Table 2.
Pathway-, gene- and most significant SNP-based P-values for Fas-signaling pathway genes and risk of GC in China
| Pathway p* |
Gene Abbtn |
Gene name | Cytogenetic Locus |
Genepg Pg |
No. of SNPs |
Most Significant SNP |
Associated SNP Pn |
|---|---|---|---|---|---|---|---|
|
| |||||||
| 0.00055 | MAP2K4 | Mitogen-activated protein kinase kinase 4 | 17p11.2 | 0.0038 | 16 | rs9788973 | 0.00035 |
| FAF1 | FAS (TNFRSF6) associated factor 1 | 10q24.1 | 0.0039 | 28 | rs1846522 | 0.00039 | |
| MAPK8 | Mitogen-activated protein kinase 8 | 10q11.22 | 0.0041 | 5 | rs10508902 | 0.00153 | |
| CASP10 | Caspase 10, apoptosis-related cysteine peptidase | 2q33-q34 | 0.0110 | 5 | rs10200857 | 0.00382 | |
| CASP8 | Caspase 8, apoptosis-related cysteine peptidase | 2q33-q34 | 0.0130 | 9 | rs3769825 | 0.00247 | |
| CFLAR | Capase 8 and FADD-like apoptosis regulator | 2q33-q34 | 0.0149 | 5 | rs10200857 | 0.00382 | |
| MAP2K1 | Mitogen-activated protein kinase kinase 1 | 15q22.1- q22.33 |
0.0185 | 9 | rs12050732 | 0.00430 | |
| CASP8AP2 | Caspase 8 associated protein 2 | 6q15 | 0.0200 | 8 | rs11967579 | 0.00409 | |
| PAK2 | p21 protein (Cdc42/Rac)-activated kinase 2 | 3q29 | 0.0476 | 11 | rs6583176 | 0.00877 | |
| IKBKB |
Inhibitor of kappa light polypeptide gene enhancer in B-cells,
kinase beta |
8p11.2 | 0.0480 | 6 | rs5029748 | 0.01824 | |
| PARP1 | Poly (ADP-ribose) polymerase 1 | 1q41-q42 | 0.0650 | 13 | rs1805410 | 0.00863 | |
| UBE2I | Ubiquitin-conjugating enzyme E2I | 16p13.3 | 0.0653 | 4 | rs8063 | 0.02773 | |
| PAK1 | p21 protein (Cdc42/Rac)-activated kinase 1 | 11q13-q14 | 0.0908 | 11 | rs2725830 | 0.01745 | |
| NFKB2 |
Nuclear factor of kappa light polypeptide gene enhancer in
B-cells 2 |
10q24 | 0.1021 | 3 | rs1056890 | 0.03716 | |
| RB1 | Retinoblastoma 1 | 13q14.2 | 0.1129 | 8 | rs990814 | 0.03271 | |
| PRKDC | Protein kinase, DNA-activated, catalytic polypeptide | 8q11 | 0.1163 | 11 | rs2213178 | 0.01744 | |
| RAF1 | V-raf-1 murine leukemia viral oncogene homolog 1 | 3p25 | 0.1315 | 18 | rs904453 | 0.02647 | |
| DFFB | DNA fragmentation factor, 40kDa, beta polypeptide | 1p36.3 | 0.1334 | 12 | rs10797348 | 0.01571 | |
| CASP6 | Caspase 6, apoptosis-related cysteine peptidase | 4q25 | 0.1466 | 7 | rs3181187 | 0.03006 | |
| CASP2 | Caspase 2, apoptosis-related cysteine peptidase | 7q34-q35 | 0.1663 | 3 | rs10500136 | 0.07204 | |
| TRAF1 | TNF receptor-associated factor 1 | 9q33-q34 | 0.1988 | 5 | rsl0985097 | 0.07332 | |
| TRAF2 | TNF receptor-associated factor 2 | 9q34 | 0.2183 | 7 | rs7019752 | 0.09501 | |
| ARHGDIB | Rho GDP dissociation inhibitor (GDI) beta | 12pl2.3 | 0.2253 | 19 | rsl0505784 | 0.02073 | |
| MAP3K5 | Mitogen-activated protein kinase kinase kinase 5 | 6q22.33 | 0.2931 | 33 | rs9402838 | 0.01781 | |
| CASP7 | Caspase 7, apoptosis-related cysteine peptidase | 10q7 | 0.3112 | 19 | rslll96449 | 0.03379 | |
| BID | BH3 interacting domain death agonist | 22qll.l | 0.3137 | 17 | rs382013 | 0.02841 | |
| MAP3K1 | Mitogen-activated protein kinase kinase kinase 1 | 5qll.2 | 0.3212 | 17 | rs832585 | 0.05083 | |
| MAP3K14 | Mitogen-activated protein kinase kinase kinase 14 | 17q21 | 0.3411 | 10 | rs7222751 | 0.06109 | |
| APAF1 | Apoptotic peptidase activating factor 1 | 12q23.1 | 0.3866 | 16 | rs2288714 | 0.07195 | |
| DIABLO | Diablo, lAP-binding mitochondrial protein | 12q24.31 | 0.4121 | 2 | rsl2870 | 0.23147 | |
| LMNB2 | Lamin B2 | 19pl3.3 | 0.4365 | 6 | rs3729535 | 0.14381 | |
| PTPN13 | Protein tyrosine phosphatase, non-receptor type 13 | 4q21.3 | 0.4500 | 22 | rs989902 | 0.08045 | |
| CASP9 | Caspase 9, apoptosis-related cysteine peptidase | lp36.21 | 0.4541 | 9 | rs2042370 | 0.14994 | |
| CASP3 | Caspase 3, apoptosis-related cysteine peptidase | 4q34 | 0.4695 | 2 | rs2720376 | 0.27083 | |
| BIRC3 | Baculoviral IAP repeat containing 3 | llq22 | 0.5177 | 2 | rs2846848 | 0.34858 | |
| BIRC5 | Baculoviral IAP repeat containing 5 | 17q25 | 0.5409 | 11 | rsl042541 | 0.13041 | |
| Fas | Fas (TNFRSF6)-associated via death domain | 10q24.1 | 0.5511 | 22 | rsl2765241 | 0.10180 | |
| BIRC2 | Baculoviral IAP repeat containing 2 | llq22 | 0.5561 | 2 | rsl0895290 | 0.34386 | |
| CRADD | CASP2 and RIPK1 domain containing adaptor with death | 12q21.33- | 0.5777 | 54 | rs3858606 | 0.03034 | |
| domain | q23.1 | ||||||
| LMNA | Lamin A/C | lq22 | 0.6312 | 4 | rs915179 | 0.23595 | |
| FADD | Fas (TNFRSF6)-associated via death domain | llql3.3 | 0.6406 | 4 | rs481845 | 0.27200 | |
| CYCS | Cytochrome C | 7pl5.3 | 0.6612 | 4 | rs2285738 | 0.28806 | |
| RIPK2 | Receptor-interacting serine-threonine kinase 2 | 8q21 | 0.6922 | 10 | rs39765 | 0.19500 | |
| SUM01 | SMT3 suppressor of mif two 3 homolog 1 (S. cerevisiae) | 2q33 | 0.7013 | 2 | rs7599810 | 0.52176 | |
| MAPK3 | Mitogen-activated protein kinase 3 | 16pll.2 | 0.7641 | 3 | rs8061772 | 0.43900 | |
| DFFA | DNA fragmentation factor, 45kDa, alpha polypeptide | Ip36.3-p36.2 | 0.7834 | 5 | rs2781233 | 0.34981 | |
| LMNB1 | Lamin B1 | 5q23.2 | 0.7837 | 16 | rs3828699 | 0.24698 | |
| CHUK | Conserved helix-loop-helix ubiquitous kinase | 10q24-q25 | 0.8072 | 5 | rs7073610 | 0.36423 | |
| NFKB1 |
nuclear factor of kappa light polypeptide gene enhancer in
B-cells 1 |
4q24 | 0.8118 | 15 | rs3774937 | 0.22925 | |
| JUN | Jun proto-oncogene | 1p32-p31 | 0.8298 | 4 | rs2760494 | 0.38830 | |
| FasLG | Fas (TNFRSF6) ligand | 1q23 | 0.8412 | 7 | rs2859228 | 0.30806 | |
| SMPD2 | Sphingomyelin phosphodiesterase 2, neutral membrane | 6q21 | 0.8893 | 4 | rs1476387 | 0.49245 | |
| DAXX | Death-domain associated protein | 6p21.3 | 0.9446 | 4 | rs3130267 | 0.72723 | |
The pathway P-value (P*) for all 53 genes is indicated. Gene-based P-values (Pg) are shown in order of lowest to highest P-value. The most significant SNP (nonminal P-value (Pn)) in each gene is indicated. Genes with Pg <0.05, are highlighted in grey. Abbreviations (Abbtn): GC, gastric carcinoma; SNP, single nucleotide polymorphism.