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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.
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BMC Genomics

ISSN: 1471-2164

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