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Table 7 Biological functions determined in IPA for genes differentially regulated between atretic and small healthy follicles

From: Transcriptome profiling of granulosa cells from bovine ovarian follicles during atresia

Category Functions annotation P Value Bias-corrected z-score Genes
Fisher’s (B-H) FDR
Cancer tumorigenesis of organ 8.31E-04 1.57E-02 -2.907 CAV1, CDKN1C, COL18A1, CYP19A1, CYR61, FST, GADD45A, ING4, JUN, MMP11, NDRG1, SMAD3, STAR, TGFBR2, TIMP1, VEGFA
Cancer hyperproliferation 5.94E-05 9.22E-03 -2.889 AXL, BCL6, CAV1, CDKN1C, CEBPD, CYP19A1, FGFR2, FST, GPX3, IGF2R, ING4, MERTK, MGP, MXI1, NOS2, PLAUR, PLP1, POSTN, SERPINE1, SMAD3, SPP1, STAR, STAT3, TGFBR2, TIMP1, TOP1, VEGFA
Cell Death cell death of organ 1.32E-10 3.34E-08 -2.868 A2M, AMH, ATF3, AXL, BCL6, BMP2, C8orf4, CAMP, CAST, CCNT1, CD200, CDKN1C, CFH, CFLAR, CLIC4, CTGF, CYP19A1, CYP2C9, DCN, DUSP1, EGR1, GAL, GCLC, GLRX, GNG2, GSN, GTF2F2, ID3, IER3, IGF2, IL18, JUN, KRT8, LGALS3, LTA, MDK, MERTK, MTPN, MZB1, NOS2, NTRK3, OPRM1, PIK3CA, PIM1, PLAT, PLAUR, PTPN5, RND3, SERPINA3, SERPINE1, SH3BP5, SMAD3, SPP1, STAR, STAT3, THBS2, TIMP1, TNFRSF6B, TOP2A, TP53INP1, VEGFA
Cell-To-Cell Signalling and Interaction activation of blood cells 5.83E-04 1.21E-02 -2.800 AGRN, ANXA1, ANXA2, AXL, C6, CAMP, CD200, CFH, DUSP1, F2RL2, HDAC7, HLA-A, HRG, IGF2R, IL18, IL18R1, LTA, MERTK, NDRG1, NOS2, OPRM1, PDGFRA, PELI1, PLAT, PLP1, SMAD3, SPP1, STAT3, TNFRSF12A, TNFRSF6B, VEGFA, WASL
Cancer hyperplasia 2.82E-04 7.20E-03 -2.753 AXL, CAV1, CDKN1C, CEBPD, CYP19A1, FGFR2, FST, GPX3, IGF2R, ING4, MGP, MXI1, NOS2, PLAUR, POSTN, SERPINE1, SPP1, STAR, STAT3, TGFBR2, TIMP1, TOP1, VEGFA
Tissue Development development of organ 1.95E-09 3.70E-07 -2.665 ADAMTS1, ALB, AMH, ANKRD1, AQP1, ATF3, ATRX, AXL, BCL6, BMP2, CAMP, CAV1, CDKN1C, CFLAR, CITED2, CLDN1, CLDN11, COL18A1, COL1A2, COL3A1, CTGF, CTSH, CYP19A1, CYR61, DCN, EGR1, EPAS1, ERRFI1, FABP5, FGFR2, FOSL2, FOXP1, FSHB, FST, GAL, HHEX, HRG, ID1, ID3, IGF2, IGF2R, IGFBP5, IHH, INSIG2, JARID2, JUN, KLF6, KRT18, LAMC2, LDB1, LGALS3, LTA, MDK, MERTK, MGP, NDP, NOS2, NR2F1, NTRK3, PDGFRA, PIM1, PLAT, RHO, SERPINE1, SLC40A1, SLC4A2, SMAD3, SNAI2, STAT3, TACC2, TDRD7, TGFBR2, THBS2, TIMP1, TNFRSF12A, TYRP1, VCL, VEGFA, YBX2
  1. All predicted to be decreased.
  2. The predicted activation state is inferred from the bias-corrected z-score, (+ = increased, - = decreased). The bias-corrected z-score is computed based on the proportion of target genes present in the dataset which are directionally regulated as expected according to known associations with functions compiled from the literature.
  3. The P value of overlap measures the statistical significance of overlap using Fisher’s exact t-test or the Benjamini-Hochberg False Discovery Rate for multiple comparisons (B-H FDR), between genes from the dataset and those known to be associated with a function.