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["Supplementary Data 5. Gene Ontology analysis of the 174 significant genes from dndscv analysis. List of 25 GO terms (biological process) for which a statistical significant enrichment was detected in the driver genes. For each category, p-values, FDR and enrichment score are indicated. The enrichment score is calculated as (b/n) / (B/N), where: b is the number of genes in the intersection; n is the number of genes in the top of the user's input list or in the target set when appropriate; B is the total number of genes associated with a specific GO term; N is the total number of genes. The statistical test used for enrichment analysis is typically based on a hypergeometric model."]
[]
["Legend"]
["GO Term","Gene Ontology ID"]
["Description","Description of GO term"]
["P-value","p value"]
["FDR q-value","correction of the above p-value for multiple testing using the Benjamini and Hochberg "]
["Enrichment","enrichment score calculated as  (b/n) / (B/N)"]
["N","total number of genes"]
["B","total number of genes associated with a specific GO term"]
["n","number of genes in the top of the user's input list or in the target set when appropriate"]
["b","is the number of genes in the intersection"]
["Genes","list of associated genes that appear in the optimal top of the list."]

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["Gene Ontology analysis of the 174 significant genes from dndscv analysis"]
["GO Term","Description","P-value","FDR q-value","Enrichment","N","B","n","b","Genes"]
["GO:0002376","immune system process",{"v":1.03e-05,"d":"1.03E-05"},{"v":0.0287,"d":"2.87E-02"},12.29,172,14,5,5,"[Cd300ld  -  cd300 molecule-like family member d, Chuk  -  conserved helix-loop-helix ubiquitous kinase, AF251705  -  cdna sequence af251705, Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0002009","morphogenesis of an epithelium",{"v":1.18e-05,"d":"1.18E-05"},{"v":0.0164,"d":"1.64E-02"},17.2,172,5,8,4,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Notch1  -  notch 1, Ripk4  -  receptor-interacting serine-threonine kinase 4]"]
["GO:0019221","cytokine-mediated signaling pathway",{"v":7.2e-05,"d":"7.20E-05"},{"v":0.0668,"d":"6.68E-02"},28.67,172,3,6,3,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Trp53  -  transformation related protein 53]"]
["GO:0048729","tissue morphogenesis",{"v":9.33e-05,"d":"9.33E-05"},{"v":0.0649,"d":"6.49E-02"},14.33,172,6,8,4,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Notch1  -  notch 1, Ripk4  -  receptor-interacting serine-threonine kinase 4]"]
["GO:1902531","regulation of intracellular signal transduction",{"v":0.000104,"d":"1.04E-04"},{"v":0.0581,"d":"5.81E-02"},3.5,172,20,27,11,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Notch2  -  notch 2, Fgf9  -  fibroblast growth factor 9, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Nlgn1  -  neuroligin 1, Vrk2  -  vaccinia related kinase 2, Fam58b  -  family with sequence similarity 58, member b, Notch1  -  notch 1, Osbpl8  -  oxysterol binding protein-like 8, Fgf21  -  fibroblast growth factor 21, Trp53  -  transformation related protein 53]"]
["GO:0051091","positive regulation of DNA-binding transcription factor activity",{"v":0.000202,"d":"2.02E-04"},{"v":0.0935,"d":"9.35E-02"},21.5,172,3,8,3,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Ripk4  -  receptor-interacting serine-threonine kinase 4]"]
["GO:0051092","positive regulation of NF-kappaB transcription factor activity",{"v":0.000202,"d":"2.02E-04"},{"v":0.0801,"d":"8.01E-02"},21.5,172,3,8,3,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Ripk4  -  receptor-interacting serine-threonine kinase 4]"]
["GO:1902533","positive regulation of intracellular signal transduction",{"v":0.000248,"d":"2.48E-04"},{"v":0.0864,"d":"8.64E-02"},3.54,172,18,27,10,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Notch2  -  notch 2, Fgf9  -  fibroblast growth factor 9, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Nlgn1  -  neuroligin 1, Fam58b  -  family with sequence similarity 58, member b, Notch1  -  notch 1, Osbpl8  -  oxysterol binding protein-like 8, Trp53  -  transformation related protein 53, Fgf21  -  fibroblast growth factor 21]"]
["GO:0001817","regulation of cytokine production",{"v":0.000292,"d":"2.92E-04"},{"v":0.0903,"d":"9.03E-02"},20.64,172,5,5,3,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Cd300ld  -  cd300 molecule-like family member d, AF251705  -  cdna sequence af251705]"]
["GO:1901652","response to peptide",{"v":0.000303,"d":"3.03E-04"},{"v":0.0842,"d":"8.42E-02"},21.5,172,6,4,3,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0002011","morphogenesis of an epithelial sheet",{"v":0.000391,"d":"3.91E-04"},{"v":0.0989,"d":"9.89E-02"},57.33,172,3,2,2,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Notch1  -  notch 1]"]
["GO:0043620","regulation of DNA-templated transcription in response to stress",{"v":0.000408,"d":"4.08E-04"},{"v":0.0946,"d":"9.46E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0043618","regulation of transcription from RNA polymerase II promoter in response to stress",{"v":0.000408,"d":"4.08E-04"},{"v":0.0873,"d":"8.73E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:1902692","regulation of neuroblast proliferation",{"v":0.000408,"d":"4.08E-04"},{"v":0.0811,"d":"8.11E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0061419","positive regulation of transcription from RNA polymerase II promoter in response to hypoxia",{"v":0.000408,"d":"4.08E-04"},{"v":0.0757,"d":"7.57E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0061418","regulation of transcription from RNA polymerase II promoter in response to hypoxia",{"v":0.000408,"d":"4.08E-04"},{"v":0.0709,"d":"7.09E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:1901522","positive regulation of transcription from RNA polymerase II promoter involved in cellular response to chemical stimulus",{"v":0.000408,"d":"4.08E-04"},{"v":0.0668,"d":"6.68E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0036003","positive regulation of transcription from RNA polymerase II promoter in response to stress",{"v":0.000408,"d":"4.08E-04"},{"v":0.0631,"d":"6.31E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0072091","regulation of stem cell proliferation",{"v":0.000408,"d":"4.08E-04"},{"v":0.0597,"d":"5.97E-02"},43,172,2,4,2,"[Notch1  -  notch 1, Trp53  -  transformation related protein 53]"]
["GO:0051090","regulation of DNA-binding transcription factor activity",{"v":0.000488,"d":"4.88E-04"},{"v":0.0679,"d":"6.79E-02"},16.12,172,4,8,3,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Ripk4  -  receptor-interacting serine-threonine kinase 4]"]
["GO:0009967","positive regulation of signal transduction",{"v":0.000522,"d":"5.22E-04"},{"v":0.0692,"d":"6.92E-02"},3.35,172,19,27,10,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Notch2  -  notch 2, Fgf9  -  fibroblast growth factor 9, Nlgn1  -  neuroligin 1, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Fam58b  -  family with sequence similarity 58, member b, Notch1  -  notch 1, Osbpl8  -  oxysterol binding protein-like 8, Trp53  -  transformation related protein 53, Fgf21  -  fibroblast growth factor 21]"]
["GO:0010647","positive regulation of cell communication",{"v":0.000547,"d":"5.47E-04"},{"v":0.0692,"d":"6.92E-02"},1.83,172,22,81,19,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Spred1  -  sprouty protein with evh-1 domain 1, related sequence, Fgf9  -  fibroblast growth factor 9, Fam58b  -  family with sequence similarity 58, member b, Notch1  -  notch 1, Ins1  -  insulin i, Osbpl8  -  oxysterol binding protein-like 8, Trp53  -  transformation related protein 53, Fgf21  -  fibroblast growth factor 21, Trdn  -  triadin, Pfkfb2  -  6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2, Notch2  -  notch 2, Tm7sf3  -  transmembrane 7 superfamily member 3, Lgmn  -  legumain, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Nlgn1  -  neuroligin 1, Scel  -  sciellin, C1qtnf1  -  c1q and tumor necrosis factor related protein 1, Tdgf1  -  teratocarcinoma-derived growth factor 1]"]
["GO:0023056","positive regulation of signaling",{"v":0.000547,"d":"5.47E-04"},{"v":0.0662,"d":"6.62E-02"},1.83,172,22,81,19,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Spred1  -  sprouty protein with evh-1 domain 1, related sequence, Fgf9  -  fibroblast growth factor 9, Fam58b  -  family with sequence similarity 58, member b, Notch1  -  notch 1, Ins1  -  insulin i, Osbpl8  -  oxysterol binding protein-like 8, Trp53  -  transformation related protein 53, Fgf21  -  fibroblast growth factor 21, Trdn  -  triadin, Pfkfb2  -  6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 2, Notch2  -  notch 2, Tm7sf3  -  transmembrane 7 superfamily member 3, Lgmn  -  legumain, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Nlgn1  -  neuroligin 1, Scel  -  sciellin, C1qtnf1  -  c1q and tumor necrosis factor related protein 1, Tdgf1  -  teratocarcinoma-derived growth factor 1]"]
["GO:0009966","regulation of signal transduction",{"v":0.000814,"d":"8.14E-04"},{"v":0.0943,"d":"9.43E-02"},2.83,172,27,27,12,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Notch2  -  notch 2, Fgf9  -  fibroblast growth factor 9, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Nlgn1  -  neuroligin 1, Vrk2  -  vaccinia related kinase 2, Fam58b  -  family with sequence similarity 58, member b, Notch1  -  notch 1, Osbpl8  -  oxysterol binding protein-like 8, Fgf21  -  fibroblast growth factor 21, Apc2  -  adenomatosis polyposis coli 2, Trp53  -  transformation related protein 53]"]
["GO:0009653","anatomical structure morphogenesis",{"v":0.000956,"d":"9.56E-04"},{"v":0.106,"d":"1.06E-01"},3.19,172,20,27,10,"[Chuk  -  conserved helix-loop-helix ubiquitous kinase, Notch2  -  notch 2, Fgf9  -  fibroblast growth factor 9, Kras  -  v-ki-ras2 kirsten rat sarcoma viral oncogene homolog, Nlgn1  -  neuroligin 1, 2410089E03Rik  -  riken cdna 2410089e03 gene, Notch1  -  notch 1, Ripk4  -  receptor-interacting serine-threonine kinase 4, Tbcc  -  tubulin-specific chaperone c, Trp53  -  transformation related protein 53]"]