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Table 2 Top ten Gene Ontology database biological processes enriched by the 251 genes significantly upregulated in normal breast samples of parous compared to nulliparous cancer-free PVLSI patients a

From: Parity-related molecular signatures and breast cancer subtypes by estrogen receptor status

GO category

Gene names

Total

Up

P-value

FDR

[GO: 0002376] Immune system process

KLHL6, HCLS1, LAT2, CD93, SLC7A7, DOK2, NCF4, PTPRC, VNN1, CD38, MAFB, CCL2, ITK, ATP6V0A2, HCK, BLNK, TBX21, FCGR2B, FYB, BPGM, SCIN, CLEC4A, CD244, CD247, TFEB, SNCA, CD48, TNFSF13B, IL6R, TLR3, CDKN2A, P2RX7, SYK, LCP1, C3AR1, ENPP3, ANXA3, VAV1, LCP2, NDFIP1, CD14, TLR1, CD83, CSF1, TLR7, ITGAM, BST1, HLA-DMA, CYBB, EPB42, PRG4, NCF1, WAS, SIX1, TLR6, CCR1, IL1R2, EDA, ITGB2, NCF2, CD28, CCL3

1,040

62

5.3E-19

< 0.001

[GO: 0006955] Immune response

KLHL6, ENPP3, ANXA3, LAT2, LCP2, NDFIP1, NCF4, PTPRC, CD14, VNN1, CD38, TLR1, CD83, CCL2, TLR7, ITK, ATP6V0A2, BLNK, TBX21, FCGR2B, FYB, BST1, CLEC4A, HLA-DMA, CYBB, PRG4, CD247, NCF1, TFEB, SNCA, WAS, TNFSF13B, IL6R, TLR3, TLR6, CCR1, IL1R2, EDA, ITGB2, SYK, P2RX7, NCF2, LCP1, CD28, CCL3, C3AR1

611

46

8.9E-18

< 0.001

[GO: 0006952] Defense response

RNASE6, ANXA3, ADORA3, C1ORF38, ESR2, NDFIP1, PTPRC, CD14, VNN1, NLRC4, TLR1, CD83, CCL2, TLR7, ITK, HCK, BLNK, NOX4, HRH1, CLEC4A, CYBB, CD247, NCF1, SNCA, WAS, CD48, IL6R, LILRB3, TLR3, ALOX5AP, TLR6, AIF1, CCR1, ITGB2, P2RX7, LILRA3, NCF2, CD28, CCL3, C3AR1

578

40

3.1E-14

< 0.001

[GO: 0045321] Leukocyte activation

ANXA3, VAV1, LAT2, CD93, LCP2, NDFIP1, PTPRC, VNN1, TLR1, CD38, CD83, CSF1, TLR7, BLNK, ITGAM, TBX21, HLA-DMA, CD247, SNCA, WAS, CD48, TNFSF13B, TLR3, CDKN2A, TLR6, P2RX7, SYK, LCP1, CD28

336

29

7.5E-13

< 0.001

[GO: 0006954] Inflammatory response

CYBB, ADORA3, C1ORF38, NDFIP1, CD14, IL6R, VNN1, NLRC4, TLR1, TLR3, ALOX5AP, CCL2, TLR7, AIF1, TLR6, CCR1, ITGB2, BLNK, P2RX7, NOX4, HRH1, C3AR1, CCL3

265

23

1.9E-10

< 0.001

[GO: 0002682] Regulation of immune system process

KLHL6, VAV1, LAT2, LCP2, NDFIP1, PTPRC, VNN1, CD38, CD83, MAFB, CSF1, TLR7, ITK, HCK, TBX21, FCGR2B, FYB, SCIN, HLA-DMA, CD247, SNCA, TNFSF13B, WAS, IL6R, TLR3, CDKN2A, TLR6, ITGB2, SYK, P2RX7, CD28, C3AR1

513

32

2.5E-10

< 0.001

[GO: 0002274] Myeloid leukocyte activation

TLR1, TLR3, ANXA3, CSF1, LAT2, CD93, TLR7, TLR6, LCP2, SYK, SNCA, CD48

63

12

6.9E-10

< 0.001

[GO: 0009611] Response to wounding

VAV1, IL10RA, SLC7A7, ADORA3, C1ORF38, LCP2, DOK2, NDFIP1, CD14, GATM, VNN1, TLR1, NLRC4, CCL2, TLR7, BLNK, ITGAM, NOX4, HRH1, CYBB, CD244, WAS, CD48, IL6R, TLR3, ALOX5AP, TLR6, AIF1, CCR1, ITGB2, SYK, P2RX7, LAMP2, PIK3CG, CCL3, C3AR1

671

36

1.1E-09

< 0.001

[GO: 0001775] Cell activation

ANXA3, VAV1, LAT2, CD93, LCP2, NDFIP1, PTPRC, VNN1, CD38, TLR1, CD83, CSF1, TLR7, BLNK, ITGAM, TBX21, HLA-DMA, CD247, SNCA, WAS, CD48, TNFSF13B, TLR3, CDKN2A, TLR6, P2RX7, SYK, LAMP2, LCP1, CD28, PIK3CG

520

31

1.5E-09

< 0.001

[GO: 0050896] Response to stimulus

HCLS1, KLHL6, FPR3, ANG, LAT2, IL10RA, SLC7A7, CACNA2D4, C1ORF38, PTGIS, DOK2, NCF4, PTPRC, VNN1, PTPRO, CD38, NLRC4, FGF1, CCL2, ITK, ATP6V0A2, HCK, PTGS1, BLNK, TBX21, NOX4, HRH1, FCGR2B, FYB, CLEC4A, HTR2B, CD244, CD247, TFEB, SNCA, TNFSF13B, CD48, IL6R, LILRB3, TLR3, ALOX5AP, CDKN2A, AIF1, SYK, P2RX7, LILRA3, LCP1, CRY1, LAMP2, C3AR1, ENPP3, ANXA3, RNASE6, VAV1, ADORA3, LCP2, ESR2, NDFIP1, CD14, GATM, DYNLRB1, TLR1, CD83, TBXAS1, KCNQ1, CYP4V2, C20ORF39, HSPA6, TLR7, CYB5R4, MAOB, ITGAM, ATP6V1F, BST1, HLA-DMA, CYBB, PRG4, NCF1, WAS, ABLIM2, GDF10, TLR6, CCR1, CNGA1, AGPS, IL1R2, EDA, ITGB2, NCF2, CD28, TFEC, PIK3CG, CCL3

3,121

93

2.0E-09

< 0.001

  1. aFDR, False discovery rate; GO, Gene Ontology; PVLSI, Samples obtained from normal breast tissue of 130 women who underwent reduction mammoplasty surgery at Baystate Medical Center in Springfield, MA, USA, and banked at the Pioneer Valley Life Sciences Institute; Up, Upregulated.