CARDIOVASCULAR JOURNAL OF AFRICA • Volume 33, No 6, November/December 2022 AFRICA 309 positive regulation of cellular biosynthetic process positive regulation of macromolecule biosythetic process positive regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process positive regulation of nitrogen compound metabolic process regulation of transcription from RNA polymerase II promoter possitive regulation of gene expression positive regulation of transcription regulation of transcription regulation of RNA metabolic process regulation of transcription, DNA-dependent GO–BP Count 120 150 180 7.5 10.0 12.5 15.0 17.5 Rich factor –Log10 p-value 22 20 18 GO–MF Count 60 90 120 150 transcription factor activity enzyme binding sequence-specific DNA binding transcription factor binding cytoskeletal protein binding transcription activator activity transciption repressor activity transcription co-factor activity DNA binding transcription regulator activity 5.0 7.5 10.0 12.5 Rich factor –Log10 p-value 21 18 15 12 GO–CC Count 25 50 75 100 125 nuclear lumen cell fraction nucleoplasm nucleoplasm part membrane raft membrane-enclosed lumen organelle lumen cytosol intracellular organelle caveola 3 6 9 Rich factor –Log10 p-value 10 9 8 7 Fig. 5. Gene-term enrichment analysis of the 1 433 DEGs using GO categories analysis. The rich factor is the ratio of the number of DEGs annotated in a given pathway term to the number of all genes annotated in the pathway term. A higher rich factor indicates greater intensity. The sizes of the circles indicate the number of genes. CC, cellular component; BP, biological process; MF, molecular function. A B C Table 5. KEGG pathway enrichment analysis of DEGs between groups 2 and 4 Pathway Name Gene count p-value Genes rno04910 Insulin-signalling pathway 27 1.46E-07 GRB2, MKNK2, HK1, FOXO1, ELK1, SORBS1, SOS1, TRIP10, INSR, RAPGEF1, PIK3R1, IRS2, FLOT2, PHKG2, FLOT1, PRKAB1, PDE3A, ACACB, IRS1, PPARGC1A, RPTOR, MAPK1, CBLB, TSC1, GSK3B, MAPK3, LIPE rno04520 Adherens junction 18 2.47E-06 PTPRB, FGFR1, ACTN4, WASF2, CREBBP, CTNND1, ACTN2, IQGAP1, IGF1R, MAPK1, TJP1, EP300, SORBS1, MAPK3, RAC1, WASL, TCF3, INSR rno05211 Renal cell carcinoma 17 4.29E-06 EPAS1, PDGFB, GRB2, PDGFA, CREBBP, TGFB1, VEGFB, MAPK1, EP300, ETS1, SOS1, MAPK3, VEGFA, RAC1, GAB1, RAPGEF1, PIK3R1 rno04810 Regulation of actin cytoskeleton 32 6.26E-06 FGFR1, SSH1, PDGFB, MYL2, PDGFA, GNA12, SSH2, WASF2, PIP5K1C, GNG12, PXN, IQGAP1, SOS1, RAC1, RRAS, FGF1, GOLGA4, PIK3R1, APC, GIT1, ARHGEF1, ROCK1, ACTN4, ARHGEF7, ITGA1, ACTN2, MAPK1, ITGA5, MAPK3, MYH14, WASL, SLC9A1 rno04722 Neurotrophinsignalling pathway 23 1.09E-05 IRS2, GRB2, RELA, YWHAB, FOXO3, YWHAE, IRS1, MAPK1, PLCG1, MAPK12, RPS6KA2, GSK3B, SOS1, MAPK3, GAB1, RAC1, SH2B3, TRAF6, MAP2K7, CAMK2A, RAPGEF1, ARHGDIA, PIK3R1 rno04360 Axon guidance 23 1.24E-05 ABLIM1, EFNB3, ROCK1, PLXNB1, PLXNA2, ABLIM3, EFNB2, PPP3R1, NTN1, CXCL12, SEMA6A, MAPK1, SEMA6B, RGS3, SEMA3G, GSK3B, SEMA7A, MAPK3, RAC1, NFAT5, PPP3CB, SEMA4D, NFATC3 rno05200 Pathways in cancer 41 1.65E-05 FGFR1, PPARD, PDGFB, PDGFA, GRB2, KITLG, FOXO1, ZBTB16, BCL2L1, TGFB1, MAX, IGF1R, LAMB2, SOS1, RAC1, FGF1, TRAF6, TCF3, PIK3R1, APC, DVL3, CTBP2, EPAS1, RALBP1, RXRA, RELA, CYCS, CREBBP, FZD4, JUP, VEGFB, MAPK1, CBLB, EP300, CDKN1B, PLCG1, LAMA5, GSK3B, VEGFA, MAPK3, PIAS2 rno04010 MAPK-signalling pathway 36 2.35E-05 FGFR1, PDGFB, PDGFA, GRB2, GNA12, PPP3R1, MKNK2, MAP4K2, ELK1, GNG12, TGFB1, MAX, TNFRSF1A, SOS1, MAPT, RAC1, PPP3CB, RRAS, FGF1, TRAF6, MAP2K7, TAOK1, RELA, NF1, CDC25B, DUSP5, MAPK1, MAPK12, DUSP1, RPS6KA2, MAPK3, PLA2G2A, CACNA1C, PLA2G4B, DUSP7, PPP5C rno04510 Focal adhesion 29 3.30E-05 PDGFB, MYL2, PDGFA, GRB2, ELK1, PXN, IGF1R, LAMB2, SOS1, RAC1, ZYX, GOLGA4, RAPGEF1, PIK3R1, FLT1, ACTN4, ROCK1, ITGA1, ACTN2, KDR, VEGFB, VWF, MAPK1, LAMA5, ITGA5, GSK3B, MAPK3, VEGFA, PARVB rno04320 Dorsoventral axis formation 9 3.55E-05 NOTCH3, MAPK1, NOTCH1, GRB2, ETS1, SOS1, MAPK3, NOTCH4, ETV6 KEGG: Kyoto Encyclopedia of Genes and Genomes; DEGs: differentially expressed genes.
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