isn't a cohesive biological theme, I can't assign a specific, representative label.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0048240","count":3},{"id":"GO:0006355","count":3},{"id":"GO:0042391","count":3},{"id":"GO:0070374","count":2},{"id":"GO:0001403","count":2}]},{"hash":"1137195340910087733","title":"Transmembrane Ion Transport and Membrane Potential","description":"The cluster is dominated by terms about ion transport (potassium, sodium, zinc, and other cations), maintenance of electrochemical gradients, and membrane potential-related processes (transmembrane transport, membrane repolarization, and ion homeostasis), suggesting a cohesive theme of ion balance and membrane potential regulation. A few terms touch on muscle or neural development and pheromone responses, which may reflect broader signaling contexts but do not override the central ion-membrane focus.","confidence":"Medium","size":8,"edges":15,"triangles":14,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0031448","count":7},{"id":"GO:0021650","count":7},{"id":"GO:1990573","count":7},{"id":"GO:0071577","count":7},{"id":"GO:0099132","count":7}]},{"hash":"2137072254727136133","title":"Neuronal stress response and immune signaling","description":"The GO terms show a mix of neural-context functions (brain development, adult locomotory behavior) with stress and immune-related responses (response to toxic substances, hydrogen peroxide, hypoxia; defense against virus; regulation of MHC II biosynthesis) and apoptosis regulation. This suggests proteins involved in neural stress responses that interface with immune signaling and apoptotic control, rather than a single, cohesive pathway. However, the connections are not tightly cohesive and there are no recorded interactions in the cluster (edges 0), so the label should be viewed as a cautious, neural-stress-immune cluster. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001240","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0009636","count":2},{"id":"GO:0070301","count":2},{"id":"GO:0008344","count":2}]},{"hash":"404780140509117232","title":"DNA Repair and Genome Maintenance","description":"The cluster is dominated by DNA repair and replication terms (DNA repair, DNA replication, base-excision repair, translesion synthesis, telomere maintenance), pointing to a cohesive role in preserving genome integrity. Peripheral terms related to xenobiotic and estradiol responses likely reflect general stress signaling rather than core function. ","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006281","count":2},{"id":"GO:0006260","count":2},{"id":"GO:0070987","count":1},{"id":"GO:0006284","count":1},{"id":"GO:0042493","count":1}]},{"hash":"825364519696136858","title":"Cell Wall and Glycan Biosynthesis","description":"This cluster is dominated by GO terms related to the biosynthesis and organization of cell wall polysaccharides and glycans (glycan biosynthetic process, UDP-glucose metabolism, fungal-type cell wall biogenesis, cell wall organization, O antigen and lipid A biosynthesis). Despite a few peripheral metabolic terms, the overarching pattern points to cell wall/glycan production and assembly.","confidence":"High","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0005978","count":3},{"id":"GO:0006011","count":2},{"id":"GO:0019877","count":2},{"id":"GO:0000032","count":2},{"id":"GO:0009243","count":2}]},{"hash":"55993154403618598","title":"Neuronal development and axon guidance","description":"The top GO terms cluster around neural development, with several terms for radial glia-guided migration, axonal fasciculation, and regulation of axon extension, as well as branching morphogenesis of a nerve. Some terms point to broader cellular processes (EMT-related, ER and peroxisome organization, DNA replication, steroid biosynthesis), which may reflect multifunctional proteins or context-specific roles, but the dominant signal is neural development and axon guidance.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0006694","count":1},{"id":"GO:0021801","count":1},{"id":"GO:2000172","count":1},{"id":"GO:0007413","count":1}]},{"hash":"2148686181651011977","title":"Transcription Control and Cell Cycle Signaling","description":"The cluster centers on DNA-templated transcription and regulation of transcription, with several cell-cycle\u2013related terms (G1/S transition, spindle pole separation, meiosis), plus signaling pathways (Wnt, insulin receptor) and proliferation\u2014titting together as transcriptional control coordinating cell-cycle progression and developmental signals.","confidence":"Medium","size":8,"edges":1,"triangles":0,"max_degree":1,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":5},{"id":"GO:0019086","count":3},{"id":"GO:0010673","count":3},{"id":"GO:0060070","count":3},{"id":"GO:0045737","count":3}]},{"hash":"2027347976929946149","title":"Unknown","description":"The top GO terms span very different processes: actin filament depolymerization (cytoskeleton), cilium assembly (cilia), translation reinitiation and translation preinitiation complex formation (protein synthesis), cellular response to hypoxia, gastrulation (development), histone H4-K8 acetylation and H3-K27 methylation (epigenetic regulation), and mitotic sister chromatid segregation (mitosis). These represent disparate cellular functions rather than a single coherent pathway or molecular function, and several terms are labeled obsolete. Therefore there is no clear, shared theme linking the proteins in this cluster.","confidence":"","size":8,"edges":3,"triangles":0,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0030042","count":4},{"id":"GO:0060271","count":4},{"id":"GO:0002188","count":4},{"id":"GO:0001731","count":4},{"id":"GO:0071456","count":4}]},{"hash":"8814854877441037","title":"Neuronal GPCR signaling and vascular regulation","description":"Top GO terms point to G protein-coupled receptor signaling (serotonin signaling, GPCR desensitization), dopamine uptake, and vascular functions (blood pressure regulation, smooth muscle contraction, chloride transport), with retina development supporting neural/sensory context. The xenobiotic response term is less central but may reflect broader stress signaling. Overall, the cluster centers on GPCR-mediated signaling in neural and vascular systems.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0042493","count":6},{"id":"GO:0060041","count":6},{"id":"GO:0090026","count":5},{"id":"GO:0002032","count":5},{"id":"GO:0007208","count":5}]},{"hash":"613512500622110560","title":"Wnt-regulated cardiac development and calcium signaling","description":"This cluster centers on canonical Wnt signaling (and its regulation) with heart development, plus muscle differentiation terms and calcium-related signaling, suggesting a set of proteins involved in Wnt-driven cardiac muscle development and associated calcium signaling cross-talk. The combination of these GO terms points to a coherent cardiac/Wnt signaling theme rather than unrelated processes.","confidence":"High","size":8,"edges":7,"triangles":0,"max_degree":7,"top_function":null,"top_go_terms":[{"id":"GO:2001015","count":2},{"id":"GO:0006470","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0051343","count":1},{"id":"GO:0045944","count":1}]},{"hash":"1690408594281086762","title":"Unknown","description":"The top GO terms span diverse processes (learning, growth regulation, calcium signaling, immune response, coagulation, lipid metabolism, development) with no clear common function tying the eight proteins together, so a cohesive, specific label isn\u2019t supported.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008542","count":4},{"id":"GO:0040015","count":4},{"id":"GO:0051281","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0007596","count":3}]},{"hash":"1087544942761123336","title":"TNF-NF-kB inflammatory signaling cluster","description":"The top GO terms point to TNF-mediated signaling, NF-kappaB activation (including I-kappaB phosphorylation), JNK activity, and interferon-beta regulation, with an additional term for MHC class II antigen presentation. This pattern suggests a cohesive group of proteins involved in inflammatory signaling and adaptive immune responses, despite one outlier term that may reflect annotation noise. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001843","count":4},{"id":"GO:0033209","count":4},{"id":"GO:0051865","count":4},{"id":"GO:1903721","count":4},{"id":"GO:0090073","count":4}]},{"hash":"2294228749894336502","title":"Diverse Tissue Development","description":"The top GO terms span skin cornified envelope assembly, synapse and Purkinje neuron development, nephron morphogenesis, melanogenesis, hair cycle regulation, endothelial remodeling, intermicrovillar adhesion, and PSD-95 clustering, which collectively point to tissue-specific differentiation and morphogenesis across multiple systems rather than a single shared pathway. The absence of edges supports a loosely connected set of development-associated functions across tissues. ","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903575","count":1},{"id":"GO:0007416","count":1},{"id":"GO:0072006","count":1},{"id":"GO:0072137","count":1},{"id":"GO:0048023","count":1}]},{"hash":"183893367554823199","title":"Rho GTPase\u2013driven cytoskeletal remodeling","description":"The cluster shows strong enrichment for Rho signaling and cytoskeletal processes (regulation/activation of Rho GTPases, positive regulation of GTPase activity, filopodium assembly and its regulation, integrin activation, and microtubule-based movement), indicating coordinated actin/microtubule dynamics and adhesion. Some development-related terms (spinal cord development) may reflect tissue-specific roles, but the core signal is cytoskeletal remodeling driven by Rho GTPase pathways.","confidence":"Medium","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":"microtubule-based movement","top_go_terms":[{"id":"GO:0035023","count":5},{"id":"GO:0043547","count":3},{"id":"GO:0033622","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0007018","count":3}]},{"hash":"790261752311361901","title":"Unknown","description":"The top GO terms span diverse and unconnected processes (nodulation, antibiotic and flavonol biosynthesis, tRNA methylation, various stress and response terms), with no clear common function linking the proteins. Given zero edges and no cohesive theme, a specific functional label cannot be confidently assigned.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009877","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0051555","count":1},{"id":"GO:0035573","count":1},{"id":"GO:0042220","count":1}]},{"hash":"799288629954756696","title":"Unknown","description":"Top terms cover both proteostasis (proteasome assembly, ubiquitin-dependent protein catabolic process) and diverse plant-specific processes (stamen formation, chlorophyll biosynthetic process), plus assorted functions (actin dynamics, RNA processing, cholesterol response). The lack of a single cohesive function across these terms makes it unsupported to assign a focused label; thus the cluster is Unknown.","confidence":"","size":8,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043248","count":4},{"id":"GO:0048455","count":4},{"id":"GO:0006511","count":4},{"id":"GO:0015995","count":4},{"id":"GO:0046580","count":3}]},{"hash":"158058981677842488","title":"Membrane signaling and organization","description":"The terms point to membrane microdomain dynamics (membrane raft polarization, eisosome assembly) and signaling regulation (negative regulation of PKC signaling) that span multiple tissues, including neural development (myelination, substantia nigra development, synaptic plasticity) and even endothelial and immune signaling. The common thread appears to be membrane-associated signaling processes rather than a single cell type or pathway, making this a reasonable, though not perfectly cohesive, label.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042552","count":1},{"id":"GO:0001766","count":1},{"id":"GO:0090038","count":1},{"id":"GO:0021762","count":1},{"id":"GO:0061028","count":1}]},{"hash":"1066672723177563279","title":"Ubiquitin-Dependent ERAD and Vesicle Trafficking","description":"The proteins cluster around ubiquitin-mediated proteolysis and membrane trafficking, with GO terms for K11-linked ubiquitination, ubiquitin-dependent ERAD, and vesicle transport between ER, Golgi, endosomes, and vacuoles; another mitosis term likely represents a non-core annotation.","confidence":"Medium","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:1902600","count":2},{"id":"GO:0007091","count":1},{"id":"GO:0042787","count":1},{"id":"GO:0000492","count":1},{"id":"GO:0006901","count":1}]},{"hash":"1452999007089265109","title":"BMP-regulated mesodermal organogenesis","description":"The dominant terms point to BMP-regulated development of mesoderm-derived organs, including heart and kidney formation, cranial skeleton morphogenesis, and lateral mesoderm fate specification. Cell adhesion terms support tissue morphogenesis, and autophosphorylation indicates active signaling. A noisy outlier term about symbiont entry is present but does not override the core mesodermal/organogenesis theme. Overall, this cluster reflects BMP-driven mesodermal organ development.","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007156","count":3},{"id":"GO:0001822","count":3},{"id":"GO:0030513","count":3},{"id":"GO:0007507","count":3},{"id":"GO:0007157","count":3}]},{"hash":"1023082511791230539","title":"Mitochondrial ROS and Apoptosis Signaling","description":"The terms cluster around mitochondrial function (protein insertion into the inner membrane), reactive oxygen species metabolism, and apoptosis signaling (intrinsic/extrinsic pathways with regulatory notes). This points to a shared theme of mitochondrial stress responses that influence cell fate via ROS and apoptotic signaling, with some broader stress-response terms (retinoic acid, interferon-beta) that are less central. The name emphasizes the core connection among these GO terms.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045039","count":1},{"id":"GO:0043280","count":1},{"id":"GO:2001243","count":1},{"id":"GO:0072593","count":1},{"id":"GO:0071300","count":1}]},{"hash":"2046494114855927500","title":"Cardiac Electrical Signaling and Contraction","description":"The Top Terms strongly point to cardiac physiology: regulation of heart rate, sinoatrial node cell development, heart contraction, and regulation of membrane potential in excitable cells. While a couple terms touch neuronal or brain-related processes, the dominant pattern is cardiac electrophysiology and contractile machinery, with ancillary cell adhesion/muscle assembly terms. Therefore this cluster is best described as Cardiac Electrical Signaling and Contraction.","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0023041","count":1},{"id":"GO:0007420","count":1},{"id":"GO:0090136","count":1},{"id":"GO:0042391","count":1},{"id":"GO:0034446","count":1}]},{"hash":"355976986864805357","title":"Mitochondrial and Peroxisomal Fission with Deubiquitination","description":"This cluster is dominated by GO terms for organelle fission (mitochondria and peroxisomes) and protein deubiquitination, suggesting a theme of organelle dynamics coupled with ubiquitin-mediated protein regulation. A few translation initiation and ergosterol biosynthesis terms appear, but they are less central to the main pattern.","confidence":"Medium","size":7,"edges":17,"triangles":17,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0010950","count":3},{"id":"GO:0000266","count":3},{"id":"GO:0016579","count":2},{"id":"GO:0048140","count":2},{"id":"GO:0016559","count":2}]},{"hash":"1101173705441005274","title":"Notch-regulated segmentation and developmental patterning","description":"The top GO terms cluster around Notch signaling (both positive and negative regulation), segmentation/pattern specification, and imaginal disc-related development, suggesting a shared role in developmental patterning governed by Notch signaling. While there are some broader or vertebrate-specific terms reflected, the strongest cohesive theme is Notch-driven segmentation and patterning during development.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032092","count":2},{"id":"GO:0007143","count":2},{"id":"GO:0036011","count":2},{"id":"GO:1902367","count":2},{"id":"GO:0007386","count":2}]},{"hash":"982132694763104333","title":"Cytoskeleton organization and centrosome localization","description":"The top terms converge on cytoskeletal dynamics, including microtubule localization, actin cytoskeleton organization, and muscle filament assembly, plus centrosome localization. These suggest proteins functioning in cytoskeletal architecture and cell polarity, with some developmental processes that depend on similar remodeling. ","confidence":"Medium","size":7,"edges":6,"triangles":1,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:1990592","count":2},{"id":"GO:0033146","count":2},{"id":"GO:0014070","count":2},{"id":"GO:0035372","count":2},{"id":"GO:0030866","count":2}]},{"hash":"61317752387593071","title":"Wnt-regulated Development and Cell Cycle","description":"The cluster includes GO terms pointing to regulation of the cell cycle and several developmental processes tied to Wnt signaling: negative regulation of canonical Wnt, hair follicle placode formation, cranial ganglion development, and CNS vasculogenesis. The presence of Wnt-related regulatory terms alongside broad developmental cues suggests these proteins function as modulators of Wnt-driven development and cell proliferation during vertebrate morphogenesis.","confidence":"Medium","size":7,"edges":19,"triangles":25,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007050","count":4},{"id":"GO:0086019","count":3},{"id":"GO:0060789","count":3},{"id":"GO:0090090","count":3},{"id":"GO:0044334","count":3}]},{"hash":"1740016889759907608","title":"Neural and Embryonic Development","description":"The enriched GO terms point to vertebrate development and neural formation, especially forebrain development, neural tube closure, and multicellular organism development, suggesting these proteins function together in embryonic/neural development contexts. Some terms are broader or unrelated (e.g., cell cycle, apoptosis), but the neural development signals are the strongest theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":5},{"id":"GO:0001403","count":5},{"id":"GO:0006351","count":5},{"id":"GO:0050830","count":5},{"id":"GO:0001501","count":5}]},{"hash":"2062493033062728946","title":"Embryonic neural development","description":"The top GO terms point to early embryogenesis and neural formation, with forebrain development, neural tube closure, and gastrulation as prominent themes. Epigenetic regulation terms (histone acetylation/methylation) suggest chromatin-level control during development, supporting a neural-embryonic developmental focus, though a few general cell-cycle/RNA-processing terms may reflect broader background functions.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":3},{"id":"GO:0001843","count":3},{"id":"GO:0007369","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0006349","count":2}]},{"hash":"2263308571487143065","title":"Cardiac muscle contraction and development","description":"The top GO terms center on heart and muscle biology: ventricular cardiac muscle tissue morphogenesis, positive regulation of the force of heart contraction, and negative regulation of calcium-release channel activity, along with actomyosin contractile process and phosphatidylinositol-mediated signaling, all pointing to cardiac muscle function and its development. While a few terms like digestion or cell budding are more general or cross-annotated, the strongest signals define a cardiac muscle physiology theme, making this a coherent cluster name.  ","confidence":"High","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051343","count":4},{"id":"GO:0007114","count":4},{"id":"GO:0048015","count":4},{"id":"GO:1903479","count":4},{"id":"GO:0060315","count":4}]},{"hash":"2147929667933917076","title":"Zinc ion homeostasis and transport","description":"The terms cluster around zinc biology: zinc import across membranes, intracellular zinc ion homeostasis, detoxification and response to zinc ion conditions, and even cadmium transport. These together define a functional module for zinc handling and metal ion transport, with a minor spliceosome-related term as an outlier.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0010312","count":2},{"id":"GO:1903615","count":2},{"id":"GO:0034224","count":2},{"id":"GO:0006830","count":2},{"id":"GO:0006831","count":2}]},{"hash":"689884406387722809","title":"RNA processing and translation regulation","description":"The proteins are linked to post-transcriptional RNA processing: splicing via the spliceosome, polyadenylation, and mRNA export from the nucleus, along with regulation of translational initiation. The co-occurrence of spliceosome-associated terms and mRNA export with translational control suggests a unified role in RNA maturation and its link to translation, including viral translation mechanisms.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0045292","count":4},{"id":"GO:1900363","count":3},{"id":"GO:0031047","count":3},{"id":"GO:0006378","count":3},{"id":"GO:0006406","count":3}]},{"hash":"1289211447845364639","title":"Viral and host translation initiation and reinitiation","description":"The top GO terms cluster around translation initiation, formation of the preinitiation complex, and translation reinitiation, including IRES-dependent viral initiation and viral translation termination-reinitiation. While there are also RNA-processing terms (mRNA modification, polyadenylation-related), the strongest, recurring signals point to initiation and reinitiation of translation, particularly in viral contexts.","confidence":"Medium","size":7,"edges":8,"triangles":3,"max_degree":5,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0006378","count":7},{"id":"GO:0075525","count":6},{"id":"GO:1900363","count":6},{"id":"GO:0075522","count":6},{"id":"GO:0002188","count":6}]},{"hash":"1797208849948085652","title":"Neural development and ion signaling","description":"This cluster shows strong hints of nervous system development (multicellular organism development, globus pallidus development, and terms related to neural crest/Wnt signaling) together with intracellular signaling tied to ions and second messengers (calcium response, cAMP signaling, potassium ion transport, and guanylyl cyclase pathways). The mix suggests proteins involved in neural development that also participate in calcium and potassium signaling, with a more generalized signaling theme. Confidence is Medium.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":6},{"id":"GO:0019233","count":5},{"id":"GO:0021759","count":5},{"id":"GO:0071320","count":5},{"id":"GO:0086002","count":4}]},{"hash":"886239394985410599","title":"Hair follicle placode formation and epithelial signaling","description":"The dominant terms point to epithelial development, especially hair follicle placode formation and epithelial cell\u2013cell adhesion, with supporting signaling pathways (Rap signaling, JNK cascade) and endosomal trafficking (multivesicular body sorting) that modulate receptor signaling. Some axon guidance terms appear, but they likely reflect shared signaling modules rather than a primarily neural cluster. Overall, the cluster seems best described as hair follicle development and epithelial signaling.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0071260","count":7},{"id":"GO:0050771","count":7},{"id":"GO:0032889","count":7},{"id":"GO:0090136","count":6},{"id":"GO:0060789","count":6}]},{"hash":"347610590524793797","title":"Immune Defense and Tissue Remodeling","description":"The top GO terms cluster around immune defense (defense response to Gram-positive bacterium; neutrophil-mediated killing of fungus) and tissue remodeling processes (positive regulation of angiogenesis; elastin catabolic process; fibrinolysis). There are also metabolic and signaling notes (glucose stimulus; PI3K signaling), suggesting these proteins may participate in immune activation with coordinated extracellular matrix remodeling and vascular changes. The connection is present but not tightly cohesive, so a medium confidence label seems appropriate.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0014068","count":4},{"id":"GO:0071333","count":4},{"id":"GO:0045766","count":4},{"id":"GO:0050830","count":4},{"id":"GO:0006813","count":4}]},{"hash":"681830148235272171","title":"Unknown","description":"The top GO terms span pigment cell dynamics, host-symbiont interaction, immune costimulation, several metabolic catabolic processes, and behavior, with no clear shared pathway. The connectivity is minimal (one edge, no triangles), suggesting these proteins do not reflect a single coherent function. Therefore I cannot assign a meaningful functional label beyond Unknown.","confidence":"","size":7,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0097325","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0001662","count":2},{"id":"GO:0030245","count":2},{"id":"GO:0031295","count":2}]},{"hash":"2291136458663294938","title":"Filopodium dynamics and GTPase signaling in immune cells","description":"The cluster centers on actin-based protrusions and cytoskeletal remodeling (filopodium assembly, regulation of filopodium, substrate adhesion-dependent spreading) and small GTPase signaling (Rho, Ras), with supporting immune signaling context (T cell receptor signaling, NK T cell differentiation). This suggests a cohesive role in cytoskeletal dynamics linked to immune cell signaling, despite some metabolic signal terms appearing (insulin signaling). ","confidence":"High","size":7,"edges":8,"triangles":2,"max_degree":6,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1900026","count":6},{"id":"GO:0046847","count":6},{"id":"GO:0051489","count":6},{"id":"GO:0046580","count":5},{"id":"GO:0008286","count":5}]},{"hash":"968791996854796833","title":"Unknown","description":"The top GO terms cover a broad and unrelated set of processes (transcription regulation, DNA replication, mitotic spindle assembly, various development programs in animals and plants, immune responses, and chlorophyll biosynthesis) with no clear common pathway or function linking the seven proteins. This lack of a cohesive theme makes a specific functional label inappropriate, so the cluster is best named Unknown.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045944","count":2},{"id":"GO:0090307","count":2},{"id":"GO:0001824","count":2},{"id":"GO:0043388","count":2},{"id":"GO:0043588","count":2}]},{"hash":"1599441005671837514","title":"ECM Remodeling and Innate Immunity","description":"This cluster centers on extracellular matrix (collagen fibril organization and integrin signaling) alongside innate immune and inflammatory processes (innate immune response, cytokine production, foam cell differentiation). Additional terms for zymogen activation and tight junction assembly fit into barrier function and proteolytic remodeling during inflammation. Altogether, the proteins appear to coordinate ECM remodeling with innate immune/inflammatory signaling.","confidence":"High","size":7,"edges":7,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0030199","count":4},{"id":"GO:2001046","count":4},{"id":"GO:2000329","count":4},{"id":"GO:1900017","count":4},{"id":"GO:0002438","count":4}]},{"hash":"824286306758670879","title":"Chromatin Remodeling and Cell Cycle Regulation","description":"The top GO terms cluster around nuclear processes: DNA replication, G0 to G1 transition, regulation of the cell cycle, and chromatin remodeling (including transcription initiation-coupled remodeling). This points to proteins involved in controlling chromatin state and DNA replication as cells progress through the cycle. Other terms like deubiquitination, hypoxia, formaldehyde response, and retina development may be ancillary or context-specific annotations, but the main signal is chromatin dynamics tied to cell-cycle control.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0071301","count":2},{"id":"GO:0045023","count":2},{"id":"GO:0035523","count":2},{"id":"GO:0003407","count":2}]},{"hash":"543683371770064259","title":"Cardiac contraction and heart morphogenesis","description":"This cluster is dominated by terms tied to heart muscle biology: ventricular cardiac muscle tissue morphogenesis and positive regulation of the force of heart contraction point to cardiac development and function; calcium signaling via ryanodine receptor regulation supports excitation-contraction coupling; glucocorticoid response and skeletal muscle differentiation terms reflect broader muscle biology and hormonal regulation that can impact cardiac tissue. Overall, the strongest theme centers on cardiac muscle contraction and development.","confidence":"High","size":7,"edges":17,"triangles":19,"max_degree":6,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0051343","count":7},{"id":"GO:0045944","count":7},{"id":"GO:0007114","count":7},{"id":"GO:0048015","count":7},{"id":"GO:1903479","count":7}]},{"hash":"1798954825286107565","title":"O-antigen and sugar nucleotide biosynthesis","description":"The Top Terms center on sugar nucleotide\u2013driven biosynthesis (GDP-mannose, UDP-rhamnose, galactose) and O-antigen biosynthesis, suggesting a cluster focused on assembling polysaccharide components for cell surfaces. Lipid metabolism terms (long-chain fatty-acyl-CoA, ergosterol) imply membrane-associated biosynthesis, while a couple of terms (cartilage development, labyrinthine layer development) appear as outliers. Overall, the cohesive theme is carbohydrate biosynthesis and polysaccharide assembly.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":6},{"id":"GO:0051216","count":4},{"id":"GO:0009243","count":3},{"id":"GO:0019673","count":3},{"id":"GO:0097171","count":3}]},{"hash":"338567037066857131","title":"Neurodevelopment and Heart Morphogenesis","description":"Top terms collectively point to nervous system development (forebrain and hindbrain), neuromuscular balance, and heart morphogenesis (cardiac muscle development). A response to cAMP suggests regulatory signaling during these developmental processes. Some obsolete GO entries appear, but the dominant theme is developmental programs across neural and cardiac tissues, justifying this label.","confidence":"Medium","size":7,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0050885","count":6},{"id":"GO:0030900","count":6},{"id":"GO:0048738","count":5},{"id":"GO:0051591","count":5},{"id":"GO:0003007","count":5}]},{"hash":"2089053591939367551","title":"Ubiquitination and Proteasome Regulation","description":"Most GO terms cluster around protein ubiquitination and proteasomal regulation (protein ubiquitination; positive and negative regulation of proteasomal protein catabolic processes; sumoylation), suggesting a core theme of controlling protein turnover via ubiquitin- and SUMO-mediated pathways. Additional terms point to related signaling and developmental contexts, but the strongest common thread is proteostasis control through post-translational modifications.","confidence":"Medium","size":7,"edges":8,"triangles":5,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0045648","count":4},{"id":"GO:0032436","count":3},{"id":"GO:0046676","count":3},{"id":"GO:0021587","count":3},{"id":"GO:0016567","count":3}]},{"hash":"569159456030889477","title":"Unknown","description":"The top GO terms show a highly heterogeneous mix (RNA exonuclease, steroid biosynthesis, osteoblast differentiation regulation, nucleotide and protein processing, bacterial biosynthetic pathways, zinc transport, actin assembly, and xenobiotic metabolism). There isn\u2019t a single cohesive function or pathway linking these proteins, so a concise, representative label cannot be assigned.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0090503","count":2},{"id":"GO:0006694","count":2},{"id":"GO:0045668","count":2},{"id":"GO:0046050","count":1},{"id":"GO:0006470","count":1}]},{"hash":"1103918195467372029","title":"Plant Cell Wall Polysaccharide Biosynthesis","description":"The cluster\u2019s top GO terms converge on plant cell wall biology, including cell wall organization, plant-type secondary cell wall biogenesis, and glucuronoxylan/xylan biosynthesis, plus pollen exine formation, all pointing to biosynthesis and assembly of cell wall components. A subset of terms about proteoglycan biosynthesis (heparan/dermatan/chondroitin sulfate) is more typical of animals and may reflect cross-annotation noise, but the dominant signal is plant cell wall polysaccharide production and assembly.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0071555","count":3},{"id":"GO:0015012","count":2},{"id":"GO:0050650","count":2},{"id":"GO:0009834","count":2},{"id":"GO:0030204","count":2}]},{"hash":"1364652142910094624","title":"Ubiquitin/SUMO proteostasis and aggresome formation","description":"This cluster centers on protein quality control and degradation pathways, highlighted by sumoylation and ubiquitination activities, aggresome assembly, ERAD-related processes, and stress responses. The inclusion of mitochondrial fusion regulation further ties in organelle maintenance under proteotoxic stress, suggesting a cohesive role in maintaining cellular proteostasis and handling damaged proteins.","confidence":"High","size":7,"edges":19,"triangles":26,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":5},{"id":"GO:0051865","count":4},{"id":"GO:1905366","count":4},{"id":"GO:0097237","count":4},{"id":"GO:1903265","count":4}]},{"hash":"1372062337618159743","title":"Vertebrate organogenesis","description":"These GO terms predominantly involve development and differentiation of various vertebrate tissues and organs (inner ear, heart, eye/nerve, kidney, somites). The common thread is embryonic organogenesis and tissue specification rather than a single pathway. The ceramide biosynthetic term is a metabolic process that can influence signaling during development but is not central to a single organ; overall theme remains broad developmental program.","confidence":"Medium","size":7,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0048839","count":7},{"id":"GO:0042663","count":6},{"id":"GO:0003168","count":6},{"id":"GO:1900212","count":6},{"id":"GO:0046513","count":6}]},{"hash":"577667405147407833","title":"Actin Cytoskeleton Organization","description":"This cluster is driven by explicit actin-related terms: actin filament bundle assembly and negative regulation of actin filament depolymerization, which together point to the regulation and organization of the actin cytoskeleton. While there are additional development- and transcription-associated terms present, they do not overwhelm the core signal of actin dynamics, making Actin Cytoskeleton Organization a concise and representative label.","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0048317","count":3},{"id":"GO:2000691","count":3},{"id":"GO:0051017","count":3},{"id":"GO:0030579","count":3}]},{"hash":"213284152652362954","title":"Mesoderm and heart development","description":"The top GO terms are dominated by heart morphogenesis and mesoderm development, with related terms like smooth muscle differentiation and membrane potential regulation, suggesting a cohesive role in mesoderm-derived tissue formation and function. Some terms (vitellogenesis, T cell signaling, androgen receptor regulation) appear more regulatory or context-specific, but the core signal points to mesoderm/heart developmental processes. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003007","count":2},{"id":"GO:0007296","count":2},{"id":"GO:0050860","count":2},{"id":"GO:0007498","count":2},{"id":"GO:1990683","count":1}]},{"hash":"1426524230902343313","title":"Embryogenesis and organ morphogenesis","description":"The top GO terms point to diverse embryonic development and tissue formation processes, including placental (trophoblast differentiation, placenta development), heart-related EMT and endocardial cushion formation, left-right patterning, cartilage morphogenesis, and endocrine system development. Although a few RNA processing terms appear, the dominant signal is developmental morphogenesis across multiple organ systems, suggesting a cluster centered on embryogenesis and organ formation.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060707","count":6},{"id":"GO:0060806","count":6},{"id":"GO:0060536","count":6},{"id":"GO:0035270","count":6},{"id":"GO:0060972","count":6}]},{"hash":"1559661909787611908","title":"NMDA receptor clustering and synaptic plasticity","description":"The majority of top GO terms point to synaptic organization and plasticity, especially NMDA receptor clustering and GKAP-mediated scaffolding, as well as receptor localization to the synapse that drives long-term changes in synaptic strength. While a few terms touch broader neuronal signaling and sensory processes, the dominant theme is postsynaptic receptor clustering and plasticity at excitatory synapses.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900383","count":3},{"id":"GO:1901187","count":3},{"id":"GO:0007205","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0007347","count":2}]},{"hash":"1440921284229729250","title":"Developmental gene regulation","description":"This cluster centers on embryonic and tissue-specific development processes (roof of mouth development, placental and trophoblast differentiation, cartilage morphogenesis, endocrine system development), complemented by regulatory functions in gene expression (negative regulation of RNA Pol II transcription, spliceosome-mediated mRNA processing, and related regulatory constraints). The common thread appears to be proteins that modulate when and how genes are expressed during development, rather than a single pathway or tissue type, justifying the label Developmental gene regulation.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":4,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0000122","count":5},{"id":"GO:0000055","count":5},{"id":"GO:1903026","count":5},{"id":"GO:0060707","count":5}]},{"hash":"1294356804833946562","title":"Embryonic Organogenesis and Patterning","description":"The proteins are enriched for diverse embryonic development terms, including palatal/roof-of-mouth development, placenta and endocrine system formation, cartilage morphogenesis, and left-right patterning, alongside transcriptional regulation (RNA polymerase II). This points to a common theme of embryonic organogenesis and tissue differentiation under transcriptional control.","confidence":"High","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0000122","count":7},{"id":"GO:0060021","count":6},{"id":"GO:0060707","count":5},{"id":"GO:0060806","count":5},{"id":"GO:0003198","count":5}]},{"hash":"1161090850949897677","title":"Unknown","description":"The cluster\u2019s top GO terms are highly diverse, spanning mouth development, transcriptional regulation, telomere maintenance, SNARE assembly regulation, dendritic cell differentiation, cytokine regulation, chromatid cohesion, chloroplast protein import, synaptic plasticity, and Notch signaling in heart development. This broad mix shows no single shared function or pathway tying the proteins together, so a specific, representative label can\u2019t be assigned.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":4},{"id":"GO:0000122","count":3},{"id":"GO:1904355","count":3},{"id":"GO:0035544","count":3},{"id":"GO:0002268","count":3}]},{"hash":"1105479061096407620","title":"Developmental Morphogenesis and Growth Regulation","description":"The top GO terms cluster around developmental patterning and tissue morphogenesis: negative regulation of cell proliferation and organ growth, organ morphogenesis, left/right axis specification, and imaginal disc-derived wing patterning, along with apical protein localization (cell polarity). While some terms (e.g., myelin maintenance, B cell differentiation) are less directly tied to development, the shared theme is growth control and morphogenetic patterning during development. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0008285","count":4},{"id":"GO:0045176","count":4},{"id":"GO:0002315","count":4},{"id":"GO:0046621","count":4},{"id":"GO:0070986","count":3}]},{"hash":"988571230756513511","title":"Unknown","description":"The GO terms are highly diverse and not clearly connected: mitochondrial apoptosis cues (cytochrome c release, hydrogen peroxide\u2013mediated death) appear alongside TGF-beta response, spermatogenesis, neuronal signaling, and mitotic cell cycle terms, each tied to different proteins, giving no single coherent function for the cluster.","confidence":"","size":7,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071560","count":1},{"id":"GO:1903645","count":1},{"id":"GO:1903638","count":1},{"id":"GO:0010421","count":1},{"id":"GO:0090200","count":1}]},{"hash":"114086818990351013","title":"Cytokinesis, Polarity, and Trafficking","description":"This cluster centers on processes governing cell shape and membrane trafficking: mitotic cleavage furrow ingression, establishment of epithelial cell polarity, and endosome-to-lysosome transport, with supporting signals for actin-driven podosome assembly. The-term group points to coordinated cell division and membrane remodeling rather than a single enzyme, though some terms like floral organ abscission and spermatid differentiation appear species- or context-specific annotations. Overall, the dominant theme is cell morphogenesis and trafficking.","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0007289","count":3},{"id":"GO:0010227","count":2},{"id":"GO:1902824","count":2},{"id":"GO:1902647","count":2},{"id":"GO:0071803","count":2}]},{"hash":"2012202454256236081","title":"Mitotic proliferation and cell polarity signaling","description":"The top GO terms point to cell division and proliferation (mitotic cell cycle, mitotic spindle assembly, cell population proliferation) and to the regulation of cell shape/polarity, suggesting a theme of growth with maintenance of cell architecture. Additional terms like ERK signaling, endocytosis, and mechanosensing hint at accompanying regulatory networks that coordinate proliferation with cellular mechanics and remodeling. Taken together, the cluster seems to reflect mitotic growth processes intertwined with polarity and mechanotransduction, hence this label. ","confidence":"Medium","size":7,"edges":6,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070374","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0043524","count":2},{"id":"GO:0071963","count":2},{"id":"GO:0006897","count":2}]},{"hash":"913119155082704061","title":"Blood coagulation and tissue remodeling","description":"This cluster centers on coagulation-related terms (blood coagulation, plasminogen activation, positive regulation of coagulation) and tissue remodeling, with supportive signals from immune/inflammatory pathways (complement activation, LPS response) and BMP signaling, suggesting a cohesive role in hemostasis and extracellular matrix remodeling during inflammatory states.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":4},{"id":"GO:0048771","count":3},{"id":"GO:0010899","count":3},{"id":"GO:0032496","count":3},{"id":"GO:0031639","count":3}]},{"hash":"1051108575842826928","title":"Synapse Assembly and Neuronal Connectivity","description":"The top GO terms are dominated by neural-synaptic processes such as synapse assembly, serotonergic neuron axon guidance, and regulation of PSD-95 clustering, indicating a core theme around neuronal connectivity and synapse organization, despite a few pleiotropic terms present in the set.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007416","count":4},{"id":"GO:0072006","count":4},{"id":"GO:0072137","count":4},{"id":"GO:0048023","count":4},{"id":"GO:0060901","count":4}]},{"hash":"1644838581360072560","title":"Ribosome Translation Machinery","description":"This cluster is dominated by GO terms related to translation processes: initiation, elongation, termination, and ribosome disassembly, including both cytoplasmic and mitochondrial translation, indicating a group of proteins involved in core protein synthesis and ribosome dynamics. A peripheral term about viral genome replication is present but does not define the main theme. ","confidence":"High","size":7,"edges":21,"triangles":35,"max_degree":6,"top_function":null,"top_go_terms":[{"id":"GO:0032790","count":7},{"id":"GO:0001172","count":7},{"id":"GO:0006415","count":7},{"id":"GO:0006413","count":7},{"id":"GO:0019079","count":7}]},{"hash":"418696751186697156","title":"Actin Cytoskeleton Remodeling and Vesicle Trafficking","description":"Many terms point to actin dynamics (barbed-end capping, crosslink formation, ruffle assembly) and vesicular movement (transcytosis). Developmental signals like retinoic acid response and adipose tissue development appear but the strongest shared theme is actin-driven cytoskeletal remodeling coupled with membrane trafficking, which underpins both ruffle formation and transcytosis. This supports a label focused on cytoskeleton dynamics and vesicle transport.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:1904179","count":4},{"id":"GO:0045056","count":4},{"id":"GO:0051016","count":4},{"id":"GO:0097117","count":4},{"id":"GO:1900029","count":4}]},{"hash":"1402764346815673731","title":"Developmental differentiation and proteostasis regulation","description":"Top GO terms indicate developmental differentiation (neuron, stem cell, embryonic development) together with proteasome assembly and ubiquitin-dependent protein catabolic processes, and translational regulation (translation reinitiation, IRES-dependent initiation). This points to a theme of developmental progression tightly coupled with protein turnover and control of translation. Some terms about androgen receptor signaling and germ-line encapsulation may reflect context-specific developmental roles, but the core motif is development with proteostasis and translational control.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030182","count":3},{"id":"GO:0048863","count":3},{"id":"GO:0060766","count":2},{"id":"GO:0048140","count":2},{"id":"GO:0075525","count":2}]},{"hash":"769271053017032369","title":"Neural synapse formation and signaling","description":"This cluster centers on neural development and synaptic organization, including forebrain development, synapse assembly, glutamatergic transmission regulation, neuroligin clustering, and sensory-related stereocilium organization, with supporting hints from vocal learning and exosomal secretion as neuronal communication. A few non-neuronal terms appear but do not override the main neural-focused theme.","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030900","count":2},{"id":"GO:0007416","count":1},{"id":"GO:0055113","count":1},{"id":"GO:1903543","count":1},{"id":"GO:0042297","count":1}]},{"hash":"2204295288688587434","title":"Unknown","description":"The GO terms are diverse (proteolysis and protein maturation; collagen catabolic process; chromatin organization; rRNA processing/methylation; transcription regulation; glomerular filtration), with no clear single theme linking the proteins. The lack of a cohesive function and zero edges suggest this cluster does not represent a unified biological process.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035551","count":2},{"id":"GO:0030574","count":2},{"id":"GO:0034396","count":2},{"id":"GO:0006508","count":2},{"id":"GO:0050821","count":2}]},{"hash":"191294872378780507","title":"T cell mitochondrial lipid metabolism","description":"This cluster is dominated by lipid biosynthesis and remodeling processes (cardiolipin, triglyceride, phosphatidylcholine, ether lipids) and mitochondrial energy production (ATP synthesis), alongside T cell\u2013related signals (IL-2 production, regulation of activation-induced cell death). The overarching theme appears to be how mitochondrial lipid metabolism supports T cell activation and signaling, with a few lipid mediator terms that extend into inflammation. ","confidence":"Medium","size":7,"edges":14,"triangles":11,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":4},{"id":"GO:0042775","count":4},{"id":"GO:0035965","count":4},{"id":"GO:0019432","count":4},{"id":"GO:0008611","count":4}]},{"hash":"22959384362141467","title":"Unknown","description":"Unknown","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0060348","count":2},{"id":"GO:0060041","count":2},{"id":"GO:0090163","count":1},{"id":"GO:0031581","count":1},{"id":"GO:0035072","count":1}]},{"hash":"1340735281803071558","title":"Chromatin remodeling and histone modification","description":"This cluster\u2019s terms strongly emphasize chromatin state and epigenetic control: chromatin remodeling (GO:0043044), chromatin organization-related terms, histone H3-K36 dimethylation, and histone exchange, all pointing to regulation of transcription via chromatin structure. Although several GO terms are obsolete or tangential (e.g., development terms), the central theme is epigenetic regulation and chromatin dynamics that influence transcription. ","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035948","count":3},{"id":"GO:0022037","count":2},{"id":"GO:0006990","count":2},{"id":"GO:0097676","count":2},{"id":"GO:0044109","count":2}]},{"hash":"1962377539007814804","title":"Translation initiation and preinitiation complex assembly","description":"The top terms are dominated by translation-related processes: translation, formation of translation preinitiation complex, translation reinitiation, and IRES-dependent viral translation initiation, suggesting the cluster centers on ribosome recruitment and initiation. Splicing and polyadenylation terms appear as minor, ancillary associations. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006378","count":2},{"id":"GO:0045292","count":2},{"id":"GO:0071897","count":2},{"id":"GO:0006412","count":2},{"id":"GO:0075525","count":1}]},{"hash":"1456517555013010066","title":"Gene Expression Regulation and RNA Processing","description":"The terms point to control of gene expression, including regulation of transcription (GO:0006355) and post-transcriptional processes like RNA splicing and mRNA processing (GO:0008380, GO:0006397). While there are a couple of notes on signaling and other cellular processes (e.g., retrograde transport), the predominant theme is transcriptional and RNA processing regulation, with some muscle-related proliferation signals that are less central. Overall, the cluster seems best described by gene expression regulation and RNA processing.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006890","count":2},{"id":"GO:0031954","count":2},{"id":"GO:0006355","count":1},{"id":"GO:0014842","count":1},{"id":"GO:0031062","count":1}]},{"hash":"542515955055784511","title":"RNA Splicing and mRNA Decay Regulation","description":"The cluster is dominated by spliceosome-related terms (spliceosome conformational change, splice site recognition) and mRNA processing, decay, and storage processes (deadenylation-decay, processing bodies, stress granule assembly, miRNA silencing regulation). This points to a cohesive theme of post-transcriptional RNA metabolism, including splicing, mRNA turnover, and cytoplasmic RNA granules, with some peripheral links to synaptic plasticity and muscle development contexts. Confidence: High","confidence":"","size":7,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0000388","count":2},{"id":"GO:0010226","count":2},{"id":"GO:0045843","count":2},{"id":"GO:0006376","count":2},{"id":"GO:0034063","count":1}]},{"hash":"421755674474441614","title":"Ion Transport and Homeostasis","description":"Based on the top GO terms, the cluster is dominated by ion transport and homeostasis, especially potassium and calcium ions, including import/export and intracellular balance, with an additional cadmium transport term. While there are a few immune-related terms and odor detection terms present, they are not central to the cluster's overall theme. Therefore, the label emphasizes the primary shared function: ion transport and homeostasis.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050911","count":2},{"id":"GO:1990573","count":2},{"id":"GO:0030007","count":2},{"id":"GO:0097623","count":2},{"id":"GO:0006874","count":2}]},{"hash":"1918651862432258863","title":"Vascular development and signaling","description":"Proteins in this cluster are linked to signaling pathways that regulate vascular biology and organ morphogenesis, as evidenced by top GO terms on GPCR-mediated adenylate cyclase activation, angiogenesis regulation, VEGF signaling, and blood pressure. While other terms (synapse assembly, nipple and kidney development, bone remodeling) point to broader developmental roles, the strongest shared function appears to be signaling processes governing vascular development and related morphogenesis.","confidence":"Medium","size":7,"edges":5,"triangles":0,"max_degree":4,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0022900","count":4},{"id":"GO:0010579","count":4},{"id":"GO:0045777","count":4},{"id":"GO:1900747","count":3},{"id":"GO:0016525","count":3}]},{"hash":"133518760541178618","title":"Cilium assembly and intraciliary transport","description":"The top GO terms include explicit ciliary biology, namely intraciliary retrograde transport and cilium assembly, suggesting a ciliogenesis-related cluster. The other terms (metabolic and regulatory processes) are relatively peripheral, indicating a primary theme around ciliary function with some annotation noise. Confidence: Medium","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006550","count":1},{"id":"GO:1902860","count":1},{"id":"GO:0035721","count":1},{"id":"GO:0060271","count":1},{"id":"GO:0071442","count":1}]},{"hash":"698522178838517128","title":"Inflammatory signaling and chemokine production","description":"This cluster shows a strong representation of inflammatory response, chemokine production (notably CXCL2), and LPS-mediated signaling, along with cytokine regulation and cell surface receptor signaling. Together these indicate coordinated innate immune activation and chemotaxis, despite one obsolete term present. ","confidence":"High","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010629","count":2},{"id":"GO:0007569","count":2},{"id":"GO:2000343","count":2},{"id":"GO:0050918","count":2},{"id":"GO:0031666","count":2}]},{"hash":"1497386988647980878","title":"Neuronal synaptic plasticity signaling and spine morphogenesis","description":"The top GO terms cluster around neuronal signaling and synaptic structure, including neurotrophin TRK receptor signaling, JUN phosphorylation, NMDA receptor clustering, dendritic spine morphogenesis, and long-term synaptic plasticity/depression. These collectively point to regulation of synaptic strength and spine remodeling, with a couple of outlier terms (social behavior and T cell proliferation) that appear peripheral noise. ","confidence":"Medium","size":7,"edges":4,"triangles":0,"max_degree":4,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0048011","count":4},{"id":"GO:0007258","count":4},{"id":"GO:0048170","count":4},{"id":"GO:0097117","count":4},{"id":"GO:0097114","count":4}]},{"hash":"1236796426299479343","title":"ER Proteostasis and Transcription Regulation","description":"Based on the terms, several proteins are tied to ER-associated proteostasis (protein folding in ER, protein repair, prolyl hydroxylation in the secretory pathway) and oxidative detoxification, while others point to transcriptional regulation (DNA-templated transcription, regulation of DNA binding). This suggests a cluster that bridges protein quality control in the ER with nuclear transcription regulation. Confidence: Medium.","confidence":"","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903206","count":1},{"id":"GO:1903026","count":1},{"id":"GO:0046826","count":1},{"id":"GO:0098869","count":1},{"id":"GO:0034975","count":1}]},{"hash":"1662554515463976391","title":"Diverse membrane solute transporters","description":"The top GO terms are dominated by transmembrane transport of varied solutes (chloride, sulfate, fructose, oxalate) and related processes like membrane potential regulation and intracellular pH, with additional transport- and secretion-related terms such as gastric acid secretion. This points to a cluster of proteins functioning primarily as membrane transporters that handle ions and small molecules, rather than a single specific pathway; some terms like sound perception or sperm capacitation may reflect broader or context-dependent roles but do not override the transport theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902476","count":3},{"id":"GO:0007605","count":3},{"id":"GO:0006355","count":2},{"id":"GO:0051454","count":2},{"id":"GO:0001696","count":2}]},{"hash":"538372024974167517","title":"Photoreceptor trafficking and maintenance","description":"This cluster centers on visual perception and photoreceptor cell upkeep, with supporting endosomal trafficking pathways (retrograde transport from endosome to Golgi and clathrin-dependent endocytosis). The presence of terms for visual perception and photoreceptor maintenance suggests a photoreceptor-specific function, while endocytosis/trafficking indicates receptor turnover and cargo routing essential for photoreceptor health. Some ancillary terms (ubiquitination regulation, transcription by RNA Pol II) may reflect broader regulatory roles but do not override the dominant photoreceptor/trafficking theme.","confidence":"Medium","size":7,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042147","count":3},{"id":"GO:0031397","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0045494","count":2},{"id":"GO:0045944","count":2}]},{"hash":"148725871611174582","title":"Oxidative stress response and redox homeostasis","description":"The cluster is dominated by GO terms related to oxidative stress response, redox homeostasis, detoxification, and deglutathionylation, suggesting a core redox-regulated function; a few terms about endothelial/heart development may reflect redox signaling in vascular formation rather than a separate function. ","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043535","count":6},{"id":"GO:0071473","count":6},{"id":"GO:0030416","count":6},{"id":"GO:1903026","count":6},{"id":"GO:2000651","count":6}]},{"hash":"697536334827817698","title":"Multi-substrate transporter cluster","description":"The GO terms show transmembrane transport of a variety of substrates (phosphate, vitamins, nitrate/nitrite, sodium, sialic acid, fucose, 4-hydroxyphenylacetate) and a function related to loading neurotransmitters into synaptic vesicles, indicating a group of membrane transport proteins with broad substrate specificity.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0035461","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0015707","count":3}]},{"hash":"1145235072828596499","title":"Dopaminergic synaptic plasticity and signaling","description":"The top terms center on dopamine biosynthesis, response to cocaine, and long-term synaptic potentiation/plasticity, along with positive regulation of receptor recycling, which together point to dopaminergic neurotransmission and activity-dependent synaptic modulation. Inositol phosphate signaling supports the synaptic signaling theme, despite a few obsolete terms present.","confidence":"High","size":6,"edges":7,"triangles":2,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0001921","count":3},{"id":"GO:0043154","count":2},{"id":"GO:1903284","count":2},{"id":"GO:0042416","count":2}]},{"hash":"950662572385934894","title":"Genome integrity maintenance","description":"This cluster\u2019s terms cluster around cell cycle control (G1/S and G2/M transitions, regulation of CDK activity) and genome maintenance (telomere maintenance, homologous recombination repair of double-strand breaks, radiation response). The dominant theme ties to preserving genome integrity during division, despite some outliers like brain development or proviral latency terms. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007420","count":2},{"id":"GO:0008315","count":1},{"id":"GO:0000082","count":1},{"id":"GO:0045737","count":1},{"id":"GO:0007140","count":1}]},{"hash":"1594343169741025528","title":"Wnt signaling regulators","description":"The top terms show strong representation of both positive and negative regulation of canonical Wnt signaling, indicating these proteins collectively modulate Wnt pathway activity. While other GO terms point to broader signaling processes, the Wnt regulation signal appears to be the core theme of the cluster.","confidence":"High","size":6,"edges":9,"triangles":5,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090090","count":5},{"id":"GO:0090263","count":5},{"id":"GO:0051436","count":5},{"id":"GO:0050852","count":5},{"id":"GO:0020021","count":3}]},{"hash":"2292436024696442565","title":"Fc receptor signaling and phagocytosis","description":"The cluster shows strong enrichment for immune-related GO terms such as Fc-gamma receptor signaling, basophil activation, complement activation, phagocytosis recognition, and response to fungal origin, indicating antibody-mediated signaling and innate immune activation as the main theme. A few developmental terms (cartilage condensation, metanephric development) appear less connected and may reflect broader protein roles.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0001502","count":4},{"id":"GO:0071226","count":4},{"id":"GO:0006910","count":3},{"id":"GO:0038094","count":3},{"id":"GO:0060355","count":3}]},{"hash":"107554344394329676","title":"Unknown","description":"The GO terms associated with these proteins cover very diverse processes: symbiont-mediated transformation of host cells; regulation of pancreatic juice secretion; cellular response to VEGF stimulus; regulation of JNK cascade; transcytosis; regulation of neuron maturation and axon extension; epithelial cell proliferation and tissue morphogenesis; and PI3K-Akt signaling. There is no single cohesive function or pathway that ties these terms together for the cluster, so it's not possible to assign a specific, concise functional label beyond Unknown. The lack of consistent edges and a clear shared theme suggests the proteins may participate in multiple, distinct roles rather than a unified function.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":4},{"id":"GO:0090188","count":4},{"id":"GO:0035924","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0045056","count":4}]},{"hash":"1746027817766232863","title":"Organ Development and Signaling","description":"The top GO terms point to organogenesis-related processes (thymus and placenta development) and supporting signaling pathways (JNK cascade, VEGF response), suggesting a cluster centered on organ development guided by cellular signaling. Some terms are peripheral (cadmium response, neuron maturation regulation, transcytosis, symbiont-host transformation), but the dominant theme is development coupled with signaling. Confidence in this label is medium due to the mix of non-development terms. ","confidence":"Medium","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0048538","count":6},{"id":"GO:0000187","count":6},{"id":"GO:0001890","count":6},{"id":"GO:0071276","count":6},{"id":"GO:0020021","count":5}]},{"hash":"1883267415427135805","title":"Neuronal signaling and development","description":"The most represented terms center on synaptic function (negative regulation of synaptic vesicle exocytosis; evoked neurotransmitter secretion) and dopamine responsiveness, with canonical Wnt signaling linking development. Additional terms about epithelial adhesion and hair follicle placode formation suggest broader developmental roles for these proteins, implying a cluster of proteins involved in neural signaling within developmental signaling networks. ","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000186","count":6},{"id":"GO:2000301","count":5},{"id":"GO:0055091","count":5},{"id":"GO:0090136","count":5},{"id":"GO:0032707","count":5}]},{"hash":"613963405441055189","title":"Unknown","description":"Top GO terms span diverse, seemingly unrelated biological contexts (iron-regulated translation initiation, mammary gland alveolus development, type 2 immune response, phototropism, circadian rhythm, hair follicle morphogenesis, etc.), with no apparent common pathway or function linking the proteins (no edges, no triangles). This lack of a cohesive theme makes it inappropriate to assign a specific functional label beyond Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045994","count":2},{"id":"GO:0060749","count":2},{"id":"GO:0042092","count":2},{"id":"GO:0009638","count":2},{"id":"GO:0042748","count":2}]},{"hash":"1222234939734262338","title":"Growth factor signaling and angiogenesis","description":"The cluster shows enrichment in signaling and growth-related processes, including PDGF receptor signaling, TOR and Wnt pathway regulation, GTPase activity regulation, and endothelial cell migration/proliferation, suggesting proteins involved in growth factor\u2013driven signaling and vascular development. Some terms are broad or obsolete, so the link is a general signaling/angiogenesis theme rather than a single pathway. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071230","count":1},{"id":"GO:0000186","count":1},{"id":"GO:0043547","count":1},{"id":"GO:0032008","count":1},{"id":"GO:0014066","count":1}]},{"hash":"2004833255709545759","title":"Ubiquitin-Dependent Proteolysis","description":"Based on the prominent GO terms, the cluster centers on ubiquitin-mediated protein modification and degradation (ubiquitin-dependent protein catabolic process, protein ubiquitination, ERAD). While additional terms touch on innate immunity and DNA damage signaling, these likely reflect broader roles of ubiquitination in signaling rather than a single pathway. Thus the proteins are best characterized as involved in ubiquitin-dependent proteolysis and proteostasis.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0035372","count":3},{"id":"GO:0045087","count":3}]},{"hash":"1542205304553193467","title":"Mitotic cell cycle and stress-induced apoptosis","description":"This cluster centers on mitotic processes (mitotic G1 DNA damage checkpoint signaling, mitotic cell cycle, G2/M transition, DNA replication) and stress- and apoptosis-related signaling (JNK cascade, apoptotic process, ER stress\u2013induced apoptotic signaling). The combination suggests a theme of cell cycle regulation linked to stress responses that can lead to apoptosis, justifying a label that encompasses both aspects.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031571","count":3},{"id":"GO:0051965","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0051092","count":2},{"id":"GO:0050852","count":2}]},{"hash":"2098277217667384022","title":"Ubiquitination, Sumoylation & Neddylation Signaling","description":"The top GO terms are dominated by ubiquitin-related post-translational modifications (protein ubiquitination, SUMOylation, and NEDDylation, including K63-linked ubiquitination and autoubiquitination), with additional links to signaling and transcription (regulation of JNK cascade, positive regulation of transcription by RNAP II) and differentiation processes. This suggests a cohesive role for this cluster in ubiquitin- and ubiquitin-like modification pathways that regulate signaling and gene expression.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":3},{"id":"GO:0045944","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0051865","count":2}]},{"hash":"1160378838446726225","title":"Translation initiation and preinitiation complex formation","description":"The top GO terms are dominated by translation-related processes: translation reinitiation, formation of translation preinitiation complex, and regulation of translational initiation, each with multiple annotations. This strongly points to a cluster centered on components and regulators of translation initiation. Other terms (ubiquitination, RNA processing, and defense-related responses) appear but are secondary, suggesting auxiliary connections rather than core functions. Therefore the label reflects the main theme of translation initiation control in this cluster.","confidence":"High","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3},{"id":"GO:0006446","count":3},{"id":"GO:0031146","count":2},{"id":"GO:0050830","count":2}]},{"hash":"2262006882669697539","title":"Neural signaling and axon regeneration","description":"This cluster is dominated by GO terms tied to neural signaling and growth, including neurotrophin TRK receptor signaling, positive regulation of the ERK1/ERK2 cascade, and positive regulation of axon regeneration, along with Wnt signaling and phosphorylation activities that underpin these pathways. While immune signaling terms appear (T cell receptor signaling and death-inducing signaling complex), the core theme centers on neuronal development and axonal growth/regeneration networks. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0020021","count":3},{"id":"GO:0048011","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0048680","count":3},{"id":"GO:0018107","count":3}]},{"hash":"1437752925208664425","title":"Neural development","description":"The top GO terms highlight neural-specific processes such as forebrain development and neural tube closure, alongside related developmental events, suggesting the cluster centers on neural development rather than unrelated pathways. Other terms reflect general transcription and cell cycle activity, but the neural-related terms dominate, making a neural development label most representative.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0006349","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0030900","count":4},{"id":"GO:0001403","count":4},{"id":"GO:0007275","count":4}]},{"hash":"816278794540441877","title":"Chromatin Remodeling and Histone Methylation","description":"The cluster\u2019s top GO terms are centered on chromatin and epigenetic regulation, including chromatin remodeling, various histone methylation states (peptidyl-lysine, N-terminal peptidyl-glycine), rDNA heterochromatin formation, and nucleosome disassembly, which together point to chromatin-state regulation. Some terms (like uterus morphogenesis) appear as outliers noise. Overall, the group aligns with epigenetic modulation of chromatin structure.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006338","count":2},{"id":"GO:0018023","count":2},{"id":"GO:0018013","count":2},{"id":"GO:0018027","count":2},{"id":"GO:0031167","count":2}]},{"hash":"549435036582696114","title":"Lipid and Vitamin A Metabolism in Adipocytes","description":"The cluster shows a convergence of lipid metabolism terms (phosphatidylcholine biosynthesis, phospholipid homeostasis) with vitamin A\u2013related processes (vitamin A metabolic process, response to vitamin A) and adipocyte differentiation (white fat cell differentiation). This pattern suggests a theme around lipid/retinoid metabolism governing adipocyte biology.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007157","count":2},{"id":"GO:0006656","count":2},{"id":"GO:0070267","count":1},{"id":"GO:0055091","count":1},{"id":"GO:0060059","count":1}]},{"hash":"1376842914843346190","title":"Unknown","description":"The associated GO terms span sensory behavior, antiviral regulation, RNA splicing, gametogenesis, immune response, ribosomal export, transcriptional regulation, and aging, with no clear single function uniting the proteins. Although spermatogenesis-related terms appear, the rest point to divergent roles; therefore a cohesive cluster label cannot be confidently assigned.","confidence":"","size":6,"edges":4,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0007638","count":2},{"id":"GO:0045071","count":2},{"id":"GO:0000398","count":2},{"id":"GO:0007283","count":2},{"id":"GO:0007286","count":2}]},{"hash":"338192300221026365","title":"Cholesterol Transport and Angiogenesis","description":"Top terms indicate lipid trafficking (intracellular cholesterol transport, cholesterol import, ceramide transport) and vascular development (endothelial tube lumen extension, sprouting angiogenesis regulation). Hormone-related terms (glucocorticoid metabolism, PPAR signaling) fit lipid regulation, while a few plant-specific terms appear as outliers. Overall, the cluster centers on cholesterol transport and angiogenic/vascular processes.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003007","count":1},{"id":"GO:0035621","count":1},{"id":"GO:0090051","count":1},{"id":"GO:0032367","count":1},{"id":"GO:0008211","count":1}]},{"hash":"1851943835081530548","title":"Calcium-Dependent Signaling and Actin Remodeling","description":"Top GO terms point to intracellular calcium signaling (store-operated calcium entry, calcium-mediated signaling) together with actin cytoskeleton dynamics (actin nucleation, actin filament bundle assembly), plus signaling regulation elements. This pattern suggests a cohesive module where calcium fluxes regulate cytoskeletal remodeling and possibly subsynaptic architecture; despite some noise, the core theme centers on calcium signaling linked to actin dynamics.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048875","count":2},{"id":"GO:0090311","count":2},{"id":"GO:0035584","count":2},{"id":"GO:2000402","count":2},{"id":"GO:0010801","count":2}]},{"hash":"178377013891576920","title":"Amino acid and central carbon metabolism","description":"The cluster displays a mix of amino acid biosynthesis/catabolism (lysine, histidine, leucine), glycolysis and pyruvate decarboxylation to acetyl-CoA, malonyl-CoA biosynthesis, and fatty acid biosynthesis, pointing to a core role in central carbon metabolism. The sodium ion transport term appears peripheral, not central to the shared function. ","confidence":"Medium","size":6,"edges":8,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0033512","count":3},{"id":"GO:0000105","count":3},{"id":"GO:0042759","count":3},{"id":"GO:2001295","count":3},{"id":"GO:0019878","count":2}]},{"hash":"1020095171239956802","title":"Ethanol Fermentation and Fusel Alcohol Metabolism","description":"The top GO terms are centered on ethanol-related metabolism, including the Ehrlich pathway (amino acid catabolism to alcohol), ethanol catabolic processes, and pyruvate fermentation to ethanol, indicating this cluster is primarily about ethanol production and processing. Supporting terms like furaldehyde metabolism and copper ion response suggest broader small-molecule detoxification and stress responses, but the dominant signal ties to ethanol metabolism and related fermentation pathways.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0000947","count":6},{"id":"GO:0006069","count":6},{"id":"GO:0006068","count":6},{"id":"GO:0033859","count":6},{"id":"GO:0046688","count":6}]},{"hash":"1482615625950387815","title":"Polyamine Biosynthesis and Transport","description":"The cluster\u2019s strongest signals are polyamine-related: spermidine and putrescine biosynthetic processes and positive regulation of polyamine transmembrane transport, with supporting arginine catabolic links. Other terms like trans-Golgi network organization and kidney development appear as outliers, suggesting annotation noise rather than a cohesive functional theme beyond polyamine metabolism.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0008295","count":2},{"id":"GO:0009089","count":2},{"id":"GO:0098629","count":2},{"id":"GO:1902269","count":2},{"id":"GO:0006527","count":2}]},{"hash":"248934299770798649","title":"Ethanol Metabolism and Fermentation","description":"This cluster shows a strong signal for ethanol-related metabolism, with terms like ethanol catabolic process, pyruvate fermentation to ethanol, and Ehrlich pathway-associated amino acid catabolism. Other terms present (furaldehyde metabolism, copper response, lignin and retinoic acid metabolism, extracellular signal regulation) are more diverse and likely ancillary, but do not outweigh the dominant ethanol-processing theme. Confidence: Medium","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"respiratory system process","top_go_terms":[{"id":"GO:0000947","count":3},{"id":"GO:0006069","count":3},{"id":"GO:0006068","count":3},{"id":"GO:0033859","count":3},{"id":"GO:0046688","count":3}]},{"hash":"1863892810491693903","title":"Ribosome biogenesis and translation","description":"The cluster is strongly enriched for translation and ribosome-related processes (translation, ribosome biogenesis, rRNA maturation, and snoRNP assembly), indicating a shared role in ribosome production and protein synthesis. Additional signaling terms appear less central and may reflect peripheral associations.","confidence":"High","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":6},{"id":"GO:0042254","count":3},{"id":"GO:0031118","count":2},{"id":"GO:1904571","count":2},{"id":"GO:0000492","count":2}]},{"hash":"816803078043107925","title":"Mitotic Cell Cycle","description":"Dominated by GO:0051301 (cell division) and GO:0000278 (mitotic cell cycle), this cluster most plausibly represents proteins involved in cell cycle progression. The other terms appear incidental and do not define a cohesive alternative theme.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0000278","count":2},{"id":"GO:0019373","count":1},{"id":"GO:0006874","count":1},{"id":"GO:0033574","count":1}]},{"hash":"921085876478079237","title":"Adhesion and Migration in Development and Immunity","description":"The terms cluster around cell adhesion (hemidesmosome assembly, heterotypic cell-cell adhesion), and migratory processes (sprouting angiogenesis, T cell migration, tube development), along with signaling events (tyrosine phosphorylation) and broader developmental themes (mesodermal differentiation, myelination). While some terms are diverse (e.g., symbiont entry), the shared theme appears to be proteins involved in adhesion-related signaling and cell movement during development and immune contexts. Therefore, a concise label is Adhesion and Migration in Development and Immunity.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0050731","count":4},{"id":"GO:0031643","count":4},{"id":"GO:0031581","count":3},{"id":"GO:0048333","count":3},{"id":"GO:0046718","count":3}]},{"hash":"152945913481923723","title":"Mitotic Cell Cycle and Genome Maintenance","description":"The set is dominated by mitosis and genome maintenance processes: mitotic cell cycle, DNA replication and repair, DNA-templated transcription, and kinetochore-related localization and chromosome alignment, plus mRNA export and transcriptional regulation. This points to a functional cluster of proteins coordinating chromosome segregation and genome integrity during cell division.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000278","count":2},{"id":"GO:0006281","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0032436","count":2},{"id":"GO:0006260","count":2}]},{"hash":"843438077316207480","title":"Unknown","description":"The top GO terms cover development (gastrulation, erythrocyte differentiation), neural aspects (dopamine metabolism, neuron projection extension) and broad stress/response processes (ethanol, lipopolysaccharide, fungicide, redox, spliceosome). The terms are diverse with no clear shared function or pathway, and there are no edges among proteins, so a cohesive, representative label cannot be assigned.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007369","count":6},{"id":"GO:0045964","count":6},{"id":"GO:0010725","count":6},{"id":"GO:0045471","count":6},{"id":"GO:0045454","count":6}]},{"hash":"158472682297554708","title":"Embryonic development and organ morphogenesis","description":"Most top GO terms cluster around developmental processes such as somite specification, regulation of somitogenesis, midbrain development, and morphogenesis of organs (liver, digestive tract, endodermal fate). A few terms (e.g., seed morphogenesis) are outliers, but the overall pattern supports a theme of embryonic development and organ formation. This justifies the label as a compact, representative description of the cluster.","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":"regulation of DNA-templated transcription","top_go_terms":[{"id":"GO:0001757","count":5},{"id":"GO:0030901","count":5},{"id":"GO:0000122","count":5},{"id":"GO:0014807","count":5},{"id":"GO:0001889","count":5}]},{"hash":"2179768028334604616","title":"Vertebrate embryonic organogenesis","description":"The terms cluster around embryonic development across multiple organs (liver, parathyroid, skeletal, heart, eye, cortex), with SMAD signaling and DNA-templated transcription indicating broad developmental regulation. This suggests a cohesive theme of vertebrate organogenesis rather than a single tissue function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":3},{"id":"GO:0060017","count":2},{"id":"GO:0048706","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060395","count":2}]},{"hash":"1328889101531407430","title":"DNA Replication and Repair","description":"The cluster is dominated by DNA replication-related GO terms (DNA replication, DNA strand elongation, pre-replicative complex assembly, mitotic DNA replication, and break-induced replication repair). A few outlier terms (skeletal muscle fiber development, negative regulation of inflammatory response, negative regulation of miRNA processing, and bacteriochlorophyll biosynthesis) are likely incidental annotations rather than core functions. Overall, the proteins appear to cluster around replication machinery and associated DNA repair processes.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0048741","count":2},{"id":"GO:0050728","count":2},{"id":"GO:1903799","count":2},{"id":"GO:0006271","count":1}]},{"hash":"433106082192529419","title":"Embryonic development and morphogenesis","description":"The cluster shows enrichment across diverse developmental processes: lens fiber cell differentiation, somite axis specification, endoderm and foregut morphogenesis, hindbrain development, and cartilage development, with involvement in epithelial-to-mesenchymal transition and extracellular matrix assembly. This pattern points to a broad embryonic development program governing tissue patterning and organ formation, rather than a single specialized function. ","confidence":"High","size":6,"edges":3,"triangles":1,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0070306","count":4},{"id":"GO:0032525","count":4},{"id":"GO:0007492","count":4},{"id":"GO:0006351","count":4},{"id":"GO:0010718","count":4}]},{"hash":"1441875643270510065","title":"Embryonic organogenesis and vascular development","description":"The terms point to developmental processes across multiple organs, especially vascular formation (sprouting angiogenesis, lymphangiogenesis) and organ morphogenesis (heart field formation, cardiac contraction, salivary gland morphogenesis). This suggests the cluster comprises proteins involved in embryonic organ development and vascular/branching morphogenesis rather than a single pathway, hence a broad but specific label.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0002040","count":3},{"id":"GO:0071230","count":3},{"id":"GO:1901492","count":3},{"id":"GO:0032148","count":2},{"id":"GO:2000573","count":2}]},{"hash":"1918351959521319184","title":"Rab-mediated trafficking and protein geranylgeranylation","description":"The top GO terms cluster around Rab protein signal transduction, activation of GTPase activity, and protein transport, together with protein geranylgeranylation and its positive regulation, suggesting a shared function in Rab GTPase\u2013driven vesicle trafficking and membrane targeting. An obsolete oxidation-reduction term is not informative, and a couple of developmental terms likely reflect species context rather than the core mechanism.","confidence":"High","size":6,"edges":13,"triangles":13,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":5},{"id":"GO:0050771","count":4},{"id":"GO:0050935","count":4},{"id":"GO:0048798","count":4},{"id":"GO:0018344","count":4}]},{"hash":"1386561565789915251","title":"Embryonic development and organ morphogenesis","description":"The top GO terms cluster around formation and patterning of multiple organs (mouth, uterus, heart, placenta, hair follicle) and embryonic tissue specification, indicating a shared role in embryogenesis and organ morphogenesis. Some RNA processing terms likely reflect general gene expression control within this developmental context.","confidence":"High","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":3},{"id":"GO:0009952","count":2},{"id":"GO:0060065","count":2},{"id":"GO:0007507","count":2},{"id":"GO:0000055","count":2}]},{"hash":"882320288625922608","title":"Viral translation initiation and reinitiation","description":"The terms cluster around translation initiation and reinitiation, especially IRES-dependent viral translational initiation, translation reinitiation, and formation of the translation preinitiation complex, plus viral termination-reinitiation. While there are some mentions of mRNA processing and ncRNA-mediated gene silencing, the dominant theme is viral translation control.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0075525","count":2},{"id":"GO:1900363","count":2},{"id":"GO:0075522","count":2},{"id":"GO:0002188","count":2},{"id":"GO:0001731","count":2}]},{"hash":"1097581767000348585","title":"Membrane trafficking and endocytosis regulation","description":"The top GO terms cluster around membrane-associated processes: endocytosis, protein localization to the plasma membrane, and regulation of exocytosis and GTPase activity, all pointing to membrane trafficking and vesicle transport. A few terms (ventral/dorsal identity and prospore assembly) appear as minor outliers, possibly indicating cross-species annotations, but the dominant signal is vesicle trafficking and membrane dynamics. ","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043508","count":3},{"id":"GO:0043496","count":3},{"id":"GO:0048264","count":3},{"id":"GO:2000016","count":3},{"id":"GO:0031321","count":2}]},{"hash":"1900172400264310319","title":"Neurotransmitter Secretion and Synaptic Regulation","description":"The top GO terms point to neuronal processes: dendritic spine maintenance, regulation of neurotransmitter secretion, monoamine transport, dense core granule maturation, and synaptic plasticity (long-term depression), plus actin remodeling via Arp2/3. A few terms also touch endocrine secretory pathways (pancreas development, insulin secretion), which aligns with dense core granules. Overall, the cluster centers on neuroendocrine secretion and synaptic function. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002063","count":2},{"id":"GO:0031016","count":2},{"id":"GO:0097062","count":1},{"id":"GO:0050796","count":1},{"id":"GO:0060292","count":1}]},{"hash":"434616434114619119","title":"Ubiquitin-Mediated Antiviral Immune Signaling","description":"The cluster is dominated by GO terms for ubiquitin-dependent proteolysis and polyubiquitination, NF-kappaB signaling regulation, and defense/innate/adaptive immune responses, all pointing to a set of proteins that coordinate ubiquitin-regulated immune signaling pathways in antiviral defense.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0043123","count":3},{"id":"GO:0097039","count":3}]},{"hash":"1158269999054219654","title":"Unknown","description":"The GO terms show a highly diverse set of functions\u2014from DNA repair and biosynthesis to muscle contraction, nerve formation, and multiple ion transport processes\u2014without a single shared biological theme or common pathway. The lack of edges further suggests these proteins are not functionally linked in a coherent cluster, supporting labeling as Unknown.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071897","count":2},{"id":"GO:0006297","count":2},{"id":"GO:0030853","count":2},{"id":"GO:0031448","count":2},{"id":"GO:0021650","count":2}]},{"hash":"1272944450152563855","title":"Neuronal signaling and plasticity","description":"Based on the prominent GO terms, the cluster centers on neuronal function and regulation of signaling pathways: neuron migration, regulation of synaptic plasticity, and membrane depolarization point to neuronal excitability and plasticity; glucocorticoid signaling and insulin response reflect hormonal modulation of neuronal activity; while terms like regulation of kinase activity tie these signals together. A few terms are more general (Golgi reassembly, keratinocyte development) but do not override the dominant neuronal theme.","confidence":"Medium","size":6,"edges":15,"triangles":20,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0043154","count":5},{"id":"GO:0032869","count":5},{"id":"GO:0071901","count":5},{"id":"GO:0042921","count":5},{"id":"GO:0048167","count":5}]},{"hash":"73072082412141417","title":"Embryonic morphogenesis and transcriptional regulation","description":"This cluster centers on developmental processes, including craniofacial (roof of mouth) development, mesoderm formation, hair follicle morphogenesis, and EMT-related heart development, with accompanying transcriptional regulation by RNA polymerase II. The shared theme is embryonic tissue morphogenesis governed by gene expression control.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0060021","count":3},{"id":"GO:0046785","count":2},{"id":"GO:0007576","count":2},{"id":"GO:1903026","count":2}]},{"hash":"334191380795055673","title":"Embryonic Development and Tissue Morphogenesis","description":"The cluster's top GO terms center on embryonic development and tissue morphogenesis (palate/roof of mouth development, mesoderm and cartilage morphogenesis, placental and endocrine system development, hair follicle morphogenesis, and epithelial-to-mesenchymal transition in heart formation), indicating proteins likely involved in coordinating developmental processes across multiple tissues. A few terms like vitamin D biosynthesis regulation are less central but do not dominate the theme.","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0060021","count":6},{"id":"GO:0060806","count":5},{"id":"GO:0010957","count":5},{"id":"GO:0007498","count":5},{"id":"GO:0035270","count":5}]},{"hash":"403045706231759696","title":"Innate antibacterial defense","description":"The cluster is best characterized by immune-related GO terms, notably cellular response to lipopolysaccharide and defense responses to both Gram-negative and Gram-positive bacteria, plus innate immune response. These converge on an innate, antibacterial defense theme. The other terms (sperm motility, development, ossification, neuron projection) appear less connected and may reflect annotation noise. Overall, the core function appears to be innate immunity against bacteria. ","confidence":"Medium","size":6,"edges":5,"triangles":0,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0071222","count":2},{"id":"GO:0050829","count":2},{"id":"GO:0050830","count":2},{"id":"GO:0045087","count":2},{"id":"GO:0030317","count":2}]},{"hash":"1685188132022951028","title":"Unknown","description":"These six proteins have GO terms across immune response, neural development, organ morphogenesis, apoptotic cell clearance, ER stress responses, and mitochondrial/calcium regulation. There is no single cohesive function or pathway that ties all terms together, so a specific, unified label cannot be assigned.","confidence":"","size":6,"edges":7,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051902","count":3},{"id":"GO:0002250","count":3},{"id":"GO:1990441","count":3},{"id":"GO:1904179","count":3},{"id":"GO:1990090","count":3}]},{"hash":"2026281936620350310","title":"DNA repair and genome maintenance","description":"The cluster is dominated by GO terms related to DNA repair and genome stability, including base-excision repair, error-free translesion synthesis, and regulation of DSB repair via SSA, plus telomere maintenance. This points to a shared function in preserving genome integrity, with some auxiliary signals for xenobiotic/ hormone/nutrient responses that may modulate repair. Overall, a DNA repair/genome maintenance theme best fits the cluster.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070987","count":1},{"id":"GO:0006284","count":1},{"id":"GO:0042493","count":1},{"id":"GO:1901291","count":1},{"id":"GO:0033158","count":1}]},{"hash":"1582143463807981951","title":"Unknown","description":"The GO terms are highly diverse, spanning metal ion responses (copper, potassium), several RNA pseudouridine synthesis processes (tRNA, mRNA, snRNA), translation regulation, cell cycle transition, mRNA tail shortening, and neural development/behavior. With no clear, cohesive function or interaction pattern (edges 0), there isn\u2019t a unifying theme to label this cluster with a specific biological process.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071280","count":2},{"id":"GO:0035865","count":2},{"id":"GO:0031119","count":1},{"id":"GO:1990481","count":1},{"id":"GO:0031120","count":1}]},{"hash":"343049501349896381","title":"Immune signaling and ubiquitin-mediated regulation","description":"The top GO terms cluster around both adaptive and innate immune responses and regulation of the JNK signaling cascade, pointing to involvement in immune signaling pathways. Supporting terms highlight ubiquitin-dependent protein catabolic processes, autoubiquitination, and K48-linked ubiquitination, suggesting that ubiquitin-mediated turnover modulates signaling components (including receptors) within these pathways. Some terms about X chromosome inactivation and dosage compensation seem less connected and may reflect annotation noise, but the overall theme is coherent: immune signaling intertwined with ubiquitin-regulated protein turnover. ","confidence":"Medium","size":6,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0046328","count":3},{"id":"GO:0045087","count":3},{"id":"GO:1900095","count":2},{"id":"GO:0042787","count":2}]},{"hash":"2112945381544291809","title":"Unknown","description":"The GO terms include activation of protein kinase activity, ribosome biogenesis, ER-to-Golgi and endosome-to-Golgi transport, general protein transport, and defense response. They cover signaling, ribosome assembly, trafficking, and immunity, with no single unifying function apparent for the cluster. Therefore the cluster is best described as Unknown.","confidence":"","size":6,"edges":5,"triangles":1,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":1},{"id":"GO:0042254","count":1},{"id":"GO:0042147","count":1},{"id":"GO:0015031","count":1},{"id":"GO:0006888","count":1}]},{"hash":"500373618094427744","title":"Epithelial Proliferation and Morphogenesis Signaling","description":"Based on the top GO terms, the cluster centers on growth and morphogenesis of epithelial tissues, with mammary gland epithelial cell proliferation and lung morphogenesis as key signals. VEGF stimulus response and PI3K-AKT signaling indicate growth factor\u2013driven pathways, while JNK cascade regulation and transcytosis point to broader intracellular signaling and transport processes that shape epithelial development. An outlier term about symbiont-mediated transformation is present but does not override the epithelial growth/morphogenesis theme.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":6},{"id":"GO:0090188","count":6},{"id":"GO:0035924","count":6},{"id":"GO:0046330","count":6},{"id":"GO:0045056","count":6}]},{"hash":"1423773295846769153","title":"Ubiquitin-Dependent Immune Regulation","description":"Based on the GO terms, the cluster centers on ubiquitin-mediated protein turnover (ubiquitin-dependent catabolism and polyubiquitination) and immune-system modulation (negative regulation of T cell differentiation/proliferation, spleen development, NO synthase regulation). While there are additional terms (cadmium response, microtubule localization), the strongest signal ties ubiquitination to immune signaling, suggesting a cluster of proteins involved in regulating immune responses via ubiquitin pathways.","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0048536","count":4},{"id":"GO:0042787","count":4},{"id":"GO:0071276","count":3},{"id":"GO:0000209","count":3},{"id":"GO:0035372","count":3}]},{"hash":"1693392365914384956","title":"Ergothioneine and selenoneine biosynthesis","description":"The top GO terms cluster around ergothioneine biosynthesis from histidine via gamma-glutamyl-hercynylcysteine sulfoxide and a related selenoneine biosynthetic process, with a couple of secondary terms like heme A biosynthesis and vesicle transport appearing less central. This suggests a coherent theme of producing ergothioneine/selenoneine-related metabolites, with minor unrelated annotations in the mix. ","confidence":"High","size":6,"edges":5,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:1903253","count":2},{"id":"GO:0052704","count":2},{"id":"GO:1903255","count":2},{"id":"GO:0052707","count":2},{"id":"GO:1903257","count":2}]},{"hash":"1220020612243735923","title":"T cell immune signaling and protein transport","description":"The cluster centers on T cell\u2013related immune processes: T cell apoptotic and cytokine production, and innate immune signaling. Protein transport and ER lumen retention hint at secretory capacity supporting immune signaling, while some neuron/other terms appear incidental. Overall, the common theme is T cell\u2013mediated immune activation and related cellular trafficking.","confidence":"Medium","size":6,"edges":6,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0070231","count":2},{"id":"GO:0015031","count":2},{"id":"GO:0010204","count":2},{"id":"GO:0002369","count":2},{"id":"GO:0006621","count":2}]},{"hash":"469273434685035056","title":"Unknown","description":"Unknown","confidence":"","size":6,"edges":9,"triangles":4,"max_degree":5,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":1},{"id":"GO:0001893","count":1},{"id":"GO:1903547","count":1},{"id":"GO:0060137","count":1},{"id":"GO:0097345","count":1}]},{"hash":"543833430857870911","title":"Lens and skeletal development","description":"The top GO terms point to tissue development and differentiation, especially lens fiber cell differentiation and skeletal system development, along with general multicellular growth. Supporting terms related to intracellular trafficking and cytoskeletal organization fit broadly with developmental remodeling of tissues. Overall, the cluster appears to represent developmental processes affecting lens and skeletal tissues, rather than a single, specific molecular function.","confidence":"High","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0051016","count":2},{"id":"GO:0006888","count":2},{"id":"GO:0070306","count":2}]},{"hash":"2259441148241261821","title":"TGF-\u03b2\u2013driven ECM remodeling and angiogenesis","description":"The dominant GO terms point to extracellular matrix interactions and remodeling (cell-matrix adhesion, hyaluronan biosynthesis, sequestration/activation of TGF-\u03b2 in ECM), together with signaling processes like TGF-\u03b2 activation and EMT (epithelial to mesenchymal transition) relevant to heart development and endocardial cushion formation, as well as endothelial sprouting angiogenesis and multicellular development. This pattern suggests a cohesive function group centered on ECM-mediated signaling that coordinates cell adhesion, EMT, and blood vessel formation during development, with a secondary inflammatory signal. Confidence reflects a strong, coherent theme across the terms; thus the label is likely representative. ","confidence":"High","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007160","count":3},{"id":"GO:0006954","count":2},{"id":"GO:1903588","count":2},{"id":"GO:1902462","count":2},{"id":"GO:0071260","count":2}]},{"hash":"1363284194216757234","title":"Unknown","description":"The top GO terms span diverse domains (animal development, plant hormone/homeostasis, retinoid and vitamin D biosynthesis, antibiotic biosynthesis, and lipid metabolism) with no clear single function tying the proteins together. Given this heterogeneity, there isn\u2019t a coherent label that accurately represents a shared role for the cluster.","confidence":"","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030879","count":4},{"id":"GO:0046226","count":4},{"id":"GO:0036378","count":4},{"id":"GO:0070989","count":4},{"id":"GO:0033068","count":4}]},{"hash":"586946796352162884","title":"Mitochondrial Redox and Nucleotide Metabolism","description":"This cluster couples nucleotide metabolism and editing/salvage pathways (deoxycytidine, guanine, cytosine catabolism; UMP salvage; uridine/cytidine metabolism; tRNA wobble editing) with redox homeostasis and a hint of cytochrome complex assembly, suggesting a mitochondria-associated module that links nucleotide turnover to redox balance and energy-related processes.","confidence":"Medium","size":6,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0017004","count":2},{"id":"GO:0045454","count":2},{"id":"GO:0006217","count":1},{"id":"GO:0006147","count":1},{"id":"GO:0009231","count":1}]},{"hash":"2053117531194080256","title":"Transmembrane Transporters for Ions and Small Metabolites","description":"The GO terms are dominated by transmembrane transport activities for phosphate ions, nitrates, organic anions, sugars (glucose, galactose), potassium, and xenobiotics, plus a related metabolic term, pointing to a cluster of proteins that move various substrates across membranes. An additional term about intestinal epithelial structure maintenance suggests tissue-specific regulation but does not change the central theme of membrane transport. The overall connectivity is modest (one edge), so this label captures the shared function rather than a tightly connected pathway.","confidence":"Medium","size":6,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":1},{"id":"GO:0042128","count":1},{"id":"GO:0015706","count":1},{"id":"GO:0060731","count":1},{"id":"GO:0043252","count":1}]},{"hash":"1757198866910366910","title":"Detoxification and aromatic compound catabolism","description":"This cluster shows a clear enrichment for catabolic and detox-related GO terms, notably aromatic compound degradation pathways (beta-ketoadipate pathway, 3-phenylpropionate catabolic, 1,2-dichloroethane catabolic) and glucuronoside catabolic processes, along with a general response to toxic substances. While there are a couple biosynthetic terms present (biotin and antibiotic biosynthesis), the dominant signal is metabolic breakdown and detoxification of xenobiotics, justifying a label focused on degradation and detox pathways. The lack of edges suggests these proteins may function in separate steps of broad metabolism rather than a single complex. ","confidence":"Medium","size":6,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":3},{"id":"GO:0019380","count":3},{"id":"GO:1905344","count":3},{"id":"GO:0019740","count":3},{"id":"GO:0009636","count":3}]},{"hash":"1958164477080299744","title":"Proteostasis and DNA Repair with Organelle Import","description":"The cluster contains terms related to protein quality control (aggresome assembly, ERAD) and DNA damage response (UV-damage excision repair, translesion synthesis, mitotic DNA replication checkpoint), with additional links to organelle maintenance (import into peroxisomes/mitochondria and related membrane insertion). This suggests a broad cellular stress-response theme rather than a single, cohesive pathway, spanning proteostasis, genome integrity, and organelle biogenesis. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0070842","count":4},{"id":"GO:0030433","count":4},{"id":"GO:0070987","count":3},{"id":"GO:0031117","count":3},{"id":"GO:0016562","count":3}]},{"hash":"229719813747932384","title":"Nucleotide Biosynthesis and Salvage","description":"Most top GO terms point to nucleotide metabolism and salvage, including ADP and CDP biosynthesis, AMP salvage, nucleoside monophosphate phosphorylation, purine ribonucleotide interconversion, and ITP metabolism. A few development terms (liver, brain development) appear but likely reflect expression context rather than cluster function; the core theme is nucleotide metabolism.","confidence":"Medium","size":5,"edges":7,"triangles":4,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001889","count":5},{"id":"GO:0006172","count":5},{"id":"GO:0046940","count":5},{"id":"GO:0044209","count":5},{"id":"GO:0007420","count":5}]},{"hash":"1682226336069758693","title":"Unknown","description":"Top terms span a wide range of distinct processes (toxic/metal response, xenobiotic response, hyperosmotic stress, various metabolic and developmental processes, vitamin A response, and growth factor signaling), with no single cohesive function tying the proteins together. Therefore, a clear, specific label cannot be assigned.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0006972","count":3},{"id":"GO:0020027","count":3},{"id":"GO:0006641","count":3}]},{"hash":"1359033233349063811","title":"Nutrient sensing and growth regulation","description":"These proteins cluster around nutrient signaling and growth control, as evidenced by TORC1 signaling, cellular response to amino acids, and autophagy-related terms (negative regulation of autophagy and microautophagy). Additional terms for phosphate ion transport and protein transport fit into the broader growth-associated nutrient uptake and trafficking. Transcription by RNA polymerase I and III suggests coordinated ribosome biogenesis and gene regulation under growth conditions, while subtelomeric heterochromatin formation and the ambiguous \u201clearning\u201d term may reflect ancillary regulatory features. Overall, the theme is nutrient sensing guiding growth and autophagy. ","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0007612","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0006360","count":2},{"id":"GO:0010507","count":2},{"id":"GO:0016237","count":2}]},{"hash":"1216895750950170253","title":"Proteostasis and Transcription Regulation","description":"The cluster is enriched for protein homeostasis processes (aggrephagy, negative regulation of proteasomal protein catabolic process, protein deglycosylation, and protein deubiquitination), suggesting regulation of protein turnover and quality control. In addition, positive regulation of transcription by RNA polymerase II points to transcriptional control. Some terms also reflect broader stress responses (interferon signaling, nucleotide-excision repair), but the strongest signal ties proteostasis with gene regulation.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0033132","count":5},{"id":"GO:0045944","count":5},{"id":"GO:0086004","count":5},{"id":"GO:0060334","count":5},{"id":"GO:0035973","count":5}]},{"hash":"1126311778894876894","title":"Unknown","description":"The top GO terms are highly diverse, spanning ER membrane insertion, root hair elongation, oncosis, cell adhesion, arginine/urea cycle metabolism, and cell cycle, with no clear common function or pathway linking the proteins. Edges are zero, so there\u2019s no interaction context to support a cohesive label. Overall, there isn\u2019t a robust, shared function to name this cluster.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071816","count":1},{"id":"GO:0048767","count":1},{"id":"GO:0070267","count":1},{"id":"GO:0007157","count":1},{"id":"GO:0000053","count":1}]},{"hash":"2193338004293238207","title":"Cellular stress response and inflammation","description":"This cluster centers on cellular responses to stressors (cadmium, ischemia, external toxins like cocaine) and upregulation of inflammatory pathways (inflammatory response, TNF production). Telomerase-related terms and protein stabilization appear less central, suggesting the shared theme is stress-induced inflammatory signaling rather than a single specific pathway. Therefore, \u201cCellular stress response and inflammation\u201d fits best.","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0046686","count":5},{"id":"GO:1904874","count":5},{"id":"GO:0051973","count":5},{"id":"GO:0032212","count":5},{"id":"GO:0042220","count":5}]},{"hash":"1252971564557993674","title":"Muscle sarcomere and actin filament assembly","description":"Dominant GO terms are about muscle structure and cytoskeletal organization: actin filament bundle assembly, sarcomere organization, and skeletal muscle thin filament assembly. This suggests the cluster's proteins function together in building or organizing muscle fibers. Other terms like phagocytosis or mesenchyme migration are less central here, and calcium response and platelet aggregation are more general signaling contexts, but do not override the core muscle-related theme.","confidence":"High","size":5,"edges":6,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0030240","count":2}]},{"hash":"1763700995303830030","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0010738","count":2},{"id":"GO:0045716","count":2},{"id":"GO:0044830","count":2},{"id":"GO:0061055","count":2},{"id":"GO:2000627","count":2}]},{"hash":"365691610006996732","title":"Mitotic progression and chromatin regulation","description":"This cluster centers on mitotic cell cycle activities (mitotic cycle, sister chromatid segregation) and protein turnover via ubiquitin-proteasome pathways (SCF-dependent degradation), pointing to cell division. The presence of histone modification signals (even if labeled obsolete) suggests chromatin remodeling, along with developmental context such as gastrulation, indicating proliferation and chromatin regulation during development. Overall, the terms point to a cohesive theme around cell division coupled with chromatin regulation.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0031146","count":4},{"id":"GO:0008283","count":4},{"id":"GO:0000278","count":4},{"id":"GO:0007369","count":3},{"id":"GO:0043982","count":3}]},{"hash":"2087799027080996632","title":"Hair follicle development and epidermal signaling","description":"The GO terms show skin/hair morphogenesis signals (hair follicle placode formation, epithelial cell\u2013cell adhesion) and associated regulatory signaling (JNK, Rap, NF-\u03baB), with some trafficking (multivesicular body sorting) that can modulate signaling. This suggests a coherent theme around epithelial development and hair follicle formation rather than a single metabolic pathway.","confidence":"Medium","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043931","count":3},{"id":"GO:0090136","count":2},{"id":"GO:0060789","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0045773","count":2}]},{"hash":"2030226554338596661","title":"RNA regulation and processing","description":"The terms are dominated by RNA-related processes: transcriptional regulation by RNA Pol II, RNA splicing, and chloroplast mRNA modification, with supporting roles for ubiquitination/deubiquitination and cell-cycle regulation, suggesting a cluster centered on RNA expression and processing control.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0016567","count":3},{"id":"GO:0006977","count":3},{"id":"GO:0033132","count":2},{"id":"GO:0071301","count":2}]},{"hash":"919398663954256145","title":"Proteostasis and transcriptional regulation in development","description":"This cluster centers on regulators of protein turnover (ubiquitin-dependent catabolic process and its negative regulation, protein stabilization) alongside transcriptional control (positive regulation of RNA Pol II) and development-related processes (mesoderm morphogenesis, stem cell maintenance, neurite/dendrite growth). The mix suggests proteins involved in balancing protein homeostasis with gene expression during development, rather than a single, cohesive pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":4},{"id":"GO:0000413","count":4},{"id":"GO:0045944","count":3},{"id":"GO:1902459","count":3},{"id":"GO:0050821","count":3}]},{"hash":"750227647699076078","title":"Wing Disc Development and Cell Division","description":"This cluster centers on developmental processes, especially imaginal wing disc development and morphogenesis, along with general cell proliferation (mitotic cell cycle, cell division). The presence of cytoskeletal remodeling terms (actin filament bundle assembly, nuclear migration along microtubule) and trafficking (ER to Golgi transport) supports a role in morphogenesis and growth. A divergent immune-related term (antigen processing and presentation via MHC II) may reflect cross-species annotation noise or broader functional annotations. ","confidence":"Medium","size":5,"edges":10,"triangles":10,"max_degree":4,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0006888","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0051017","count":2}]},{"hash":"410038106021023035","title":"Neurodevelopment and Embryogenesis","description":"The GO terms point primarily to neural development (neurogenesis, collateral sprouting) and embryonic morphogenesis across tissues (forelimb, retina, and even vaginal development). Vitamin A metabolism hints at retinoic acid signaling, a major driver of neural patterning and organ morphogenesis, which helps unify these terms. Some terms reflect developmental remodeling (apoptotic process) and membrane signaling (phospholipid homeostasis), supporting a developmental theme. Overall, the cluster is best described as neurodevelopment and embryogenesis.","confidence":"Medium","size":5,"edges":5,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0022008","count":3},{"id":"GO:0060068","count":3},{"id":"GO:0048672","count":3},{"id":"GO:0035115","count":3},{"id":"GO:0006915","count":3}]},{"hash":"604636411477746152","title":"Innate Immune Response and Coagulation","description":"The cluster shows predominance of GO terms related to acute-phase response, blood coagulation, and complement activation, indicating an innate immune/inflammatory function. Other terms like chlorophyll biosynthetic process and visual perception are less consistent with this theme, suggesting possible annotation noise or multifunctional proteins. Overall, the cluster seems best described by immune/coagulation activity.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006953","count":5},{"id":"GO:0007596","count":5},{"id":"GO:0006956","count":4},{"id":"GO:0035987","count":4},{"id":"GO:0015995","count":4}]},{"hash":"1723589481749708892","title":"Meiotic recombination and DNA repair","description":"The top GO terms cluster around DNA recombination assembly, multiple double-strand break repair pathways (SSA, BIR), and meiotic joint molecule formation, plus telomere maintenance via recombination, indicating these proteins function largely in meiotic recombination and DNA repair processes. The presence of regulatory terms for meiotic joint molecules supports a meiosis-focused repair theme.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000730","count":3},{"id":"GO:2000819","count":3},{"id":"GO:0010947","count":3},{"id":"GO:0000709","count":3},{"id":"GO:0010792","count":3}]},{"hash":"1154929958448684505","title":"Actin cytoskeleton remodeling and cell adhesion","description":"The top GO terms cluster around actin cytoskeleton organization, filopodium assembly, integrin activation, and GTPase activation, all hallmarks of cytoskeletal dynamics and cell adhesion/motility. Some terms appear ancillary or obsolete, and a couple involve unrelated processes, but the dominant theme clearly points to cytoskeletal remodeling and adhesion. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006470","count":3},{"id":"GO:0000173","count":3},{"id":"GO:0033622","count":3},{"id":"GO:0046847","count":3},{"id":"GO:0090630","count":3}]},{"hash":"1321381762930365768","title":"Unknown","description":"The terms span proteostasis (ubiquitin-dependent protein catabolic process; proteasome assembly; metallopeptidase activity) and a mix of developmental and extracellular matrix processes (endodermal cell differentiation; chlorophyll biosynthetic process; stamen formation; integrin signaling; cell-matrix adhesion; hyaluronan metabolism). This combination includes plant-specific and animal ECM-related terms with no single coherent biology linking them all, so a specific functional label is not supported.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035987","count":2},{"id":"GO:0015995","count":2},{"id":"GO:0043248","count":2},{"id":"GO:0006511","count":2},{"id":"GO:0006929","count":2}]},{"hash":"1562849492990639527","title":"Neuronal growth and microtubule dynamics","description":"The top GO terms cluster around neuron projection development, axon extension, and synaptic localization, all tied to cytoskeletal remodeling, especially microtubule polymerization and bundle formation. Additional terms about ciliogenesis and mitochondrial fission reflect microtubule-associated organelle dynamics in neurons, reinforcing a theme of neuronal morphogenesis governed by microtubule dynamics.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902856","count":2},{"id":"GO:0031175","count":2},{"id":"GO:1902474","count":2},{"id":"GO:0090258","count":2},{"id":"GO:0051012","count":2}]},{"hash":"181371649257330768","title":"Unknown","description":"The top GO terms cover DNA repair, plant development, photosystem organization, and signaling-related dephosphorylation with TGF-beta pathway hints, which do not converge on a single coherent function for these proteins. This makes it unclear what unified biological role ties the cluster together.","confidence":"","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0036297","count":2},{"id":"GO:0010074","count":1},{"id":"GO:0080005","count":1},{"id":"GO:0006470","count":1},{"id":"GO:0071560","count":1}]},{"hash":"1605542727286534317","title":"Rho-regulated vesicle fusion and exocytosis","description":"The top GO terms cluster around vesicle fusion, exocytosis (calcium-dependent), and regulation of GTPase activity, notably Rho protein signaling and GTPase regulation, suggesting a shared role in vesicle trafficking controlled by Rho GTPases. Some terms (brain/nervous system development, ABA signaling, skeletal development) appear broad or cross-species annotations and may reflect annotation noise rather than core function. Overall, the dominant theme is Rho GTPase\u2013driven vesicle fusion/exocytosis.","confidence":"Medium","size":5,"edges":9,"triangles":7,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0001302","count":4},{"id":"GO:0007124","count":4},{"id":"GO:0006906","count":4},{"id":"GO:0007266","count":4},{"id":"GO:0007420","count":4}]},{"hash":"881345803590000202","title":"Epithelial and neural development signaling","description":"Top GO terms indicate roles in epithelial biology (cell-cell adhesion, hair placode formation) and neural development (axon extension, forebrain radial glial differentiation), supported by signaling pathways (JNK, Rap, NF-kappaB) and endosomal trafficking (multivesicular body sorting). This combination points to a general theme of coordinating epithelial morphogenesis and neural differentiation through conserved signaling and trafficking mechanisms, rather than a single, narrow function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0090136","count":4},{"id":"GO:0060789","count":4},{"id":"GO:0046330","count":4},{"id":"GO:0045773","count":4},{"id":"GO:0071985","count":4}]},{"hash":"246517354922512882","title":"Unknown","description":"The GO terms touch multiple distinct domains (cardiac muscle contraction, sarcomere organization, phototransduction/visual perception, axonogenesis, and various signaling regulations) with little cohesive functional thread. This spread suggests no single functional theme for the cluster, so the appropriate label is Unknown.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060048","count":3},{"id":"GO:0007602","count":3},{"id":"GO:0007601","count":3},{"id":"GO:0007190","count":2},{"id":"GO:0007409","count":2}]},{"hash":"1554907554304269317","title":"Lysine and RNA methylation","description":"The top GO terms are centered on methylation activities, including peptidyl-lysine dimethylation, peptidyl-lysine trimethylation, N-terminal peptidyl-glycine methylation, and rRNA methylation, with an additional link to rDNA heterochromatin formation. This points to a cluster of proteins involved in methyltransferase functions targeting lysine residues on proteins and RNA, potentially connecting to chromatin regulation; the other lower-frequency terms are likely incidental noise.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018027","count":4},{"id":"GO:0031167","count":4},{"id":"GO:0018023","count":3},{"id":"GO:0018013","count":3},{"id":"GO:0000183","count":3}]},{"hash":"1682826734896130348","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015992","count":2},{"id":"GO:0019878","count":2},{"id":"GO:0019404","count":2},{"id":"GO:0006740","count":2},{"id":"GO:0006189","count":2}]},{"hash":"1113825975619364660","title":"Central carbon metabolism and nutrient signaling","description":"Most terms center on glycolysis, the TCA cycle, and related carbon metabolism, with accompanying responses to glucose, nutrients, xenobiotics, and cAMP. This suggests a cluster of proteins involved in energy metabolism and nutrient signaling, hence the name Central carbon metabolism and nutrient signaling.","confidence":"High","size":5,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":4},{"id":"GO:0042493","count":3},{"id":"GO:0006096","count":3},{"id":"GO:0006099","count":3},{"id":"GO:0051591","count":2}]},{"hash":"2021600213672106268","title":"Chromatin regulation and transcription machinery","description":"The cluster's GO terms cluster around chromatin remodeling and gene expression control: DNA-templated transcription, mRNA export, SAGA complex localization to transcription regulatory regions, and histone deubiquitination point to transcription regulation and chromatin dynamics. Proteasome assembly and homologous recombination highlight linkages to protein turnover and genome maintenance that support regulatory processes. Some terms like filamentous growth and vulval development may reflect broader developmental regulation contexts. Overall, the common thread is regulation of transcription via chromatin state and genome maintenance.","confidence":"Medium","size":5,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030447","count":1},{"id":"GO:0016578","count":1},{"id":"GO:0035753","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0043248","count":1}]},{"hash":"85094027898491502","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010738","count":2},{"id":"GO:0045716","count":2},{"id":"GO:0044830","count":2},{"id":"GO:2000627","count":2},{"id":"GO:0043577","count":2}]},{"hash":"581716100550038450","title":"Molybdenum cofactor biosynthesis","description":"The dominant GO terms point to MoCo biosynthesis, including molybdenum incorporation into molybdenum-molybdopterin complex and molybdopterin cofactor biosynthetic processes, suggesting this cluster comprises proteins involved in assembling the molybdenum cofactor. A few receptor clustering or apoptotic terms appear peripherally and may reflect annotation noise or multifunctionality, but the core signal supports MoCo biosynthesis. ","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0018315","count":2},{"id":"GO:0032324","count":2},{"id":"GO:0072579","count":2},{"id":"GO:0006777","count":2},{"id":"GO:0097112","count":2}]},{"hash":"211413203067487701","title":"Developmental gene regulation","description":"These proteins seem tied to broad developmental processes across multiple tissues (retinoic acid response, heart and cartilage development, neuron axonogenesis, adipose and vaginal development) and to transcriptional control (DNA-templated transcription). The common thread is regulation of development through gene expression programs rather than a single pathway or tissue. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0071300","count":3},{"id":"GO:0060068","count":3},{"id":"GO:0006351","count":3},{"id":"GO:0021952","count":3},{"id":"GO:0007507","count":3}]},{"hash":"1077782014803054141","title":"Ubiquitin-Dependent Proteolysis","description":"This cluster is dominated by GO terms for ubiquitin-dependent protein catabolic processes and polyubiquitination, including SCF-dependent proteasomal degradation, pointing to a shared role in targeted protein turnover. Some meiosis-related terms appear, suggesting a link between proteolysis and cell-cycle events in oocyte development, but the primary theme is ubiquitin-mediated degradation.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:1903378","count":4},{"id":"GO:0000209","count":4},{"id":"GO:0070544","count":3},{"id":"GO:0001556","count":3}]},{"hash":"1847841784759605546","title":"Adaptive immune signaling and chromatin regulation","description":"This cluster is dominated by terms related to adaptive immunity (adaptive immune response, V(D)J recombination) and inflammatory signaling (TNF-mediated signaling, I-kappaB phosphorylation), with additional hints of transcriptional control via histone modification and chromatin remodeling (H4-K16 acetylation, H4-K20 methylation, histone catabolic process). The combination suggests proteins involved in immune signaling intertwined with chromatin regulation during activation, despite some obsolete terms. ","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":5},{"id":"GO:2000620","count":5},{"id":"GO:0070512","count":5},{"id":"GO:0033151","count":5},{"id":"GO:0033209","count":5}]},{"hash":"1980855083390402430","title":"Proteoglycan biosynthesis and inositol metabolism","description":"This cluster is enriched for proteoglycan biosynthetic processes (heparan sulfate and chondroitin sulfate) and for inositol metabolism (inositol metabolic and inositol phosphate biosynthetic processes), suggesting a link between glycosaminoglycan production and inositol-associated signaling. The remaining terms point to broader metabolic and stress-response contexts, but the strongest shared theme centers on proteoglycan biosynthesis and related carbohydrate metabolism.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0016036","count":2},{"id":"GO:0071454","count":2},{"id":"GO:0010909","count":2},{"id":"GO:0006020","count":2},{"id":"GO:0006144","count":2}]},{"hash":"1995175818361766159","title":"Developmental differentiation and morphogenesis","description":"This cluster is driven by GO terms related to development and differentiation across tissues, notably mammary gland morphogenesis, mesoderm/angioblast differentiation, and cell fate commitment, suggesting a cohesive theme of tissue development. While immune signaling terms appear (T cell signaling and MHC II regulation), the dominant pattern points to developmental morphogenesis rather than a single immune pathway.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007638","count":5},{"id":"GO:0050860","count":5},{"id":"GO:0060762","count":5},{"id":"GO:0007464","count":5},{"id":"GO:0097152","count":5}]},{"hash":"1411348816643270200","title":"Amino Acid and One-Carbon Metabolism","description":"This cluster centers on amino acid metabolism, especially the L-methionine cycle, and catabolism/processing of one-carbon compounds such as formate and methylamine. Many GO terms are obsolete, but the remaining signals point to a cohesive metabolic module for amino acid turnover and C1 metabolism.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0033353","count":2},{"id":"GO:0051572","count":2},{"id":"GO:0009097","count":1},{"id":"GO:0046392","count":1}]},{"hash":"452263426195875565","title":"Nuclear receptor\u2013driven transcription and development","description":"This cluster\u2019s terms center on DNA-templated transcription and transcriptional regulation, with clear links to nuclear receptor signaling pathways (retinoic acid receptor, PPAR) and circadian regulation of gene expression, plus several development-related terms. The pattern suggests a cohesive theme of transcriptional control modulated by nuclear receptors and hormone signaling that influences developmental processes.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070384","count":2},{"id":"GO:2000020","count":2},{"id":"GO:0006351","count":2},{"id":"GO:0060534","count":2},{"id":"GO:0017055","count":2}]},{"hash":"69144810985835674","title":"Developmental morphogenesis and cytoskeletal regulation","description":"The top terms point to development-related processes (sprouting angiogenesis, nephric duct morphogenesis) alongside cell cycle and cytoskeletal dynamics (mitotic cell cycle, actin filament capping, protein oligomerization). This suggests a cluster enriched for proteins involved in tissue development and structural regulation, rather than a single precise function.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051260","count":3},{"id":"GO:1904908","count":2},{"id":"GO:0002043","count":2},{"id":"GO:0072178","count":2},{"id":"GO:0051016","count":2}]},{"hash":"1829592988161937958","title":"Developmental gene regulation and chromatin","description":"This cluster's top GO terms cluster around developmental processes (male gonad development, brain development, multicellular organism growth) and gene regulation (negative regulation of transcription by RNA polymerase II) with chromatin organization signals (heterochromatin formation). Together they suggest a theme of developmental regulation driven by transcription control and chromatin state, with related processes such as apoptosis regulation and signaling that can influence growth and differentiation.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":4},{"id":"GO:0008584","count":4},{"id":"GO:0035264","count":4},{"id":"GO:0043066","count":3},{"id":"GO:0031508","count":2}]},{"hash":"2040390213446098366","title":"Embryonic Development and Morphogenesis","description":"The GO terms cluster around early development and tissue shaping, including craniofacial (roof of mouth), hair follicle morphogenesis, mesoderm development, epithelial-to-mesenchymal transitions in heart and placenta contexts, and left-right patterning, indicating a shared role in embryogenesis and morphogenesis rather than a single tissue-specific function.","confidence":"High","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0060021","count":5},{"id":"GO:0031069","count":4},{"id":"GO:0007498","count":4},{"id":"GO:0003198","count":4},{"id":"GO:0060806","count":4}]},{"hash":"1031141009806496166","title":"Transmembrane Transporters with Diverse Substrates","description":"The top GO terms are all centered on transmembrane transport across membranes for a wide range of substrates (nitrate, phosphate, arabinose, galactose, vitamin, xenobiotic, potassium) and a vesicular transport step for neurotransmitters. This points to a coherent theme of membrane transporter proteins handling diverse substrates, rather than a single substrate-specific function. Thus, a label reflecting diverse membrane transport activity best represents this cluster.","confidence":"High","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0006855","count":3},{"id":"GO:0015757","count":3}]},{"hash":"1350521596692451871","title":"Embryonic development and tissue morphogenesis","description":"The GO terms cluster around tissue and organ formation (collagen fibril organization, cartilage and hair follicle morphogenesis, trophoblast/placental differentiation, endocrine system development) and developmental regulation (negative regulation of angiogenesis, differentiation). A couple of general cellular processes (splicing, ribosomal export) appear as background noise, but the dominant signal points to developmental morphogenesis and lineage specification.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030199","count":2},{"id":"GO:0016525","count":2},{"id":"GO:0000055","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0060707","count":2}]},{"hash":"680215665403786261","title":"ER-Golgi trafficking and organelle organization","description":"The top GO terms cluster around the secretory pathway and organelle assembly, including ER-dependent peroxisome organization, COPI coating of Golgi vesicles, Golgi ribbon formation, and regulation of protein exit from the ER, as well as secretion-related processes like Wnt protein secretion. A few terms touch on development or disease, but the dominant signal is intracellular protein sorting and trafficking between the ER and Golgi. This supports labeling the cluster as ER-Golgi trafficking and organelle organization.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032581","count":2},{"id":"GO:0051292","count":2},{"id":"GO:0048205","count":1},{"id":"GO:0002121","count":1},{"id":"GO:0007311","count":1}]},{"hash":"1012794832007961283","title":"Apoptosis signaling and stress responses","description":"The strongest terms describe apoptotic processes (extrinsic apoptotic signaling, glial and nurse cell apoptosis) and related growth pathway regulation (hippo signaling). Additional terms point to cellular stress responses (to xenobiotics, glucocorticoids, cobalt ions, amino acids), which often intersect with apoptosis, supporting a label focused on apoptosis signaling and stress responses.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"wound healing","top_go_terms":[{"id":"GO:0008635","count":4},{"id":"GO:0045476","count":4},{"id":"GO:0035329","count":4},{"id":"GO:0042493","count":4},{"id":"GO:0032025","count":4}]},{"hash":"1368003126306393242","title":"T cell\u2013dendritic cell activation and adhesion","description":"This cluster is labeled based on the dominant immune-related terms: T cell costimulation, monocyte chemotaxis, and positive regulation of dendritic cell differentiation, plus heterophilic cell-cell adhesion, which together point to immune cell communication and activation (T cell\u2013APC interactions). A few chromatin-assembly-related terms appear sparingly, but do not define the core theme of this cluster.","confidence":"Medium","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0031295","count":3},{"id":"GO:0002548","count":2},{"id":"GO:2001200","count":2},{"id":"GO:0007157","count":2},{"id":"GO:0070231","count":2}]},{"hash":"709441373778983310","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":5,"triangles":1,"max_degree":3,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0042254","count":3},{"id":"GO:0007155","count":2},{"id":"GO:0000028","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0000461","count":2}]},{"hash":"1321355326730441525","title":"Unknown","description":"Unknown","confidence":"","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0036093","count":1},{"id":"GO:0034414","count":1},{"id":"GO:0018189","count":1},{"id":"GO:0019243","count":1},{"id":"GO:0009395","count":1}]},{"hash":"2151508399785384540","title":"Negative Regulation of Signaling and Protein Turnover","description":"The top GO terms cluster around inhibition of signaling pathways (NF-kappaB, TNF, HIF-1alpha) and processes governing protein modification and degradation (neddylation, ubiquitin transferase activity, proteolysis), plus membrane trafficking (plasma membrane to endosome transport). This suggests a theme of regulators that dampen signaling and control protein turnover at or near the membrane.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000009","count":2},{"id":"GO:1902306","count":2},{"id":"GO:0032088","count":2},{"id":"GO:0048227","count":2},{"id":"GO:1902072","count":2}]},{"hash":"2240379086831950816","title":"NF-kappaB signaling and ubiquitination","description":"Core GO terms point to NF-kappaB pathway activation and regulation (NF-kappaB-inducing kinase, I-kappaB phosphorylation, TNF-mediated signaling) together with innate immune response. The inclusion of K63-linked ubiquitination and autoubiquitination indicates regulation of this signaling by ubiquitin modifications.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051865","count":4},{"id":"GO:2001238","count":3},{"id":"GO:1901253","count":3},{"id":"GO:0051092","count":3},{"id":"GO:0070534","count":3}]},{"hash":"2056998449908856271","title":"Golgi trafficking and ER export regulation","description":"The cluster is characterized by GO terms tied to Golgi and ER-to-Golgi trafficking, including COPI-coated Golgi vesicles, Golgi ribbon formation, and enhanced ER-to-Golgi protein exit, pointing to a shared role in vesicle trafficking and secretion. Some developmental or unrelated terms appear but are likely noise; overall, the dominant signal is Golgi apparatus\u2013related trafficking.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042619","count":2},{"id":"GO:0048205","count":1},{"id":"GO:0002121","count":1},{"id":"GO:0007311","count":1}]},{"hash":"458238487269822923","title":"Integrin signaling and ECM adhesion","description":"Top GO terms cluster around integrin-mediated signaling and adhesion to the extracellular matrix (collagen fibril organization, cell-cell adhesion via integrins). Additional terms hint at developmental and immune contexts (myelination in PNS, keratinocyte differentiation, TNF response, Notch processing, leukocyte tethering), suggesting a coherent theme of integrin-ECM\u2013driven signaling coordinating adhesion and tissue development/immune interactions in peripheral tissues. The manganese response and oxidation-reduction term are less central but may reflect stress-related signaling. ","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0007229","count":2},{"id":"GO:0022011","count":2},{"id":"GO:0010042","count":2},{"id":"GO:0030199","count":2},{"id":"GO:0030216","count":2}]},{"hash":"1563587948154264687","title":"Innate immune signaling and ubiquitin-mediated proteolysis","description":"The dominant GO terms point to antiviral/innate immune activity, paired with ubiquitin-dependent protein turnover (ubiquitination, autoubiquitination, ERAD). This suggests a cluster of proteins involved in immune defense linked to regulated proteolysis. A few terms about peroxisomal import and receptor catabolism likely reflect broader turnover processes rather than core functions.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0046621","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0016558","count":3}]},{"hash":"342915609868669671","title":"Wound Healing and Angiogenesis Regulation","description":"The GO terms cluster around wound repair and vascular remodeling, including wound healing, leukocyte migration in inflammation, TNF response, endothelial tube morphogenesis and its regulation, T cell chemotaxis, and negative/positive regulation of angiogenesis, with smooth muscle proliferation supporting vascular remodeling. This points to a coordinated inflammatory and vascular remodeling program during healing. A few stress-related terms (heat, ATP) reflect general cellular responses accompanying repair. ","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":"wound healing","top_go_terms":[{"id":"GO:0034605","count":3},{"id":"GO:1901509","count":3},{"id":"GO:0042060","count":3},{"id":"GO:0034351","count":3},{"id":"GO:0071318","count":3}]},{"hash":"98961935503707521","title":"Calcium signaling and ion transport","description":"The GO terms point to Ca2+-related processes, including release of sequestered calcium, various cation/metal ion transport, and regulation of muscle contraction, all of which depend on calcium signaling. A few terms (nerve formation, pheromone response) are less directly connected, but the dominant theme appears to be calcium handling and ion transport.","confidence":"Medium","size":5,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0033138","count":3},{"id":"GO:0031448","count":3},{"id":"GO:0045822","count":3},{"id":"GO:0021650","count":3},{"id":"GO:1990573","count":3}]},{"hash":"1955139669862367959","title":"Nuclear RNA Processing and Chromatin Organization","description":"The proteins in this cluster are enriched for chromatin- and nucleus-associated processes: chromosome organization (3 hits) alongside histone mRNA catabolic process and RNA repair, plus regulation of ribonuclease activity and nucleotide catabolism (pyrimidine dNTP and ITP), all pointing to nuclear RNA metabolism linked to chromatin maintenance. A few viral defense terms are present but less central. Overall, the theme combines chromatin organization with nuclear RNA processing.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051276","count":3},{"id":"GO:0009213","count":3},{"id":"GO:0006193","count":3},{"id":"GO:0071044","count":1},{"id":"GO:0042245","count":1}]},{"hash":"394156619819968555","title":"ER stress-related protein folding and heat response","description":"The cluster centers on proteostasis and stress responses: unfolded protein response, ER stress, heat/shock responses, chaperone-assisted refolding, and translation regulation during ER stress, with additional associations to protein targeting to membranes. While a couple terms are peripheral (mesoderm formation, parathyroid hormone stimulus), the dominant pattern is the ER stress/protein folding quality control theme.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0006469","count":4},{"id":"GO:0031204","count":3},{"id":"GO:0070389","count":3},{"id":"GO:0001707","count":3},{"id":"GO:1900035","count":3}]},{"hash":"1240492956876761738","title":"Neurodevelopment and Synaptic Signaling","description":"The top terms cluster around neural development and synaptic formation, notably positive regulation of PI3K/AKT and ERK pathways, synapse assembly, and axonogenesis in CNS neurons. Although there are some broader terms (angiogenesis, mesoderm formation), the strongest and most coherent signal is neural development and synaptic signaling.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051897","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0043552","count":2},{"id":"GO:0051965","count":2},{"id":"GO:0021952","count":2}]},{"hash":"848310408633053766","title":"DNA Repair and Organelle Protein Import","description":"The cluster combines GO terms tied to genome maintenance during the cell cycle (cell division, mitotic DNA replication checkpoint signaling, UV-damage repair, translesion synthesis) with terms for targeting and importing proteins into mitochondria and peroxisomes (matrix import, inner membrane insertion, and regulation of mitochondrial DNA replication), plus related microtubule dynamics and mRNA export. This suggests a theme of genome maintenance in conjunction with organelle protein trafficking, though some terms (e.g., mRNA export, microtubule regulation) are less tightly linked, rendering the association plausible but not absolute.","confidence":"Medium","size":5,"edges":4,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":3},{"id":"GO:0006406","count":3},{"id":"GO:0070987","count":2},{"id":"GO:0031117","count":2},{"id":"GO:0016562","count":2}]},{"hash":"1643157630030127846","title":"Potassium Transport and Calcium Signaling","description":"The top GO terms cluster around potassium ion transport/import and related regulation, plus a calcium-response term, indicating a shared role in K+ homeostasis and calcium-linked signaling. Some terms (transcription regulation, bud neck localization) appear peripheral, but the dominant theme is ion transport and calcium signaling, justifying this label.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"protein localization to plasma membrane","top_go_terms":[{"id":"GO:0006813","count":5},{"id":"GO:0006355","count":3},{"id":"GO:0086002","count":3},{"id":"GO:1990573","count":3},{"id":"GO:1902303","count":3}]},{"hash":"185441454142971446","title":"Liver Fatty-Acid and Amino-Acid Catabolism","description":"The cluster centers on hepatic energy metabolism, with GO terms for branched-chain amino acid catabolism (valine, leucine), fatty acid beta-oxidation (long- and medium-chain), carnitine biosynthesis, and glycogen biosynthesis, plus a starvation-response signal, all pointing to liver-specific substrate utilization and energy production. The presence of liver development further supports a hepatic context, though some terms reflect adult metabolic function rather than development per se.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":3},{"id":"GO:0006552","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0042594","count":2},{"id":"GO:0033540","count":2}]},{"hash":"2178089709672789330","title":"Immune response regulation","description":"The terms cluster around immune system modulation, including adaptive immune response, regulation of T-helper cell differentiation, inhibition of RIG-I signaling, and regulation of LPS signaling, plus spleen development and ubiquitin-dependent protein turnover, suggesting a core role in immune signaling and development.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":"autophagy","top_go_terms":[{"id":"GO:0042787","count":5},{"id":"GO:0002250","count":4},{"id":"GO:0039536","count":4},{"id":"GO:0048536","count":4},{"id":"GO:0035372","count":3}]},{"hash":"111170768467676326","title":"Unknown","description":"The top GO terms are highly heterogeneous, including RNA modification (tRNA/rRNA methylation), transcription regulation, antibiotic response, viral transcription, meiosis-related processes, and signaling. There is no dominant, cohesive biological theme linking the proteins, so a single interpretable label is not supported.","confidence":"","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0017000","count":2},{"id":"GO:0006400","count":2},{"id":"GO:0036265","count":2},{"id":"GO:0000154","count":2},{"id":"GO:0046677","count":2}]},{"hash":"912522561853230211","title":"Inner ear and neuromast development","description":"The top GO terms cluster around development and function of sensory organs involved in hearing and balance (inner ear morphogenesis, semicircular canal morphogenesis, neuromast development, posterior lateral line migration) and sensory perception of sound, plus neuronal synaptic regulation (AMPA receptor activity, short-term plasticity), indicating a cohesive theme of auditory/vestibular organ development and function. A few terms (e.g., p53-mediated apoptotic signaling) are less directly connected but do not override the main theme.","confidence":"High","size":5,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000311","count":1},{"id":"GO:0040037","count":1},{"id":"GO:0048172","count":1},{"id":"GO:0042771","count":1},{"id":"GO:0048920","count":1}]},{"hash":"1681308932630075684","title":"Innate immune activation and phagocytosis","description":"The terms cluster around immune and inflammatory responses: cellular response to LPS, neutrophil extravasation, phagocytosis, and granzyme B production, along with host\u2013pathogen interaction (symbiont entry into host cell). Despite a couple of outliers (iron homeostasis, development-related processes), the dominant signal is innate immune activation and leukocyte recruitment, with phagocytic and cytotoxic effector components. ","confidence":"Medium","size":5,"edges":6,"triangles":2,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0035157","count":2},{"id":"GO:0046718","count":2},{"id":"GO:2000391","count":2},{"id":"GO:0071283","count":2},{"id":"GO:0071663","count":2}]},{"hash":"2070011760953524952","title":"Unknown","description":"The listed GO terms cover amino acid biosynthesis (L-threonine), methionine salvage, regulation of ubiquinone/tocopherol-related pathways, lipid homeostasis, antibiotic response, phosphorylation, and even a cerebellar development term, with several obsolete annotations. There is no clear, single biological process uniting these terms, suggesting the proteins do not share a cohesive function; thus, the cluster is best described as Unknown.","confidence":"","size":5,"edges":4,"triangles":0,"max_degree":4,"top_function":null,"top_go_terms":[{"id":"GO:0009088","count":1},{"id":"GO:0019509","count":1},{"id":"GO:0010795","count":1},{"id":"GO:0021692","count":1},{"id":"GO:0019284","count":1}]},{"hash":"1799516599829142960","title":"Oocyte translational control and oskar mRNA localization","description":"The GO terms point to translation initiation/reinitiation and preinitiation complex formation, coupled with oskar mRNA localization to the pole plasm and related oocyte-specific processes (e.g., karyosome formation), indicating a module tied to translational regulation during oogenesis and mRNA localization rather than general metabolism.","confidence":"High","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000335","count":1},{"id":"GO:0045451","count":1},{"id":"GO:0010738","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1900363","count":1}]},{"hash":"13536751932291635","title":"Complement-mediated immune activation and regulation","description":"The top GO terms cluster around the complement system (classical pathway) and proteolytic activation (zymogen activation), along with immune-regulatory processes like negative IL-8 production and apoptotic cell clearance. These points suggest a coherent theme of innate immune protease cascades and immune modulation, even though a few terms touch on barrier or developmental processes. Overall, the strongest signal is complement/zymogen\u2013driven immune activity.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006958","count":4},{"id":"GO:0003050","count":4},{"id":"GO:2000483","count":3},{"id":"GO:0043277","count":3},{"id":"GO:0031638","count":3}]},{"hash":"256968420994502965","title":"Neuronal development and microtubule regulation","description":"The cluster\u2019s top GO terms are dominated by neuronal development (neuron development, dentate gyrus development, thigmotaxis) and microtubule-related processes (alpha-tubulin acetylation, regulation of microtubule cytoskeleton organization), pointing to roles in brain development and cytoskeletal dynamics. While there are other terms present (chromatin localization, DNA replication regulation, NLRP3 inflammasome assembly), they are less central to the dominant theme. This supports labeling the cluster with a neuronal development and cytoskeleton focus.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009097","count":2},{"id":"GO:0071929","count":2},{"id":"GO:0070507","count":2},{"id":"GO:0021542","count":2},{"id":"GO:0045598","count":2}]},{"hash":"1315199931636041541","title":"Chromatin organization and mitosis","description":"Based on the top GO terms, the proteins are linked to chromatin localization, regulation of DNA replication, histone acetylation, and mitotic chromosome behaviors (cohesion, condensation). These point to a chromatin organization/cell-cycle module. The plant-development terms (anther development, leaf phyllotaxy) and bone regeneration likely reflect broader annotation or multifunctional proteins rather than a coherent developmental program for this small cluster.","confidence":"Medium","size":5,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071168","count":1},{"id":"GO:0006275","count":1},{"id":"GO:0034421","count":1},{"id":"GO:0007062","count":1},{"id":"GO:0048653","count":1}]},{"hash":"1446450312791555562","title":"Unknown","description":"The GO terms span several unrelated biological areas (lipid/sterol metabolism specific to fungi, neuronal myelin maintenance, sebaceous gland differentiation, nitrate and nitric oxide metabolism, mitochondrial inheritance, and some obsolete terms), with no clear, shared function or organism-specific theme connecting the four proteins. This suggests annotation noise rather than a cohesive cluster function.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0055114","count":4},{"id":"GO:0000001","count":4}]},{"hash":"1381379932514595278","title":"Fungal sterol and lipid biosynthesis","description":"The strongest terms in the cluster are ergosterol biosynthetic process and MIPC metabolic process, plus unsaturated fatty acid biosynthetic process, which together point to lipid and sterol metabolism typical of fungi. Some terms (nitric oxide/nitrate assimilation) are broader metabolic processes and less directly linked, but do not override the clear lipid/sterol theme. ","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0001949","count":4},{"id":"GO:0032286","count":4},{"id":"GO:0042128","count":4},{"id":"GO:0000001","count":4},{"id":"GO:0006809","count":4}]},{"hash":"450143233353661734","title":"Cardiac calcium signaling","description":"The GO terms cluster around calcium handling and muscle contraction in cardiac tissue, including regulation of calcium release channels, force of heart contraction, and ventricular muscle morphogenesis, with PI signaling acting upstream. Some terms (e.g., synaptic potentiation, cell budding) are more distantly related, but the strongest shared theme is cardiac calcium dynamics and contractile regulation. This label succinctly captures the core function suggested by the major GO terms.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0060291","count":3},{"id":"GO:0051343","count":2},{"id":"GO:0007114","count":2},{"id":"GO:0048015","count":2},{"id":"GO:1903479","count":2}]},{"hash":"63525575169615472","title":"Golgi-ER Vesicle Trafficking and Secretion","description":"The GO terms point to vesicle formation and transport through the Golgi and ER-Golgi intermediate compartment, including Golgi-to-plasma membrane transport, ERGIC fusion, retrograde Golgi transport, Golgi ribbon formation, and exocytic events, as well as secretory processes like mast cell histamine release and eosinophil degranulation. Insulin response and autophagosome docking further support a broader role in regulated membrane trafficking and secretion. This cohesive theme suggests a Golgi-centered vesicle trafficking and secretion function for the cluster.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043001","count":2},{"id":"GO:1900483","count":2},{"id":"GO:0032869","count":2},{"id":"GO:1990668","count":2},{"id":"GO:0098967","count":2}]},{"hash":"2095446091754437399","title":"Wnt-Regulated Development and Differentiation","description":"The terms point to Wnt signaling as a central theme, with associated processes in bone (osteoblast differentiation), immune (monocyte differentiation), CNS development, and vascular/inflammatory contexts, plus regulatory controls on transcription and protein\u2013DNA interactions. This suggests a cluster focused on Wnt-mediated development and differentiation.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0045669","count":1},{"id":"GO:0060633","count":1},{"id":"GO:0016055","count":1},{"id":"GO:0045657","count":1},{"id":"GO:0007417","count":1}]},{"hash":"1207064283477646478","title":"Folate and purine biosynthesis","description":"These GO terms are dominated by folate-related one-carbon metabolism and nucleotide production (10-formyltetrahydrofolate biosynthetic process, tetrahydrofolate interconversion, purine nucleobase/nucleotide biosynthetic processes). This points to a shared function in generating one-carbon units for purine synthesis, i.e., folate-driven nucleotide biosynthesis. Some peripheral terms (histidine biosynthesis, neutrophil homeostasis, development) may reflect broader annotation or multi-functional proteins, but the core signal supports the folate-purine biosynthesis theme.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0009257","count":3},{"id":"GO:0001780","count":3},{"id":"GO:0009113","count":3},{"id":"GO:0048702","count":3},{"id":"GO:0035999","count":3}]},{"hash":"480124729771636416","title":"Fungal cell wall biosynthesis and morphogenesis","description":"The presence of fungal-specific terms like fungal-type cell wall beta-glucan biosynthetic process and cell morphogenesis strongly points to fungal development and cell wall construction. Additional terms such as post-translational targeting to membranes, unfolded protein response, and ER stress-related pathways suggest associated stress management during growth. DNA replication and other growth-related terms support a broader developmental program in fungi. Overall, these proteins appear linked to fungal growth, morphogenesis, and cell wall biosynthesis with accompanying stress responses. ","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0000902","count":4},{"id":"GO:0006260","count":4},{"id":"GO:1902037","count":2},{"id":"GO:0031204","count":2},{"id":"GO:0034620","count":2}]},{"hash":"1469342212824340402","title":"Endocytic trafficking and signaling","description":"The top GO terms point to endocytosis and endosomal sorting (regulation of synaptic vesicle endocytosis; multivesicular body sorting). Also, signaling-related terms (Rap signaling, JNK pathway regulation) suggest roles in coordinating vesicle trafficking with intracellular signaling. Some terms reference developmental processes (epithelial adhesion, hair follicle placode formation, axon extension), implying this cluster captures proteins that link endocytic trafficking to development and morphogenesis. In short, a vesicle trafficking\u2013coupled signaling cluster active in developmental contexts.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:1900242","count":4},{"id":"GO:0090136","count":3},{"id":"GO:0060789","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0045773","count":3}]},{"hash":"1314683842066307428","title":"RNA Splicing and Transcription Machinery","description":"The proteins cluster around core gene-expression processes: multiple splicing-related terms (prespliceosome assembly, spliceosomal complex disassembly, mRNA splicing via spliceosome) and transcription regulation by RNA Pol II, plus supporting roles in rRNA maturation and ribosome assembly. Also linked are transcription-coupled DNA repair and stress responses (SOS and cold), suggesting a broader nuclear RNA processing and transcription network that is modulated under stress. Overall, they appear to reflect interconnected activities of RNA processing, transcription regulation, and RNA maturation rather than a single isolated function.","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"DNA replication","top_go_terms":[{"id":"GO:0045944","count":4},{"id":"GO:0000398","count":4},{"id":"GO:0009432","count":3},{"id":"GO:0070417","count":3},{"id":"GO:0042255","count":3}]},{"hash":"14630366545492643","title":"Neural development and signaling","description":"This cluster\u2019s GO terms largely point to nervous system development and function: dopamine response, neuron maturation, nerve branching morphogenesis, regulation of excitatory postsynaptic potential, and Wnt signalosome assembly. Intracellular trafficking and mechanotransduction terms may support neuronal transport and signaling. A couple of terms (kidney size, Th1 immune response) seem less central and could reflect pleiotropy or noise. Overall, the theme is neural development and signaling.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:1903351","count":3},{"id":"GO:1903125","count":3},{"id":"GO:2000172","count":3},{"id":"GO:0035564","count":3},{"id":"GO:1905279","count":3}]},{"hash":"699496957164439838","title":"Embryonic neural and organ development","description":"The top GO terms point to neural development (cerebellum, neuron migration, Purkinje-related differentiation, nerve formation) as well as development in other organs (kidney/metanephric tissues, endodermal fate, heart-associated Purkinje myocytes). This suggests a broad embryonic organogenesis theme spanning neural and non-neural tissues, rather than a single tissue-specific function. Ceramide biosynthesis may reflect supporting lipid metabolism during development.","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021549","count":4},{"id":"GO:0001764","count":4},{"id":"GO:0042663","count":3},{"id":"GO:0003168","count":3},{"id":"GO:1900212","count":3}]},{"hash":"1705865617630112313","title":"Unknown","description":"The GO terms span very different biology (RNA stability, pain response, telomere maintenance, SNARE regulation, dendritic cell differentiation, IL-12 signaling, chloroplast thylakoid transport, synaptic plasticity, and Notch-related heart development) with no clear, shared function or pathway connecting all members. With edges and triangles both zero, there is no apparent network cohesion to justify a more specific label.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043488","count":2},{"id":"GO:0048265","count":2},{"id":"GO:1904355","count":1},{"id":"GO:0035544","count":1},{"id":"GO:0002268","count":1}]},{"hash":"1296402430959855913","title":"Viral translation initiation and reinitiation factors","description":"The proteins cluster around translation initiation and reinitiation processes, including IRES-dependent viral translation, formation of the translation preinitiation complex, and translation reinitiation. This suggests a shared function in controlling viral or IRES-driven translation, possibly involving host factors that interact with viral translation mechanisms, despite some obsolete terms in the set. Therefore the label reflects the dominant functional theme.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0075525","count":3},{"id":"GO:1900363","count":3},{"id":"GO:0075522","count":3},{"id":"GO:0002188","count":3},{"id":"GO:0001731","count":3}]},{"hash":"367885046976898069","title":"Developmental Epigenetic Regulation","description":"The cluster\u2019s terms point to control of gene expression through chromatin modifications (histone acetylation/methylation, imprinting) combined with developmental processes (gastrulation, skeletal morphogenesis). While some terms are obsolete or broader (GTPase signaling, RNA processing, cell fusion, mitotic segregation), the strongest cohesive theme is developmental gene regulation via epigenetic mechanisms, justifying this label.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0007369","count":2},{"id":"GO:0043982","count":2},{"id":"GO:0006349","count":2},{"id":"GO:0061087","count":2}]},{"hash":"349616977328792929","title":"Developmental growth and actin cytoskeleton regulation","description":"Although the terms span pigmentation and mRNA transport, the strongest recurring themes are organismal development, cell proliferation, and actin cytoskeleton remodeling (Arp2/3 regulation and GTPase signaling), with links to ubiquitin-mediated protein turnover. Together they define a cluster of developmental growth coupled to cytoskeletal dynamics.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043473","count":2},{"id":"GO:0000278","count":2},{"id":"GO:2000060","count":2},{"id":"GO:0007275","count":2},{"id":"GO:0090344","count":2}]},{"hash":"2099696206113453428","title":"Protein Methylation and Phenylpropanoid Biosynthesis","description":"Top terms point to methylation events (N-terminal peptidyl-serine/glycine/alanine methylation and methylation in general) alongside biosynthesis of phenylpropanoid-derived compounds (flavonol, lignin) and melatonin, suggesting a shared theme around methyltransferase activity connected to plant secondary metabolite production. Some outliers (daunorubicin biosynthesis, interferon-beta regulation) exist but do not override the core theme. ","confidence":"Medium","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051555","count":3},{"id":"GO:0009809","count":3},{"id":"GO:0030187","count":3},{"id":"GO:0032259","count":3},{"id":"GO:0035572","count":2}]},{"hash":"624836392187797055","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0051301","count":4},{"id":"GO:0016558","count":3},{"id":"GO:0030433","count":3},{"id":"GO:0045116","count":2},{"id":"GO:0031146","count":2}]},{"hash":"30748069111352601","title":"Nucleotide Salvage and Biosynthesis","description":"The cluster shows strong signals for nucleotide metabolism, including AMP salvage, nucleoside phosphate phosphorylation, ADP/CDP biosynthesis, and purine ribonucleotide interconversion (ITP, etc.). The presence of brain and liver development terms is likely contextual rather than core to the cluster\u2019s primary function. Overall, the dominant theme is nucleotide salvage and biosynthesis activity.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0044209","count":3},{"id":"GO:0046940","count":2},{"id":"GO:0007420","count":2},{"id":"GO:0046705","count":2},{"id":"GO:0015951","count":2}]},{"hash":"1053159066621602328","title":"Developmental signaling and oligomerization","description":"Top GO terms point to multicellular organism development and gastrulation, along with a GPCR-PLC\u2013activating signaling pathway, suggesting a cluster enriched for developmental signaling. The inclusion of protein homooligomerization supports the idea of protein complexes forming during development. Some obsolete chromatin-related terms appear as peripheral noise rather than a core theme. Overall, a developmental signaling and protein assembly theme best fits this cluster despite limited interaction data.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007275","count":2},{"id":"GO:0051260","count":2},{"id":"GO:0007200","count":2},{"id":"GO:0007369","count":1},{"id":"GO:0043982","count":1}]},{"hash":"1557657775523832916","title":"Methylation and RNA Modification","description":"This cluster is dominated by GO terms describing various methylation processes: peptidyl-lysine methylation (including trimethylation and dimethylation) and N-terminal peptidyl-glycine methylation, plus rRNA methylation. While a few other terms appear (retina development, heterochromatin formation), the common thread across the terms is methylation-related enzymatic activity, suggesting the proteins may function in methylation pathways affecting both proteins and RNA. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003407","count":1},{"id":"GO:0014823","count":1},{"id":"GO:0018023","count":1},{"id":"GO:0018013","count":1},{"id":"GO:0018027","count":1}]},{"hash":"1692998824492619317","title":"ECM Adhesion and Hemidesmosome Assembly","description":"The top GO terms cluster around extracellular matrix interactions and adhesion structures, including hemidesmosome assembly, collagen fibril organization, and cell-matrix adhesion/spreading. Additional terms on angiogenesis, axon regeneration, and anoikis regulation reflect contexts where stable ECM contacts govern migration, survival, and remodeling. Altogether, these proteins likely participate in organizing and maintaining cell-ECM adhesion and basal membrane structures.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031581","count":4},{"id":"GO:0030199","count":4},{"id":"GO:0048692","count":4},{"id":"GO:0002042","count":4},{"id":"GO:0035987","count":4}]},{"hash":"371654355867303650","title":"Integrin signaling and epithelial adhesion","description":"The top GO terms cluster around membrane-associated processes: regulation of protein tyrosine kinase activity, localization to the plasma membrane, integrin-mediated signaling, receptor internalization, and epithelial cell\u2013cell adhesion/hemidesmosome assembly. Together these imply a cluster of proteins involved in adhesion to the extracellular matrix via integrins and related signaling at the plasma membrane, with some development-related terms that may reflect broader adhesion roles.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0061097","count":4},{"id":"GO:0090004","count":3},{"id":"GO:0007229","count":3},{"id":"GO:0031623","count":3},{"id":"GO:0090136","count":2}]},{"hash":"1725245278282365363","title":"Nucleotide and nitrogen metabolism with phosphorylation","description":"This cluster centers on nucleotide metabolism (adenosine, purine catabolic processes) and NAD/NADP biosynthesis, plus polyphosphate metabolism and nitrogen-related amino acid processes (ornithine transport, arginine catabolic). The presence of phosphorylation and dephosphorylation terms suggests regulatory modification events linked to these metabolic pathways. The absence of edges implies a broader, pathway-level association rather than direct protein-protein interactions, supporting a metabolism-focused cluster rather than a tight complex.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0016310","count":3},{"id":"GO:0046085","count":2},{"id":"GO:0006195","count":2},{"id":"GO:0016311","count":2},{"id":"GO:0006741","count":1}]},{"hash":"1226129903170850704","title":"Organic acid catabolism and carbon metabolism","description":"The cluster\u2019s top GO terms are dominated by catabolic processes for organic acids (carnitine and oxalate) and a carbon fixation pathway, suggesting a shared focus on metabolism of carbon-containing compounds. A few peripheral terms related to signaling and cell polarity are present but less frequent, so the core theme is organic acid and carbon metabolism.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042413","count":2},{"id":"GO:0043427","count":2},{"id":"GO:0033611","count":2},{"id":"GO:1904179","count":1},{"id":"GO:0072673","count":1}]},{"hash":"145184593988966701","title":"Metanephric kidney development and tubule morphogenesis","description":"This cluster is dominated by GO terms tied to kidney development and the morphogenesis of metanephric tubules (proximal/distal), along with related developmental vascular processes like lymph vessel morphogenesis. While some immune/coagulation terms appear, the strongest signal centers on renal organogenesis and tubule formation, suggesting the proteins cluster around metanephric kidney development.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007596","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0019221","count":2},{"id":"GO:0007156","count":2},{"id":"GO:0001822","count":2}]},{"hash":"774704845206159138","title":"Calcium and ion transport in muscle signaling","description":"The top terms cluster around calcium release and various ion transports (calcium, potassium, zinc, sodium), coupled with regulation of skeletal and cardiac muscle contraction, suggesting a common theme of ion homeostasis driving muscle physiology. Some terms also touch on development-related signaling, but the dominant pattern is ion transport linked to muscle function.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031448","count":2},{"id":"GO:0045822","count":2},{"id":"GO:0021650","count":2},{"id":"GO:1990573","count":2},{"id":"GO:0071577","count":2}]},{"hash":"1161133745934445773","title":"Immune Response and Ubiquitin-Dependent Protein Catabolism","description":"This cluster is dominated by GO terms tied to antiviral defense and immune responses (defense response to virus, innate and adaptive immune response) and ubiquitin-dependent protein catabolic processes, suggesting a theme of immune signaling coupled with regulated protein turnover. Some terms touch on epigenetic regulation and microtubule localization, which can support immune cell function, but the core pattern points to immune defense linked to ubiquitin-mediated proteolysis.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0051607","count":3},{"id":"GO:0045087","count":3},{"id":"GO:0035372","count":2},{"id":"GO:0002250","count":2}]},{"hash":"2260129849335709087","title":"Adaptive immune signaling and ubiquitin regulation","description":"This cluster centers on terms related to adaptive immune response and immune signaling pathways (TNF, I-kappaB, NF-kB, JNK) with additional emphasis on ubiquitin-dependent protein degradation and autoubiquitination, suggesting a functional group involved in regulating immune signaling through ubiquitin-mediated protein turnover. Some listed terms are obsolete noise (e.g., X chromosome inactivation), but the dominant theme is immune signaling intertwined with ubiquitin regulation.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0002250","count":3},{"id":"GO:0070512","count":3},{"id":"GO:1900095","count":3},{"id":"GO:0042787","count":3},{"id":"GO:0046328","count":3}]},{"hash":"865290885220613740","title":"DNA replication and cell cycle regulation","description":"The top GO terms cluster around core cell cycle processes and DNA maintenance, notably G1/S transition, DNA replication, regulation of nucleotide-excision repair, and SCF-dependent ubiquitin-proteasomal degradation. These collectively point to proteins involved in driving cell cycle progression and ensuring genome integrity, with ancillary terms reflecting broader developmental contexts. Overall, the dominant signal is replication and cell cycle control, making this a coherent label despite a few outlier terms.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000082","count":2},{"id":"GO:0006260","count":2},{"id":"GO:2000819","count":1},{"id":"GO:0031146","count":1},{"id":"GO:0007295","count":1}]},{"hash":"1942425145628302984","title":"Unknown","description":"The Top Terms are highly diverse, ranging from cartilage and adipose/fat cell development to cardiac muscle morphogenesis, circadian temperature homeostasis, and even behavior, with several obsolete GO terms. There is no clear unifying biological function or pathway linking these proteins, and there are no edges connecting them in this cluster. This suggests the group does not reflect a cohesive, well-defined function, so the label Unknown is appropriate. ","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1901522","count":4},{"id":"GO:0090188","count":2},{"id":"GO:0003417","count":2},{"id":"GO:1904179","count":2},{"id":"GO:1903208","count":2}]},{"hash":"1215759317511244862","title":"Embryogenesis and placental development with transcriptional regulation","description":"The top GO terms point to embryonic development processes (trophoblast differentiation, placenta development, endocardial EMT, cartilage morphogenesis, endocrine system development) combined with nuclear regulation activities (negative regulation of RNA polymerase II, Pol II regulatory region binding, splicing, ribosomal export). This suggests a cohesive theme of developmental gene regulation in embryonic tissues, especially placenta-related lineages.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0035264","count":2},{"id":"GO:0000055","count":2},{"id":"GO:1903026","count":2},{"id":"GO:0060707","count":2}]},{"hash":"1395380560096559830","title":"Developmental regulation via ubiquitin-mediated proteolysis","description":"Interpretation: The top GO terms cluster around ubiquitin-dependent protein catabolic processes and multicellular development (including gastrulation), with supporting hints from microtubule localization and protein oligomerization. This suggests proteins that coordinate turnover and assembly of proteins during development, potentially linking cytoskeletal dynamics to morphogenetic regulation. Immune-related terms are present but appear less central to the core theme. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0007275","count":3},{"id":"GO:0051260","count":3},{"id":"GO:0007369","count":2},{"id":"GO:0035372","count":2}]},{"hash":"873330875524649735","title":"Actin-Microtubule Cytoskeletal Dynamics","description":"The top GO terms point to cytoskeletal organization and dynamics, including formin-nucleated actin assembly, actin crosslinking, mitotic actomyosin contractile ring formation, and localization to microtubule minus ends, with additional connections to muscle contraction and developmental morphogenesis. While there are peripheral terms related to signaling and metabolism, the strongest and most coherent signal across the cluster is cytoskeletal remodeling and interaction between actin and microtubule systems. This justifies a label centered on cytoskeletal dynamics.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"cell adhesion","top_go_terms":[{"id":"GO:0016055","count":4},{"id":"GO:0032496","count":4},{"id":"GO:0031448","count":3},{"id":"GO:0070649","count":3},{"id":"GO:0006569","count":3}]},{"hash":"394032216186497719","title":"Ear and Autonomic Nervous System Development with Neural Crest","description":"Top GO terms cluster around ear development (otic placode, ear development) and neural crest\u2013driven autonomic nervous system development (neural crest migration, sympathetic neuron projection), including vestibulocochlear nerve organization and axon guidance; a few terms related to immunity and circadian rhythms are present but less central. This points to a cohesive theme of ear and nervous system development with neural crest involvement.","confidence":"High","size":4,"edges":4,"triangles":1,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048745","count":2},{"id":"GO:1905040","count":1},{"id":"GO:0060982","count":1},{"id":"GO:0021649","count":1},{"id":"GO:0001868","count":1}]},{"hash":"572722216120945694","title":"Organogenesis and vascular morphogenesis","description":"This cluster\u2019s terms cluster around organ and vascular development, including coronary artery morphogenesis, loop of Henle development, and cardiac vascular smooth muscle cell development, as well as left-right axis specification. There are also regulatory (transcription by RNA Pol II) and stress-related terms (inflammatory response, hypoxia) that commonly accompany developmental processes. Overall, the shared theme is organogenesis with a focus on vascular formation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0006954","count":3},{"id":"GO:0000122","count":3},{"id":"GO:0055114","count":3},{"id":"GO:0001666","count":2},{"id":"GO:0070986","count":2}]},{"hash":"1984753602437694089","title":"Unknown","description":"The top GO terms are highly diverse, spanning neural structure, vesicle transport, immune isotype switching, chromatin modification, plant hormone biosynthesis, RNA localization, cholangiocyte proliferation, and core signaling pathways, with no clear cohesive function uniting them. This suggests a heterogeneous or noisy annotation rather than a single shared function, so a specific label cannot be confidently assigned.","confidence":"","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0021685","count":3},{"id":"GO:0072383","count":3},{"id":"GO:0045190","count":3},{"id":"GO:0070535","count":3},{"id":"GO:0009190","count":3}]},{"hash":"591501787758161185","title":"RNA and protein modification processes","description":"Top GO terms point to RNA/tRNA modification (selenium, wobble thiolation) alongside protein modification (sumoylation, neddylation) and translation. This suggests a cluster centered on regulation via molecular modifications that tune translation and protein activity. Some terms about differentiation and growth appear as broader phenotypes, but the shared thread is post-transcriptional/post-translational regulation.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:0045116","count":1},{"id":"GO:0070329","count":1},{"id":"GO:2000220","count":1},{"id":"GO:0018192","count":1}]},{"hash":"68871232593027353","title":"Oogenesis mRNA localization and translational control","description":"These proteins cluster around pole plasm oskar mRNA localization and various aspects of translation regulation, including initiation, reinitiation, and preinitiation complex formation, with additional connections to axis specification in ovarian development. This suggests a shared theme of localized mRNA translation during oogenesis.","confidence":"High","size":4,"edges":6,"triangles":4,"max_degree":3,"top_function":"regulatory ncRNA-mediated gene silencing","top_go_terms":[{"id":"GO:0032869","count":4},{"id":"GO:0045451","count":4},{"id":"GO:0075525","count":4},{"id":"GO:1900363","count":4},{"id":"GO:0008069","count":4}]},{"hash":"1159142389596761722","title":"Unknown","description":"The GO terms listed are spread across diverse developmental processes (interneuron, kidney, liver development), signaling pathways (EGF receptor, Smoothened), and organelle/homeostasis processes (lysosomal organization, copper homeostasis, vesicle targeting). There is no single cohesive biological function or pathway linking the terms, and the cluster has no edges, 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:0021830","count":2},{"id":"GO:0001822","count":2},{"id":"GO:0051519","count":2},{"id":"GO:0006623","count":2},{"id":"GO:0007173","count":2}]},{"hash":"743025618545031361","title":"Signaling Regulation and Apoptosis","description":"This cluster centers on terms indicating modulation of key signaling pathways (JNK cascade, canonical Wnt signaling, GTPase activity) and apoptosis, suggesting proteins that regulate diverse signaling networks and programmed cell death. Other terms hint at protein complex formation (tetramerization) and some cardiac/ion transport aspects, but the main theme revolves around signaling regulation and apoptosis.","confidence":"Medium","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0051262","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0090263","count":2},{"id":"GO:0043547","count":2},{"id":"GO:0006915","count":2}]},{"hash":"121240482054940998","title":"Immune activation and inflammatory signaling","description":"The top GO terms cluster around immune responses and signaling pathways: positive regulation of JNK/ERK cascades, chemokine and IL-8 production, immunoglobulin-mediated response, NF-kappaB-related regulation, and defense against Gram-positive bacteria. These collectively point to immune activation and inflammatory signaling rather than development.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":"inflammatory response","top_go_terms":[{"id":"GO:0007275","count":4},{"id":"GO:0046330","count":3},{"id":"GO:0050871","count":3},{"id":"GO:0070374","count":3},{"id":"GO:0090197","count":3}]},{"hash":"932957196136642616","title":"GPCR Signaling Regulation","description":"The cluster\u2019s top GO terms cluster around modulation of G protein-coupled receptor (GPCR) pathways\u2014desensitization, internalization, and regulation of signaling through adenylate cyclase\u2014plus a downstream link to cardiac muscle function, which commonly involves GPCR signaling. While a few terms touch on Wnt or NF-kappaB pathways, the dominant theme is GPCR signaling regulation, making this a plausible shared function for the proteins. ","confidence":"Medium","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0071877","count":1},{"id":"GO:0085033","count":1},{"id":"GO:0060048","count":1},{"id":"GO:0035414","count":1},{"id":"GO:0002031","count":1}]},{"hash":"698092410362753999","title":"Nuclear RNA processing and decay","description":"This cluster centers on nuclear RNA metabolism, including transcription termination linked to RNA processing, histone mRNA decay, nuclear mRNA surveillance, snoRNA and miRNA processing, rRNA processing, and decapping/deadenylation pathways, suggesting a cohesive role in RNA maturation and quality control within the nucleus.","confidence":"High","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0030847","count":1},{"id":"GO:0030846","count":1},{"id":"GO:0071044","count":1},{"id":"GO:1901408","count":1},{"id":"GO:0071028","count":1}]},{"hash":"700791504874996150","title":"Fatty acid beta-oxidation and energy metabolism","description":"The cluster is dominated by GO terms for fatty acid catabolism and beta-oxidation (including long- and medium-chain FA catabolic processes) and related pathways such as carnitine biosynthesis, which together point to lipid-driven energy metabolism. Some terms about glycogen biosynthesis and amino acid catabolism appear as peripheral connections to cellular energy balance, and a liver development term likely reflects tissue context. Overall, the common theme is lipid-based energy production rather than a single specific substrate pathway. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0042594","count":1},{"id":"GO:0033540","count":1},{"id":"GO:0042758","count":1},{"id":"GO:0006574","count":1}]},{"hash":"1870179782125043226","title":"UV-Induced DNA Repair and SOS Response","description":"The GO terms cluster around DNA damage repair pathways (nucleotide-excision, base-excision, recombination) and mutagenesis processes (translesion synthesis, SOS response) in response to UV-C, indicating a cohesive UV-induced DNA damage response module.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006297","count":2},{"id":"GO:0070987","count":1},{"id":"GO:0006261","count":1},{"id":"GO:0042276","count":1},{"id":"GO:0071494","count":1}]},{"hash":"1206408669642408692","title":"Rho GTPase signaling and cytoskeleton remodeling","description":"Based on the prominent GO terms, the cluster centers on Rho GTPase\u2013mediated signaling and regulation of the actin cytoskeleton, including pathways like semaphorin-plexin signaling and responses to mechanical stimuli. While a few unrelated terms appear, the core theme is cytoskeletal dynamics driven by Rho signaling.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":2},{"id":"GO:0032889","count":1},{"id":"GO:0007266","count":1},{"id":"GO:0035023","count":1},{"id":"GO:0071260","count":1}]},{"hash":"477617635724256463","title":"Immune cell trafficking and cytotoxic activation","description":"This cluster is characterized by GO terms for chemotaxis and recruitment of immune cells (monocytes, B cells, NK cells) across endothelium and adhesion interactions, plus signaling via JNK and cytotoxic effector functions such as granzyme B production. Negative regulation of MHC class II biosynthesis suggests modulation of antigen presentation, consistent with a coordinated immune activation and survival program. Overall, these terms point to a theme of immune cell trafficking and cytotoxic readiness.","confidence":"High","size":4,"edges":5,"triangles":2,"max_degree":3,"top_function":"wound healing","top_go_terms":[{"id":"GO:0035759","count":3},{"id":"GO:0090026","count":3},{"id":"GO:0051041","count":3},{"id":"GO:0035769","count":3},{"id":"GO:0050918","count":3}]},{"hash":"1067623683254197752","title":"Ribosome Biogenesis and Translation","description":"The top GO terms are dominated by translation and ribosome biogenesis, pointing to proteins involved in protein synthesis machinery. Some other terms appear obsolete or Peripheral (e.g., viral interaction or signaling terms), but the central theme remains ribosome function and assembly.","confidence":"High","size":4,"edges":2,"triangles":0,"max_degree":1,"top_function":"ribosome biogenesis","top_go_terms":[{"id":"GO:0006412","count":3},{"id":"GO:0042254","count":3},{"id":"GO:0010738","count":2},{"id":"GO:0045716","count":2},{"id":"GO:0044830","count":2}]},{"hash":"620100280986440013","title":"Nutrient-responsive mitochondrial metabolism","description":"The GO terms cluster around metabolic processes (ketone body biosynthesis, acyl-CoA metabolism, leucine biosynthesis, benzoate/phenol catabolism) and responses to nutrient availability (response to starvation, response to nutrient), plus involvement in mitochondrial organization. This suggests a core function in energy/metabolic activities within mitochondria modulated by nutrient status, with some membrane-associated transport context hinted by sodium ion transport. Therefore, a concise label capturing metabolism linked to nutrient and mitochondrial function is appropriate.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0046951","count":1},{"id":"GO:0042594","count":1},{"id":"GO:0009098","count":1},{"id":"GO:0043640","count":1},{"id":"GO:0019336","count":1}]},{"hash":"2106468749433285319","title":"Calcium signaling and cation transport in muscle","description":"The top GO terms cluster around ion transport (potassium, zinc, monoatomic cations), calcium handling (release of sequestered calcium into cytosol), and muscle-related regulation of contraction, which together point to calcium signaling and general ion transport as the core theme. Some terms (nerve formation, pheromone response) are less aligned and may reflect broader or non-specific annotations, but the dominant pattern supports this function.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031448","count":2},{"id":"GO:0045822","count":2},{"id":"GO:0021650","count":2},{"id":"GO:1990573","count":2},{"id":"GO:0071577","count":2}]},{"hash":"1179798951578451235","title":"Unknown","description":"The top GO terms are highly heterogeneous, spanning Rho signaling regulation, chromosome organization, nucleotide catabolism, base-excision repair, growth factor signaling, cell wall biosynthesis, xenobiotic response, and more. With no clear shared pathway or functional theme and no interactions among the proteins, there isn\u2019t a coherent cluster label to assign.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035024","count":2},{"id":"GO:0051276","count":1},{"id":"GO:0009213","count":1},{"id":"GO:0006193","count":1},{"id":"GO:0048009","count":1}]},{"hash":"1547754188398425688","title":"Unknown","description":"The associated GO terms cover diverse processes\u2014protein transport, signaling, neuronal development, cell proliferation, endocytosis, and host interactions\u2014without a single unifying function, so no specific biological function defines the cluster.","confidence":"","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042998","count":1},{"id":"GO:0010923","count":1},{"id":"GO:0020021","count":1},{"id":"GO:0090188","count":1},{"id":"GO:0035924","count":1}]},{"hash":"95837616371200737","title":"Chromatin remodeling and histone modification","description":"The proteins cluster around chromatin-related processes: nucleosome assembly/disassembly and histone acetylation regulation (including sperm DNA decondensation and regulation of stem cell division), which together point to chromatin remodeling and epigenetic control. The lack of direct interaction edges among them does not negate this shared functional theme, as GO terms emphasize chromatin dynamics over other pathways.","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000617","count":2},{"id":"GO:0071442","count":2},{"id":"GO:2000035","count":2},{"id":"GO:0031116","count":2},{"id":"GO:0006337","count":2}]},{"hash":"2104545518617875053","title":"Cytoplasmic Translation Initiation","description":"These GO terms collectively point to the core machinery of cytoplasmic translation and its initiation steps: formation of the translation preinitiation complex, cytoplasmic translation, translation reinitiation, and IRES-dependent viral translational initiation/termination-reinitiation. A regulatory ncRNA-mediated gene silencing term also appears, suggesting RNA-level control of translation. Despite some noise (obsolete terms and a single immune differentiation term), the dominant theme is components and regulation of the translation apparatus, consistent with a functional cluster of translation-related proteins.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0046632","count":1},{"id":"GO:0002181","count":1},{"id":"GO:0075525","count":1},{"id":"GO:1900363","count":1},{"id":"GO:0075522","count":1}]},{"hash":"1773790413006814993","title":"Ubiquitin-mediated immune signaling","description":"The cluster shows enrichment for ubiquitination-related terms (K63-linked ubiquitination, polyubiquitination, autoubiquitination) and innate immune defense terms (defense response to virus, innate immune response), plus granzyme-related apoptotic signaling, implying a role in ubiquitin-dependent signaling within immune responses.","confidence":"High","size":4,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0070534","count":2},{"id":"GO:0000209","count":2},{"id":"GO:0051865","count":2},{"id":"GO:0030433","count":2},{"id":"GO:0000122","count":2}]},{"hash":"360866151176173219","title":"Membrane trafficking and angiogenic signaling","description":"The cluster combines intracellular transport processes (ER-Golgi ceramide transport, endosomal transport, ARF signaling) with signaling pathways (PI3K/Akt) and vascular-related development terms (VEGF response, labyrinthine layer blood vessel development, placenta development), suggesting a group of proteins centered on membrane trafficking that modulates angiogenic signaling.","confidence":"Medium","size":4,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035621","count":2},{"id":"GO:0035924","count":2},{"id":"GO:0010748","count":2},{"id":"GO:0007217","count":2},{"id":"GO:0060716","count":2}]},{"hash":"1113031680909256085","title":"Regulatory signaling and sumoylation","description":"These proteins appear to function mainly in regulating other proteins and pathways rather than performing a single enzymatic task. The top GO terms emphasize modulation of signaling pathways (negative regulation of TNF signaling, negative regulation of androgen receptor signaling), regulation of membrane potential, and post-translational modification via protein sumoylation and autosumoylation. There are also terms related to development and DNA/chromosome processes, but the common thread is regulatory control of signaling and protein activity through SUMO-related mechanisms. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0003007","count":2},{"id":"GO:1990683","count":2},{"id":"GO:1902174","count":2},{"id":"GO:0045838","count":2},{"id":"GO:0033235","count":2}]},{"hash":"1933127825823144320","title":"RNA splicing and transcription regulation","description":"Top terms point to RNA processing (RNA splicing, alternative splicing regulation, mRNA stabilization) and regulation of transcription initiation, with additional signals of stress-related pathways (apoptotic signaling) and circadian/hormone-related regulation. This pattern suggests the proteins cluster around nuclear RNA processing and transcription control, with some connections to stress responses. ","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2001022","count":1},{"id":"GO:0000381","count":1},{"id":"GO:0048255","count":1},{"id":"GO:0008380","count":1},{"id":"GO:2001244","count":1}]},{"hash":"954833367957599406","title":"Developmental morphogenesis and actin dynamics","description":"This cluster is dominated by GO terms tied to developmental processes (seed morphogenesis, anterior head development, paramesonephric duct development) and actin cytoskeleton regulation (actin filament bundle assembly and regulation of actin filament depolymerization), suggesting the proteins participate in development with coordinated cytoskeletal remodeling. Some terms are ancillary or species-specific, but the core theme revolves around development linked to actin dynamics.","confidence":"Medium","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048317","count":2},{"id":"GO:2000691","count":2},{"id":"GO:0051017","count":2},{"id":"GO:0030579","count":2},{"id":"GO:0061205","count":2}]},{"hash":"816187459533151194","title":"Unknown","description":"Unknown","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0009636","count":2},{"id":"GO:0045429","count":2},{"id":"GO:0044205","count":2},{"id":"GO:0055114","count":2},{"id":"GO:0010942","count":1}]},{"hash":"2270388280253138948","title":"Unknown","description":"The GO terms span multiple, unrelated developmental processes across different tissues (cardiac, heart morphogenesis, hindbrain, midgut) along with assorted metabolic and signaling activities (cAMP response, amino acid and ethanol metabolism). With no single cohesive function emerging and only a small network (3 edges, no triangles), there isn\u2019t a clear unifying theme to assign a specific label.","confidence":"","size":4,"edges":3,"triangles":0,"max_degree":3,"top_function":null,"top_go_terms":[{"id":"GO:0048738","count":1},{"id":"GO:0051591","count":1},{"id":"GO:0003007","count":1},{"id":"GO:0006537","count":1},{"id":"GO:0030902","count":1}]},{"hash":"1200072536858243995","title":"RNA processing and transcription regulation","description":"The cluster\u2019s top GO terms are dominated by transcription regulation and RNA processing activities (regulation of DNA-templated transcription, spliceosomal assembly, cytoplasmic mRNA processing body assembly, and poly(A) tail shortening), indicating a cohesive theme around RNA metabolism and gene expression control. Additional terms related to ubiquitination and necroptotic signaling suggest broader regulatory networks, but the RNA-processing signals are the strongest common thread. Confidence: Medium","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006355","count":2},{"id":"GO:0010606","count":1},{"id":"GO:0000289","count":1},{"id":"GO:0035523","count":1},{"id":"GO:0000245","count":1}]},{"hash":"418158033657552991","title":"DNA Damage Response and Immunoglobulin Diversification","description":"The terms point to DNA damage response and repair processes (p53-mediated apoptosis, cell cycle regulation, end-joining repair, helicase activity) and, notably, antibody gene diversification (isotype switching and somatic hypermutation), suggesting a cluster centered on DDR coupled with immunoglobulin diversification. ","confidence":"High","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042771","count":2},{"id":"GO:0007050","count":2},{"id":"GO:0000735","count":1},{"id":"GO:0045190","count":1},{"id":"GO:0016446","count":1}]},{"hash":"1065592237996534755","title":"Muscle and sensory GPCR-cGMP signaling","description":"Top terms show muscle-related processes (sarcomere organization, cardiac muscle contraction, potassium transport) alongside GPCR signaling linked to cGMP and sensory phenotypes (olfactory behavior, thermotaxis/aerotaxis, axon regulation). This points to a shared theme of GPCR-cGMP\u2013mediated signaling coordinating excitability in both muscle and sensory neurons. Confidence: Medium.","confidence":"","size":4,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045214","count":3},{"id":"GO:0043052","count":3},{"id":"GO:0009454","count":3},{"id":"GO:0060048","count":3},{"id":"GO:0010754","count":3}]},{"hash":"1354772132761821134","title":"p53-mediated cell cycle regulation and protein stability","description":"This cluster centers on GO terms related to p53 signaling, cell cycle regulation, DNA-damage response (actinomycin D), translation, and protein stabilization/ubiquitin-related control, together suggesting a p53-dependent coordination of cell-cycle arrest and protein homeostasis under stress.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0006412","count":2},{"id":"GO:1901798","count":1},{"id":"GO:0071157","count":1},{"id":"GO:0050821","count":1},{"id":"GO:1904667","count":1}]},{"hash":"324262737269511179","title":"Septin Ring\u2013Mediated Budding Yeast Division","description":"The top terms center on septin ring assembly, bud neck localization, division septum formation, and exit from mitosis, which together point to cytokinesis and cell cycle progression in budding yeast. Other terms like ribosome biogenesis and embryonic cell shape are broader background annotations, but the strongest signal is septin-driven organization at the bud neck during cell division and mating.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016476","count":2},{"id":"GO:0042254","count":2},{"id":"GO:0031175","count":2},{"id":"GO:0000921","count":2},{"id":"GO:0007224","count":2}]},{"hash":"526121053986515630","title":"Unknown","description":"The listed GO terms spread across ribosomal export, cell cycle, ERK signaling, sensory and visual perception and learning, cocaine response, macrophage chemotaxis, protein phosphorylation, and heart development, showing no single cohesive function linking the proteins. Therefore there isn't a reliable, specific label for this cluster.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000055","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0019233","count":2},{"id":"GO:0007601","count":2}]},{"hash":"1607905055514379632","title":"Muscle contraction signaling and ion transport","description":"The top GO terms collectively point to mechanisms controlling muscle contraction (positive regulation of fast-twitch skeletal muscle fiber contraction; negative regulation of heart contraction) and signaling via cAMP-dependent protein kinase activity, along with membrane potential stabilization and transmembrane transport of ions (K+, Zn2+, and other cations) and calcium release from intracellular stores. This combination suggests a cohesive role in excitation-contraction coupling and ionic homeostasis in muscle and related tissues, with the nerve formation term appearing as a less direct outlier. Overall, the cluster seems best described by muscle contraction signaling coupled with ion transport.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000481","count":2},{"id":"GO:0031448","count":2},{"id":"GO:0045822","count":2},{"id":"GO:0021650","count":2},{"id":"GO:0030322","count":2}]},{"hash":"1068254393542678971","title":"Neuronal signaling and morphogenesis","description":"The top GO terms cluster around neuronal signaling (negative regulation of synaptic vesicle exocytosis, evoked neurotransmitter secretion, cellular response to dopamine) and developmental/morphogenetic processes (canonical Wnt signaling, hair follicle placode formation, trabecula morphogenesis), suggesting a theme of neural signaling linked to tissue development and morphogenesis.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:2000301","count":3},{"id":"GO:0055091","count":3},{"id":"GO:0090136","count":3},{"id":"GO:0032707","count":3},{"id":"GO:0060789","count":3}]},{"hash":"1242610442007510755","title":"Chromatin modification and gene regulation","description":"The cluster features GO terms tied to chromatin state and transcription regulation, notably TORC1 signaling (growth-related) and histone modification events (histone H4-K8 and H4-K16 acetylation, H3-K27 methylation). Although several terms are labeled obsolete and a few items (gastrulation, chemotaxis, mitotic segregation) appear less related, the recurring theme is chromatin remodeling influencing gene expression. The lack of interactions suggests these annotations may reflect broad or indirect roles, but the chromatin-focused terms provide the strongest representative function for the cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0038202","count":2},{"id":"GO:0007369","count":1},{"id":"GO:0043982","count":1},{"id":"GO:0006349","count":1},{"id":"GO:0050918","count":1}]},{"hash":"598512136116744292","title":"Ubiquitin-dependent proteolysis and autophagy","description":"The cluster\u2019s GO terms repeatedly reference ubiquitin-mediated protein catabolism (including deubiquitination and ubiquitin-dependent degradation via sorting pathways) and autophagy-related processes (autophagosome engulfment). This points to a cohesive theme of regulated protein turnover through ubiquitin-proteasome and autophagic pathways, with additional terms likely reflecting secondary or context-specific roles.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0030579","count":2},{"id":"GO:0045723","count":2},{"id":"GO:0090085","count":2},{"id":"GO:0043162","count":2},{"id":"GO:2000235","count":2}]},{"hash":"854829945826732594","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0043547","count":3},{"id":"GO:0051301","count":2},{"id":"GO:0000278","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0019236","count":1}]},{"hash":"451402657609895692","title":"Unknown","description":"The top GO terms are diverse (protein degradation, immune response, muscle structure, plant signaling and light responses, circadian rhythms, and chromosome segregation) with no edges or triangles linking the proteins, indicating no single cohesive function for this cluster. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0042092","count":2},{"id":"GO:0045214","count":2},{"id":"GO:0009742","count":2},{"id":"GO:0009638","count":2}]},{"hash":"2236038895830007030","title":"Spliceosome Assembly and RNA Processing","description":"This cluster is dominated by GO terms tied to splicing and RNA processing (spliceosomal snRNP and spliceosome assembly, mRNA splicing, spliceosomal complex assembly) along with RNA maturation steps (tRNA processing, rRNA maturation) and transcription termination. Together, these indicate a core function in RNA metabolism, especially splicing and processing of various RNA species. Some terms (e.g., ABA response, heterochromatin formation) are peripheral and less indicative of the main theme. Overall, the cluster appears to represent RNA splicing and processing machinery.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000290","count":2},{"id":"GO:0006369","count":2},{"id":"GO:0070317","count":2},{"id":"GO:0000387","count":2},{"id":"GO:0045292","count":2}]},{"hash":"215286146369887186","title":"VEGF-responsive epithelial proliferation and signaling","description":"The cluster's GO terms converge on epithelial growth and morphogenesis, including cellular response to VEGF stimulus, mammary gland epithelial cell proliferation, and epithelial proliferation involved in lung morphogenesis, with PI3K/AKT signaling and JNK cascade, and transcytosis supporting vesicular transport in epithelia; a few terms about neuron maturation may reflect noise. Overall it points to growth signaling in epithelial tissues.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":3},{"id":"GO:0090188","count":3},{"id":"GO:0035924","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0045056","count":3}]},{"hash":"1704419178948801459","title":"Yeast cell cycle and ubiquitin-mediated turnover","description":"The top GO terms cluster around the mitotic cell cycle, budding cell growth, and ubiquitin-dependent protein turnover (including regulation of deubiquitination and ubiquitin-mediated catabolic pathways via MVB sorting). These collectively suggest a common function in cell-cycle progression coupled with controlled protein degradation. Some terms (like pheromone response and neuron guidance) are less coherent with yeast biology, but the dominant theme supports a cell-cycle/ubiquitin turnover cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0000278","count":3},{"id":"GO:0019236","count":2},{"id":"GO:0030579","count":2},{"id":"GO:0060271","count":2},{"id":"GO:0045723","count":2}]},{"hash":"1642087405788028039","title":"Unknown","description":"The GO terms span a wide range of processes (telomere capping, SNARE regulation, hormonal response, dendritic cell differentiation, IL-12 regulation, chloroplast thylakoid import, synaptic plasticity, angiogenesis, and organ morphogenesis) with no clear, single function tying the proteins together. There isn\u2019t a cohesive theme to justify a specific, descriptive label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1904355","count":1},{"id":"GO:0035544","count":1},{"id":"GO:0071372","count":1},{"id":"GO:0002268","count":1},{"id":"GO:0045083","count":1}]},{"hash":"845278098796457154","title":"Unknown","description":"The Top Terms span diverse processes (host-symbiont interactions, pancreatic secretion regulation, VEGF response, JNK signaling, transcytosis, ubiquinone biosynthesis, neuron/maturation, axon growth, and epithelial proliferation in various organs), with no single cohesive function linking the proteins. This scattered set makes a meaningful, specific cluster label difficult, so Unknown is most appropriate.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0020021","count":2},{"id":"GO:0090188","count":2},{"id":"GO:0035924","count":2},{"id":"GO:0046330","count":2},{"id":"GO:0045056","count":2}]},{"hash":"288918661201077489","title":"Nuclear DNA Replication and Transcription Regulators","description":"This cluster centers on nuclear processes, with DNA replication (GO:0006260) and regulation of DNA-templated transcription (GO:0006355) appearing most strongly. Additional terms point to protein folding stress responses and Fe-S cluster assembly, suggesting supporting roles in genome maintenance and transcription control.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006260","count":2},{"id":"GO:0070389","count":2},{"id":"GO:0006355","count":2},{"id":"GO:0000902","count":1},{"id":"GO:1902037","count":1}]},{"hash":"1840020159362750883","title":"Chemotaxis and Signaling","description":"The top GO terms are dominated by neutrophil chemotaxis and positive regulation of cell migration, with a central theme of signal transduction, indicating a cluster enriched for proteins involved in movement and signaling. Additional terms mention xenobiotic response and lipid metabolism regulation, suggesting broader but related roles in cellular stress and metabolic signaling; some terms (like root hair development and plant glycosylation) seem less connected and may reflect broad annotations or cross-kingdom matches. Overall, the cluster appears to reflect cell migration and signaling functions with ancillary metabolic responses.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0030593","count":3},{"id":"GO:0010977","count":3},{"id":"GO:0042493","count":3},{"id":"GO:0050994","count":3},{"id":"GO:0071677","count":3}]},{"hash":"1647939197094988434","title":"Developmental signaling and angiogenesis","description":"The cluster shows strong representation of angiogenesis (endothelial processes) and endothelial chemotaxis to FGF, along with broader developmental themes (nervous system and multicellular organism development) and MAPK pathway regulation (ERK/MAPK, MAPKKK). This pattern suggests proteins function together in FGF-driven developmental signaling that promotes vascular and tissue morphogenesis rather than a single specialized process.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001525","count":2},{"id":"GO:0070374","count":2},{"id":"GO:0000187","count":2},{"id":"GO:0007523","count":2},{"id":"GO:0060484","count":2}]},{"hash":"933811007749258128","title":"Neural cell adhesion and morphogenesis","description":"This cluster's GO terms coalesce around adhesion-related processes (epithelial cell-cell adhesion, hemidesmosome assembly, substrate adhesion-dependent spreading) and morphogenesis/migration in neural contexts (dendrite morphogenesis, radial glial scaffold formation, hemocyte migration, negative chemotaxis). The terms collectively point to proteins functioning in cell adhesion and shape-change during neural development and related cell movement, rather than a single pathway.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090136","count":3},{"id":"GO:0048714","count":3},{"id":"GO:0043149","count":3},{"id":"GO:0038027","count":3},{"id":"GO:0035099","count":3}]},{"hash":"746976538549568546","title":"Cardiac Development and Heart Rate Regulation","description":"The cluster\u2019s top GO terms cluster around cardiovascular development and function, notably cardiac vascular smooth muscle cell development, sinus venosus morphogenesis, and regulation of heart rate by chemical signal, suggesting a cardiovascular-focused role despite some noisy or obsolete terms.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2000820","count":3},{"id":"GO:2000227","count":3},{"id":"GO:0060948","count":3},{"id":"GO:0010374","count":3},{"id":"GO:0006959","count":3}]},{"hash":"2176899610475989828","title":"Epithelial Adhesion and Morphogenesis","description":"Most of the top GO terms cluster around epithelial cell behavior, especially cell\u2013cell adhesion and hemidesmosome assembly, along with epithelial morphogenesis such as prostate gland epithelium formation and mesodermal differentiation. While a few terms touch neural differentiation or host\u2013symbiont interactions, the strongest signal points to epithelial adhesion and tissue organization, suggesting these proteins associate in an epithelial adhesion/morphogenesis module.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090136","count":2},{"id":"GO:0031581","count":2},{"id":"GO:0048333","count":2},{"id":"GO:0046718","count":2},{"id":"GO:0097186","count":2}]},{"hash":"489388117640854092","title":"DNA Repair and Organelle Protein Import","description":"These terms indicate a focus on DNA damage response and replication integrity (error-free translesion synthesis, UV-damage excision repair, mitotic DNA replication checkpoint signaling) alongside organelle-related processes (protein import into peroxisome matrix and mitochondrial inner membrane insertion). While there is some mix with microtubule dynamics, the dominant themes are DNA repair and organelle protein handling, supporting this label.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070987","count":2},{"id":"GO:0031117","count":2},{"id":"GO:0016562","count":2},{"id":"GO:0090296","count":2},{"id":"GO:0070914","count":2}]},{"hash":"1728295924811574165","title":"Alcohol and sugar metabolism","description":"The top GO terms include ethanol oxidation/catabolism and pyruvate fermentation to ethanol, along with fructose biosynthesis and other carbon-source metabolic processes, suggesting a shared theme of alcohol- and sugar-related metabolism. Some peripheral terms (copper response, extracellular signaling) are present but less central, so the label reflects the main tendency with some noise.","confidence":"Low","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0055114","count":2},{"id":"GO:0000947","count":1},{"id":"GO:0006069","count":1},{"id":"GO:0006068","count":1},{"id":"GO:0033859","count":1}]},{"hash":"931960913859915070","title":"Epithelial Differentiation and Adhesion","description":"This set centers on keratinocyte differentiation (epithelial cells) and structural adhesion features like hemidesmosome assembly, with receptor clustering and signaling components (e.g., GPCR acetylcholine signaling). Together, these terms point to epithelial tissue differentiation and cell\u2013matrix/cell\u2013cell adhesion processes, with additional development-related terms (embryo implantation, mesodermal differentiation) that fit within a broader tissue-development context. Some terms (host interaction, coagulation) are outliers but do not overturn the central epithelial/adherence theme.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007213","count":3},{"id":"GO:0043113","count":3},{"id":"GO:0030216","count":2},{"id":"GO:0019800","count":2},{"id":"GO:0007566","count":2}]},{"hash":"1056143864681997766","title":"Transmembrane Transporters","description":"This cluster is characterized by GO terms for transmembrane transport of diverse substrates (malate, succinate, citrate, phosphate) and ions (sodium, potassium, arsenite). The common theme is membrane transporters handling small metabolites and ions, suggesting the proteins function as transporters across cellular membranes. The lack of interactions in this cluster doesn't undermine the shared transport-related annotation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0015743","count":2},{"id":"GO:2000185","count":2},{"id":"GO:0006814","count":2},{"id":"GO:0015744","count":2},{"id":"GO:0098656","count":2}]},{"hash":"136879774130601034","title":"Cardiac development and TGF-\u03b2 signaling","description":"GO terms center on transforming growth factor beta receptor signaling and SMAD complex assembly, tied to heart morphogenesis and ventricular cardiac muscle morphogenesis, with references to cardiac conduction and calcium channel regulation. While a few terms are broader (e.g., sumoylation, protein folding), the dominant theme is heart development and signaling pathways affecting cardiac formation and function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007183","count":3},{"id":"GO:0007179","count":3},{"id":"GO:0003007","count":2},{"id":"GO:0055010","count":2},{"id":"GO:0060315","count":2}]},{"hash":"1210032658507738108","title":"Chromatin Remodeling and Transcription Regulation","description":"The top GO terms point to chromatin remodeling (GO:0006338) and transcriptional control (GO:0045892, GO:0042993), with supporting hints from histone modification and DNA repair annotations, suggesting a nuclear complex involved in chromatin state changes and gene expression regulation, despite a few unrelated terms likely due to annotation noise.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042993","count":1},{"id":"GO:0045892","count":1},{"id":"GO:0043968","count":1},{"id":"GO:0006338","count":1},{"id":"GO:0006281","count":1}]},{"hash":"1120267775437526304","title":"Embryonic organogenesis","description":"The top GO terms point to developmental and organ-formation processes across multiple tissues (nephron/mesenchyme, heart, brain, somites, nerves, and patterning regions), indicating a cluster associated with embryonic organ development rather than a single pathway. This broad theme fits an \u201cembryonic organogenesis\u201d label, though the diversity of terms suggests a medium level of confidence.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042663","count":2},{"id":"GO:0003168","count":2},{"id":"GO:1900212","count":2},{"id":"GO:0046513","count":2},{"id":"GO:0021623","count":2}]},{"hash":"42213312174475788","title":"Ubiquitination control of NF-kappaB and TLR signaling","description":"These proteins show consistent enrichment for ubiquitination-related processes and immune signaling regulation. The GO terms span sumoylation, various ubiquitin linkages (K48, K63, K6), autoubiquitination, and ubiquitin-dependent protein catabolism, along with positive regulation of MyD88-dependent TLR signaling and canonical NF-\u03baB pathways, plus TNF signaling and negative regulation of necroptosis. Together, they point to a theme of ubiquitin-based modulation of inflammatory signaling, particularly NF-\u03baB/TLR axes.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0016925","count":2},{"id":"GO:0034126","count":2},{"id":"GO:0043123","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0051865","count":2}]},{"hash":"1943166990699965666","title":"Unknown","description":"The terms span developmental processes, various metabolic pathways, and mitochondrial function, but there is no clear shared function tying the proteins together.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0007369","count":1},{"id":"GO:0046098","count":1},{"id":"GO:2000179","count":1},{"id":"GO:0046653","count":1},{"id":"GO:0042493","count":1}]},{"hash":"2072160235523970405","title":"Multi-tissue developmental differentiation","description":"The terms center on differentiation and organ/tissue development across multiple contexts (amacrine cell differentiation, floor plate development, somitogenesis, lung vasculature and alveolus development, lymph vessel development). The RNA polymerase II transcription term supports a general developmental gene-expression program. Other terms like stress and immune regulation are peripheral, so a broad developmental focus best explains the cluster.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0035881","count":3},{"id":"GO:0033504","count":3},{"id":"GO:0060426","count":3},{"id":"GO:0001756","count":3},{"id":"GO:0006366","count":3}]},{"hash":"1131594751074569359","title":"Ubiquitin-dependent proteolysis and innate antiviral defense","description":"The top GO terms center on ubiquitin-mediated protein turnover (ubiquitin-dependent proteolysis, autoubiquitination, K63-linked ubiquitination) together with innate immune responses (defense response to virus, innate immune response). This suggests a cluster of proteins that coordinate ubiquitin signaling for proteolysis and antiviral defense.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0042787","count":3},{"id":"GO:0051865","count":2},{"id":"GO:0051607","count":2},{"id":"GO:0070534","count":2},{"id":"GO:0045087","count":2}]},{"hash":"2085710512012080639","title":"Epithelial Proliferation and Signaling","description":"The GO terms cluster around epithelial cell proliferation and development (mammary gland and lung morphogenesis) with signaling involvement (VEGF response, PI3K/AKT, JNK cascades) and related transport processes (transcytosis). While some terms touch on neuronal maturation or host-symbiont interactions, the dominant theme is epithelial proliferation and morphogenesis governed by core signaling pathways. Confidence: Medium.","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":3},{"id":"GO:0090188","count":3},{"id":"GO:0035924","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0045056","count":3}]},{"hash":"601795389432187753","title":"Complement Activation and Chemokine Regulation","description":"This cluster is driven by terms tied to innate immunity and inflammatory signaling: complement activation via the classical pathway and upregulation of chemokines IL-8 and MCP-1. Together these point to proteins that modulate immune cell recruitment and complement activity. Some terms are unrelated or obsolete, suggesting annotation noise or pleiotropy, but the dominant theme is immune modulation through complement and chemokine pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1900121","count":3},{"id":"GO:0006958","count":3},{"id":"GO:2000478","count":2},{"id":"GO:0032757","count":2},{"id":"GO:2000584","count":2}]},{"hash":"889313409644395485","title":"Adaptive immune signaling and lymphocyte development","description":"The top GO terms show clear signals for adaptive immunity (adaptive immune response) and lymphocyte development (V(D)J recombination), pointing to immune system\u2013related functions. TNF-mediated signaling supports inflammatory responses, reinforcing an immune-focused theme. A few terms relating to transcription regulation and peroxisome import appear but seem ancillary to the central immune-related processes. Overall, the cluster appears best described by adaptive immune function and lymphocyte maturation, with some accompanying regulatory context.","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0002250","count":2},{"id":"GO:2000620","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0016558","count":2}]},{"hash":"2304778525880035702","title":"Chromatin Remodeling and Transcription Regulation","description":"The top terms center on DNA-templated transcription and chromatin state control (chromatin remodeling, histone modifications, transcription elongation), indicating these proteins are involved in regulating transcription via epigenetic chromatin changes, despite some obsolete annotations. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006349","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0031453","count":2},{"id":"GO:0043968","count":2},{"id":"GO:0080182","count":2}]},{"hash":"653374755613956466","title":"Neural Development and Neurotransmitter Biosynthesis","description":"The terms point to neural development (in utero embryonic development, neuron maturation, semicircular canal morphogenesis, neural precursor cell proliferation) and neurotransmitter production/secretion (dopamine biosynthetic process, negative regulation of serotonin secretion). While there are a few peripheral terms (guanine, folate metabolism, xenobiotic responses), the core signal is neural development complemented by monoamine neurotransmitter synthesis. Therefore the label captures the dominant theme of the cluster.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0001701","count":2},{"id":"GO:0042551","count":2},{"id":"GO:0048752","count":2},{"id":"GO:0046098","count":1},{"id":"GO:0042416","count":1}]},{"hash":"264922544476108107","title":"Developmental Transcription Regulators","description":"The top GO terms center on transcription regulation by RNA polymerase II and DNA-templated transcription, suggesting the proteins act to control gene expression. The accompanying development-related terms (kidney/mesenchyme, Purkinje myocyte differentiation, oculomotor nerve formation, pulmonary myocardium development, nephron/tubule development) imply a role in developmental programs across tissues. Taken together, the cluster likely comprises factors that regulate transcription during development, making \"Developmental Transcription Regulators\" a fitting, specific label.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0006351","count":2},{"id":"GO:0042663","count":1},{"id":"GO:0003168","count":1},{"id":"GO:1900212","count":1}]},{"hash":"686332812584956308","title":"Unknown","description":"TheTop Terms include protein neddylation and sumoylation (protein modification), cell-cycle regulation, tRNA wobble thiolation, thiamine and molybdopterin cofactor biosynthesis, pseudohyphal growth regulation, dendritic spine development, and Cvt pathway targeting. These span diverse cellular processes\u2014post-translational modification, metabolism, development, and trafficking\u2014with no clear, single cohesive function tying the cluster together. ","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0045116","count":1},{"id":"GO:2000220","count":1},{"id":"GO:0060996","count":1},{"id":"GO:0018192","count":1},{"id":"GO:0016925","count":1}]},{"hash":"1028895033439221362","title":"Transcriptional regulation in development and metabolism","description":"This cluster is driven by DNA-templated transcription (GO:0006351) as the top term, suggesting genes involved in controlling gene expression. Additional terms point to adipose tissue development and fat cell differentiation, implying a role in metabolic and tissue-development programs; circadian temperature homeostasis and related terms hint at broader regulatory connections. Overall, the proteins likely function as transcription regulators coordinating developmental and metabolic processes, though the small size and some unrelated terms reduce certainty.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":"DNA-templated transcription","top_go_terms":[{"id":"GO:0006351","count":3},{"id":"GO:0045872","count":3},{"id":"GO:0090188","count":2},{"id":"GO:0003417","count":2},{"id":"GO:1904179","count":2}]},{"hash":"1062800550043427323","title":"Unknown","description":"The Top Terms span viral life cycle, proviral latency, RNA-templated DNA biosynthesis, host entry, plant sepal formation, UV-A response, and general cellular processes, with little cohesive functional theme. This diversity suggests no single, well-supported function for the cluster, so a definite label cannot be assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006278","count":1},{"id":"GO:0075713","count":1},{"id":"GO:0048453","count":1},{"id":"GO:0019058","count":1},{"id":"GO:0000413","count":1}]},{"hash":"488538415489596559","title":"Developmental Regulation and Morphogenesis","description":"The top GO terms point to regulatory processes in development and tissue formation, including transcriptional control, cell-fate decisions (R3/R4 fate, angioblast differentiation), and morphogenesis (mammary gland duct branching, endothelial migration). The terms span diverse but related developmental processes rather than a single pathway, suggesting a broad developmental regulatory role for this cluster.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":3},{"id":"GO:0007638","count":2},{"id":"GO:0050860","count":2},{"id":"GO:0060762","count":2},{"id":"GO:0007347","count":2}]},{"hash":"2183906269023894978","title":"Cardiac and Neural Excitability Signaling","description":"The top GO terms point to regulation of cardiac conduction, heart morphogenesis, and neuronal action potential propagation, indicating a shared function in excitability and signaling across heart and neural tissues. Additional terms for smooth muscle contraction support this theme, while redox and amyloid-related terms may reflect broader cellular stress contexts but are less central to the core function.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1903779","count":2},{"id":"GO:0003007","count":2},{"id":"GO:0019227","count":2},{"id":"GO:0051775","count":2},{"id":"GO:0035584","count":2}]},{"hash":"1768657456509678789","title":"Embryonic organ development and tissue specification","description":"This cluster shows GO terms tied to development across multiple tissues, including endodermal cell fate, somite specification, oculomotor nerve formation, and various organogenesis processes like metanephric mesenchyme and pulmonary myocardium development. There is also involvement in transcriptional regulation (negative regulation of RNA Pol II), indicative of broader gene-expression control during differentiation. The convergence on diverse developmental events suggests the proteins participate in embryonic differentiation and organ formation rather than a single pathway.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0000122","count":2},{"id":"GO:0042663","count":1},{"id":"GO:0003168","count":1},{"id":"GO:1900212","count":1},{"id":"GO:0046513","count":1}]},{"hash":"521457133382095976","title":"Cytokine Production Regulation","description":"These proteins are linked to positive regulation of cytokine production (IFN-\u03b3, IL-4, IL-6, IL-10) and humoral immune response, indicating an immunomodulatory cluster centered on cytokine signaling; supplementary terms reflect broader immune signaling and calcium/PI3K pathways but the main theme is cytokine regulation in immunity.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032729","count":2},{"id":"GO:0032753","count":2},{"id":"GO:0032733","count":2},{"id":"GO:0051897","count":2},{"id":"GO:0006919","count":2}]},{"hash":"193138034402557937","title":"Embryonic organogenesis and lineage differentiation","description":"The GO terms point to broad developmental processes across multiple tissues (muscle, heart, kidney, neural structures) and regulation of transcription, suggesting a theme of embryonic tissue differentiation and organogenesis. Ceramide biosynthesis may relate to signaling during development but the dominant pattern is lineage specification and organ development.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007519","count":2},{"id":"GO:0006355","count":1},{"id":"GO:0042663","count":1},{"id":"GO:0003168","count":1},{"id":"GO:1900212","count":1}]},{"hash":"702426434162891568","title":"Immune cell trafficking and adhesion regulators","description":"This cluster centers on immune cell movement and interaction, with multiple GO terms for chemotaxis of NK cells, B cells, and monocytes, as well as cell\u2013cell and cell\u2013matrix adhesion. It also includes signaling-related terms such as JNK cascade regulation and modulation of MHC class II biosynthesis, suggesting these proteins coordinate trafficking, activation, and antigen presentation processes in immune responses.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:2000502","count":3},{"id":"GO:0035759","count":2},{"id":"GO:0090026","count":2},{"id":"GO:0051041","count":2},{"id":"GO:0035769","count":2}]},{"hash":"1685838459089838987","title":"Transmembrane Transport of Ions and Metabolites","description":"The top GO terms point to transport across membranes for diverse substrates\u2014phosphate, nitrate, sugars, xenobiotics, organic anions, and potassium\u2014indicating a shared function in membrane transport rather than a single substrate. Although substrates vary, the unifying theme is transmembrane movement of ions and nutrients, supporting a membrane-transport cluster. This label captures the common function implied by the GO terms.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0015706","count":2},{"id":"GO:0060731","count":2},{"id":"GO:0043252","count":2}]},{"hash":"2065630379963481727","title":"Drug- and Cytokine-Response Signaling","description":"This cluster centers on responses to drugs (behavioral response to cocaine) and regulation of inflammatory/cytokine pathways (IL-8 and TNF production, T cell proliferation with glucocorticoid involvement), suggesting a theme of drug-responsive immune signaling. Some terms are obsolete or peripheral (caspase-related apoptotic terms, cobalt ion response, glucose transport regulation), which reduces coherence but does not fully contradict the core drug-immune signaling theme. Confidence: Medium","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0048148","count":3},{"id":"GO:0008635","count":2},{"id":"GO:0046325","count":2},{"id":"GO:0019050","count":2},{"id":"GO:0032025","count":2}]},{"hash":"10167198488816861","title":"Epigenetic and immune signaling regulation","description":"The cluster\u2019s GO terms center on epigenetic control (histone methylation, epigenetic programming, sumoylation) and immune signaling pathways (NF-kappaB activation, T cell differentiation and proliferation, LPS signaling, nitric-oxide synthase activity). This combination suggests a shared theme of regulating gene expression and immune responses through chromatin modification and signal transduction, despite one term about microtubule localization being less directly connected. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035372","count":2},{"id":"GO:0070512","count":2},{"id":"GO:0045623","count":2},{"id":"GO:0050999","count":2},{"id":"GO:0043045","count":2}]},{"hash":"2078831717653516698","title":"Diverse Energy Metabolism and Xenobiotic Response","description":"This cluster groups proteins involved in a variety of metabolism-related processes, including amino acid catabolism (valine), fatty acid beta-oxidation, glycolysis, gluconate metabolism, and biosynthesis of cofactors (menaquinone) and antibiotics, along with responses to xenobiotic stimuli and insulin. The common thread is broad metabolic flux across carbon and energy pathways, with added regulatory/response elements, rather than a single narrow function. ","confidence":"Medium","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0006574","count":2},{"id":"GO:0006635","count":1},{"id":"GO:0017000","count":1},{"id":"GO:0009234","count":1},{"id":"GO:0010124","count":1}]},{"hash":"1043648676608602547","title":"Transcriptional regulation and genome stability","description":"The GO terms cluster around regulation of gene expression and chromatin-related processes (positive regulation of miRNA transcription, negative regulation of siRNA processing, and regulation of histone demethylase activity), together with telomere maintenance and replicative senescence, which point to genome integrity and aging. While there are hints of broader signaling contexts (Wnt signaling, hypoxia), the core theme is transcriptional control paired with genome stability and aging-related mechanisms.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032092","count":1},{"id":"GO:0030177","count":1},{"id":"GO:0060729","count":1},{"id":"GO:1903704","count":1},{"id":"GO:1904173","count":1}]},{"hash":"1030524135588603926","title":"Apoptotic Signaling and DNA Damage Response","description":"The GO terms cluster around apoptosis pathways (intrinsic and extrinsic), TNF signaling, and p53-mediated DNA damage responses, with additional links to ubiquitin-dependent proteolysis and epigenetic regulation of gene expression. This suggests a cohesive theme of cell fate decisions in response to stress, i.e., apoptotic signaling and DNA damage response, with some peripheral terms related to regulation of signaling, circadian expression, and chromatin dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0033209","count":2},{"id":"GO:0035372","count":1},{"id":"GO:0070512","count":1},{"id":"GO:0060058","count":1},{"id":"GO:0043045","count":1}]},{"hash":"2015377965431103810","title":"Chromatin remodeling and epigenetic regulation","description":"The top terms are dominated by chromatin-related processes\u2014histone acetylation, nucleosome mobilization/exchange, and heterochromatin formation\u2014pointing to changes in chromatin structure that govern transcription. Additional terms touch on transcription initiation and ncRNA-mediated post-transcriptional silencing, reinforcing the epigenetic control theme. Some developmental signals are present, but the core cluster appears to reflect chromatin state dynamics underpinning gene expression.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0043981","count":2},{"id":"GO:0006348","count":2},{"id":"GO:0016246","count":2},{"id":"GO:0048510","count":2},{"id":"GO:0042766","count":2}]},{"hash":"1852241435626669548","title":"Ubiquitin-Dependent Regulation of NF-\u03baB and JNK Signaling","description":"These proteins cluster around ubiquitination-related processes (K63-linked ubiquitination, autoubiquitination, ubiquitin-dependent protein turnover) and signaling pathways such as NF-\u03baB and JNK, with links to TNF signaling and histone modification. Despite no detected edges, the shared function appears to be ubiquitin-mediated control of signaling and chromatin-related regulation affecting these pathways.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0070535","count":3},{"id":"GO:0070512","count":2},{"id":"GO:0042787","count":2},{"id":"GO:0046328","count":2},{"id":"GO:0051865","count":2}]},{"hash":"758171087457567801","title":"Oocyte meiosis and embryonic cell cycle regulation","description":"This cluster is driven by GO terms centering on female meiosis I, oocyte maturation, and regulation of the mitotic cell cycle during embryogenesis (including G2/M transition). While a couple of terms relate to UV response and redox homeostasis, the dominant signals point to meiosis/oogenesis and early embryonic cell cycle control, suggesting a coherent functional theme despite the small cluster size.","confidence":"High","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0007144","count":2},{"id":"GO:0001556","count":2},{"id":"GO:0032467","count":2},{"id":"GO:0009794","count":2},{"id":"GO:0034644","count":2}]},{"hash":"413983723568996782","title":"Unknown","description":"Unknown","confidence":"","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0042594","count":1},{"id":"GO:0019619","count":1},{"id":"GO:0007584","count":1},{"id":"GO:0006108","count":1},{"id":"GO:0009060","count":1}]},{"hash":"1909961073892660893","title":"Calcium signaling and cation transport in muscle/nerve","description":"The terms cluster around calcium dynamics and general ion transport that influence muscle contraction and neural processes, including calcium release from Golgi, potassium/zinc/monoatomic cation transport, and regulation of fast-twitch muscle and heart contraction. This suggests a core theme of calcium-mediated signaling and ion homeostasis in muscle and nerve function, with some broader terms present. ","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0031448","count":2},{"id":"GO:0045822","count":2},{"id":"GO:1905166","count":2},{"id":"GO:1903543","count":2},{"id":"GO:0021650","count":2}]},{"hash":"546301531606561381","title":"Unknown","description":"The GO terms span symbiont-host interaction, immune signaling, epithelial proliferation, and metabolism with no clear shared function or interaction among the proteins; the graph has no edges, so there isn\u2019t a cohesive theme to define a specific label.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":"mitotic cell cycle","top_go_terms":[{"id":"GO:0020021","count":3},{"id":"GO:0090188","count":3},{"id":"GO:0035924","count":3},{"id":"GO:0046330","count":3},{"id":"GO:0045056","count":3}]},{"hash":"693902884611313245","title":"Unknown","description":"The GO terms associated with this cluster are highly diverse, including DNA repair (base-excision repair; DNA catabolic process), xenobiotic and peptide hormone responses, skin-related development, and other unrelated or obsolete terms. With only a few terms and no strong shared functional theme or interaction among the proteins, there is no clear unifying function to name this cluster beyond Unknown.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0006284","count":1},{"id":"GO:0042493","count":1},{"id":"GO:2000327","count":1},{"id":"GO:0014912","count":1},{"id":"GO:0007568","count":1}]},{"hash":"1183464303447830127","title":"Auditory hair cell mechanotransduction and calcium signaling","description":"This cluster\u2019s top GO terms converge on auditory sensation and cochlear development (detection of mechanical stimulus involved in sound; cochlea development) and on ion transport and calcium handling (potassium, zinc, and calcium ion transport; calcium release from Golgi/ER, membrane repolarization, electrochemical gradient maintenance), all of which are key aspects of mechanosensory function in hair cells. Confidence in this label is High.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0050910","count":2},{"id":"GO:0031448","count":1},{"id":"GO:0045822","count":1},{"id":"GO:1990573","count":1},{"id":"GO:0071577","count":1}]},{"hash":"395017257694911609","title":"Potassium transport and membrane potential regulation","description":"The strongest GO signals are about regulating resting membrane potential and repolarization, which are classic electrochemical processes governed by potassium flux. Supporting terms for potassium ion transmembrane transport and intracellular potassium homeostasis reinforce a core theme of maintaining membrane potential via potassium handling, with some weaker, less related terms present.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0060075","count":2},{"id":"GO:0098914","count":2},{"id":"GO:0046541","count":1},{"id":"GO:0045332","count":1},{"id":"GO:0030007","count":1}]},{"hash":"444895507531623691","title":"Vascular GPCR signaling and blood pressure regulation","description":"The top GO terms cluster around G protein-coupled receptor signaling, signaling downstream of serotonin receptors, and pathways that regulate vascular tone and blood pressure (e.g., norepinephrine/epinephrine\u2013mediated vasodilation, vascular smooth muscle contraction, and renin-angiotensin\u2013related regulation). While a few immune-related terms appear, the dominant theme is GPCR-driven signaling that controls cardiovascular function, suggesting the proteins in this cluster participate in vascular signaling rather than a single immune function.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0090026","count":1},{"id":"GO:0002032","count":1},{"id":"GO:0007208","count":1},{"id":"GO:0001991","count":1},{"id":"GO:0046960","count":1}]},{"hash":"709462427320033950","title":"Membrane solute transporters","description":"The cluster is dominated by GO terms for diverse membrane transport activities, including glycine betaine, carbohydrate, branched-chain amino acid, xenobiotic, potassium ion, and thiamine transport, as well as peptide pheromone export and phytochelatin import into vacuole. This points to a cohesive group of proteins functioning primarily as membrane transporters for various solutes and ions, despite a peripheral mention of SOS response that does not define the main theme.","confidence":"High","size":3,"edges":1,"triangles":0,"max_degree":1,"top_function":null,"top_go_terms":[{"id":"GO:0009432","count":3},{"id":"GO:0031460","count":3},{"id":"GO:0008643","count":3},{"id":"GO:0000770","count":3},{"id":"GO:0015803","count":3}]},{"hash":"1920567044452371166","title":"Cellular stress responses and innate immune signaling","description":"The top terms point to stress and immune signaling, e.g., unfolded protein response, dsRNA response, and interferon-alpha signaling. While there are also cell-cycle and developmental terms present, the dominant theme is cellular stress and antiviral signaling, suggesting these proteins participate in stress- and immunity-related pathways rather than a single cohesive process.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:1902391","count":2},{"id":"GO:0071909","count":2},{"id":"GO:0016570","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0035457","count":2}]},{"hash":"971596807316469103","title":"Unknown","description":"The GO terms are highly diverse and span immune response, development, mitochondria, signaling, ER stress, and centrosome-related processes, with no dominant shared function. This heterogeneous set does not support a single coherent biological theme, so a more specific label cannot be confidently assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0051902","count":1},{"id":"GO:0002250","count":1},{"id":"GO:1990441","count":1},{"id":"GO:1904179","count":1},{"id":"GO:0048015","count":1}]},{"hash":"1808658228736390419","title":"NF-kappaB signaling and ubiquitination","description":"This cluster centers on immune/inflammatory signaling, with terms pointing to NF-kappaB pathway regulation (canonical NF-kappaB activation, I-kappaB phosphorylation) and ubiquitination processes (K48-linked ubiquitination, autoubiquitination), plus TNF-mediated signaling and components of immune development (V(D)J recombination). The recurring theme is immune signal transduction tightly connected to protein ubiquitination, justifying the label.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:2000620","count":3},{"id":"GO:0070512","count":3},{"id":"GO:0033151","count":3},{"id":"GO:0033209","count":3},{"id":"GO:0051865","count":3}]},{"hash":"1937502463480467447","title":"Chromatin remodeling and transcription regulation","description":"The terms show a clear focus on chromatin remodeling and transcriptional control (GO:0043044, GO:0048096, GO:0000122), including initiation-coupled remodeling and negative regulation of RNA polymerase II. Other terms touch on development and stress responses, but the strongest common theme is epigenetic regulation of gene expression through chromatin dynamics.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0071301","count":1},{"id":"GO:0045023","count":1},{"id":"GO:0003407","count":1},{"id":"GO:0043044","count":1},{"id":"GO:0071456","count":1}]},{"hash":"2272082458030548008","title":"Dopaminergic signaling and drug-induced behavior","description":"Top GO terms point to neural signaling, dopamine regulation, and drug-related behaviors (positive regulation of dopamine secretion; behavioral response to nicotine; response to cocaine), with supporting neural development and innervation terms (innervation; optic nerve morphogenesis; righting reflex). This pattern suggests a cluster centered on dopaminergic neural pathways and drug-induced behavioral responses, rather than a single non-neural process.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:2001023","count":2},{"id":"GO:1901214","count":2},{"id":"GO:0033603","count":2},{"id":"GO:0060384","count":2},{"id":"GO:0035095","count":2}]},{"hash":"1507460506882864921","title":"Unknown","description":"The three proteins show a mix of GO terms spanning neural development (striatum development), stress responses (unfolded protein response, interferon signaling), and cilium assembly, plus some obsolete annotations. There is no clear, cohesive functional theme linking them, so a specific functional label cannot be reliably assigned.","confidence":"","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0021756","count":2},{"id":"GO:1902391","count":2},{"id":"GO:0016570","count":2},{"id":"GO:0045842","count":2},{"id":"GO:0035457","count":2}]},{"hash":"4500239283021747","title":"Proteasome and COP9 deneddylation regulation","description":"The top GO terms cluster tightly around protein turnover and post-translational modification: proteasome assembly and ubiquitin-dependent degradation, COP9 signalosome assembly, and regulation/deneddylation of proteins. These point to a cohesive theme of proteostasis and regulation of protein degradation, with transcription/translation terms likely reflecting broader functions of multifunctional proteins. ","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0032147","count":1},{"id":"GO:0006351","count":1},{"id":"GO:0001824","count":1},{"id":"GO:1903955","count":1},{"id":"GO:0010387","count":1}]},{"hash":"2011461218591848875","title":"Peptide processing and LDL receptor turnover","description":"GO terms center on peptide/protein processing (dibasic protein processing, enkephalin processing) and regulation of LDL receptor activity and receptor recycling, suggesting a theme of proteolytic processing linked to receptor turnover, with some annotation noise from unrelated terms.","confidence":"Medium","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0010989","count":3},{"id":"GO:0090472","count":3},{"id":"GO:1905598","count":3},{"id":"GO:0001920","count":3},{"id":"GO:0007323","count":3}]},{"hash":"958212272881203140","title":"Plant nitrate transport and hormone signaling","description":"This cluster centers on plant nutrient uptake and hormone pathways: terms for nitrate transport/assimilation and response to nitrate, combined with gibberellin (GA) homeostasis and auxin-activated signaling, plus peptide transport. The co-occurrence of nitrate-related transport and hormone signaling terms suggests a cohesive plant transporter/hormone regulatory module.","confidence":"High","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0010336","count":2},{"id":"GO:0042128","count":2},{"id":"GO:0009635","count":2},{"id":"GO:0080055","count":2},{"id":"GO:0042938","count":2}]},{"hash":"245992431685289403","title":"Ion and nutrient transmembrane transport","description":"These proteins show a strong enrichment for transmembrane transport GO terms across a range of ions and nutrients (phosphate, nitrate, potassium, glucose, galactose, organic anions, xenobiotics), indicating a common theme of membrane transport and uptake. A couple of terms about intestinal epithelial structure and ascorbate metabolism are present but do not outweigh the transport signal, supporting a transporter/uptake cluster interpretation.","confidence":"High","size":3,"edges":0,"triangles":0,"max_degree":0,"top_function":null,"top_go_terms":[{"id":"GO:0035435","count":3},{"id":"GO:0042128","count":3},{"id":"GO:0015706","count":3},{"id":"GO:0060731","count":3},{"id":"GO:0043252","count":3}]},{"hash":"1989319172000628037","title":"Phospholipid remodeling and signaling","description":"Top GO terms cluster around lipid metabolism and remodeling (cardiolipin and phosphatidylcholine remodeling, ether lipids, CDP-diacylglycerol biosynthesis, platelet activating factor biosynthesis) and lipid biosynthesis, with immune signaling links (interleukin-2 production, T cell regulation) and mitochondrial function. This suggests a cohesive role in phospholipid remodeling and lipid-derived signaling impacting immune cell activity and mitochondrial processes.","confidence":"Medium","size":3,"edges":3,"triangles":1,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0070970","count":3},{"id":"GO:0042775","count":3},{"id":"GO:0035965","count":3},{"id":"GO:0019432","count":3},{"id":"GO:0008611","count":3}]},{"hash":"1875374203129638009","title":"Iron transport and homeostasis","description":"The shared signal among the GO terms is iron handling: import across the membrane, transport via transferrin, and maintenance of intracellular iron balance, supported by receptor-mediated endocytosis and vacuolar recycling processes. While a few plant-development and metabolic terms appear, the strongest and most coherent theme is iron uptake and homeostasis.","confidence":"Medium","size":3,"edges":2,"triangles":0,"max_degree":2,"top_function":null,"top_go_terms":[{"id":"GO:0098707","count":1},{"id":"GO:0006760","count":1},{"id":"GO:0010081","count":1},{"id":"GO:0017186","count":1},{"id":"GO:0007039","count":1}]}]