Supplementary Figure S1. Graphical display of re-meta-analyses results after the HWE-deviation studies were removed.
Supplementary Figure S2. Graphical display of random-effects meta-analyses results showing no significant summary ORs. Summary ORs and 95% CI values were calculated with all ethnic populations.
Supplementary Figure S3. Graphical display of the summary OR and 95% CI using one study removed procedure. The summary OR and 95% CI represented the summary computations when a study is removed from the meta analysis.
Supplementary Figure S4. Graphical display of the summary OR and 95% CI using meta-cumulative method. The summary OR and 95% CI was calculated as
accumulated over successive studies from the earliest to the latest.
Supplementary Figure S5. Funnel plots for publication bias test by log odds ratio against precision (the inverse of standard error). Egger’s linear regression test was used. Blue cycles and blue filled diamond represented individual studies and summary ORs. Red cycles and red filled diamond showed imputed missing studies and imputed OR.
Supplementary Table S1. Overview of all 24 SNVs had substantial data at least two population-based case-control studies which were meta-analyzed in this study
Gene Polymorphism Result Sample Author Year Ethnicity PubMed ID HWE P-value CTLA-4 rs231775 Positive 3
Liu Y Wang W
Qiao G
2011 2011 2016
China China China
21612409 21453059
EMBASE:20160498603
0.030 0.130 0.799 CTLA-4 rs5742909 Positive 2 Liu Y
Qiao G
2011 2016
China China
21612409 EMBASE:201604
98603
0.721 0.381 ERCC2 rs13181 Negative 2 Gómez-Díaz B
Ma X
2015 2016
Mexican China
25789018 27051024
0.427 0.000 ERCC2 rs1799793 Negative 2 Gómez-Díaz B
Ma X
2015 2016
Mexican China
25789018 27051024
0.000 0.476 GRM4 rs1906953 Negative 2 Wang K
Jiang C
2016 2014
China China
26276359 24984297
0.879 0.700 IL-8 rs4073 Positive 2 Chen Y
Tian X
2016 2016
China China
26615418
EMBASE:20160581510
0.001 0.000 IL-6 rs1800795 Negative 2 Oliveira ID
Qi Y
2007 2016
Caucasians China
17483704 26810186
0.405 0.000 IL-10 rs1800896 Negative 2 Oliveira ID
Cui Y
2007 2016
Caucasians China
17483704 26503210
0.814 0.000 MDM2 rs1690916 Positive 2 Naumov VA
Mirabello L
2012 2011
Russia Caucasians
23113306 21619704
0.969 0.040 PRCKG rs2242245 Negative 2 Lu H
Zhang Y
2015 2014
China China
25663494 25252845
0.130 0.364 PRCKG rs454006 Positive 2 Lu H
Zhang Y
2015 2014
China China
25663494 25252845
0.131 0.023 PRCKG rs8103851 Negative 2 Lu H
Zhang Y
2015 2014
China China
25663494 25252845
0.059 0.048
RECQL5 rs820196 Positive 2 Dong YZ
Zhi LQ
2015 2014
China China
25867335 24287950
0.075 0.034 TGF-β1 rs1800469 Negative 2 Xu S
Wu Y
2014 2015
China China
25098449 25663491
0.654 0.642 TGF-β1 rs1800470 Negative 2 Xu S
Wu Y
2014 2015
China China
25098449 25663491
0.623 0.124 TNF-α rs1800629 Positive 2 Oliveira ID
Zhao Z
2007 2015
Caucasians China
17483704 26097610
0.012 0.141 TP53 rs1042522 Positive 2 Ru JY
Toffoli G
2015 2009
China Caucasians
26045840 19451596
0.637 0.416
VEGF rs10434 Negative 6
Liu JQ Hu GL Zhang G
Li-Lian Tie Z Wang Z
2015 2015 2015 2015 2014 2014
China China China China China China
26622695 26600515 26345754 26101492 25550863 24310504
0.821 0.571 0.579 0.874 0.791 0.841 VEGF rs1570360 Negative 3
Li-Lian Liu JQ
Tie Z
2015 2015 2014
China China China
26101492 26622695 25550863
0.265 0.000 0.000
VEGF rs2010963 Positive 6
Liu JQ Hu GL Zhang G
Li-Lian Tie Z Wang Z
2015 2015 2015 2015 2014 2014
China China China China China China
26622695 26600515 26345754 26101492 25550863 24310504
0.633 0.513 0.956 0.671 0.341 0.977
Liu JQ 2015 China 26622695 0.011
Supplementary Table S2. 123 SNVs for which data had been reported less than two population based case-control samples did not be meta-analyzed in this study
Gene Polymorphism Author Year PubMed ID
8q24 SNPs rs185852 Mirabello L 2010 20530236 8q24 SNPs rs896324 Mirabello L 2010 20530236 8q24 SNPs rs10808555 Mirabello L 2010 20530236 8q24 SNPs rs17766217 Mirabello L 2010 20530236 8q24 SNPs rs12155672 Mirabello L 2010 20530236 8q24 SNPs rs7386167 Mirabello L 2010 20530236 8q24 SNPs rs9642880 Mirabello L 2010 20530236
AKT rs6973569 He ML 2013 24175786 ARHGAP35 rs1052667 Zhao J 2014 25136583
BMP2 rs235764 Cong Y 2015 25391427 BMP2 rs3178250 Cong Y 2015 25391427 BMP2 rs235768 Cong Y 2015 25391427 BMP2 rs1005464 Cong Y 2015 25391427 BMP2 rs235770 Cong Y 2015 25391427
CD86 rs1129055 Wang W 2011 21563968 CNOT1 rs11866002 Bilbao-Aldaiturriaga
N 2015 25663449 CNOT4 rs3812265 Bilbao-Aldaiturriaga
N 2015 25663449 COL18A1 rs12483377 Guo Z 2015 26617886
COL1A1 rs1061970 He M 2014 24072491 COL1A1 rs2075559 He M 2014 24072491 CTLA-4 rs3087243 Liu Y 2011 21612409 CTLA-4 rs4553808 Liu Y 2011 21612409 ERCC1 rs11615 Gómez-Díaz B 2015 25789018 ERCC3 rs4150441 Ma X 2016 27051024 ERCC3 rs4150506 Ma X 2016 27051024
Fas rs2234767 Koshkina NV 2007 18090928 Fas rs1800682 Koshkina NV 2007 18090928 Fas rs2229521 Koshkina NV 2007 18090928 Fas rs2234978 Koshkina NV 2007 18090928 FGF2 rs11737764 Wang J 2015 26131213 GRM4 rs10208273 Jiang C 2014 24984297 GRM4 rs17206779 Jiang C 2014 24984297 GRM4 rs7591996 Jiang C 2014 24984297 GRM4 rs2229901 Wang K 2016 26276359 GRM4 rs733457 Wang K 2016 26276359
HER2 rs2952155 Xin DJ 2015 26464710 HER2 rs1810132 Xin DJ 2015 26464710
HER2 rs2952156 Xin DJ 2015 26464710 HER2 rs1136201 Xin DJ 2015 26464710 HER2 rs1058808 Xin DJ 2015 26464710 HOTAIR rs4759314 Zhou Q 2016 26967389 HOTAIR rs874945 Zhou Q 2016 26967389 HOTAIR rs7958904 Zhou Q 2016 26967389 hsa-miR-124a rs531564 Zuo-Wei Shia 2016 27540978
IGF2R rs1570070 Savage SA 2007 17684144 IGF2R rs894817 Savage SA 2007 17684144 IGF2R rs998075 Savage SA 2007 17684144 IGF2R rs998074 Savage SA 2007 17684144 IGF2R rs629849 Savage SA 2007 17684144 IGF2R rs2282140 Savage SA 2007 17684144 IGF2R rs1803989 Savage SA 2007 17684144 IL-10 rs1800871 Cui Y 2016 26503210 IL-10 rs1800872 Cui Y 2016 26503210 IL-12A rs568408 Wang J 2013 23991654 IL-12A rs2243115 Wang J 2013 23991654 IL-12A rs3212227 Wang J 2013 23991654 IL-16 rs4778889 Tang YJ 2016 27703190 IL-16 rs11556218 Tang YJ 2016 27703190 IL-16 rs4072111 Tang YJ 2016 27703190 IL-1B rs1143627 He Y 2014 24878968 IL-1B rs16944 He Y 2014 24878968 IL-1B rs1143634 He Y 2014 24878968
IL-27 rs153109 Tang YJ 2014 25170932 IL-27 rs17855750 Tang YJ 2014 25170932 IL-27 rs181206 Tang YJ 2014 25170932
IL-6 rs1800796 Qi Y 2016 26810186 IL-8 rs2227306 Chen Y 2016 26615418 ITGA3 rs2230392 Yang W 2014 24381140 ITGA3 rs2285524 Yang W 2014 24381140 ITGA3 rs16948627 Yang W 2014 24381140
LOX -22 G/C Liu Y 2012 22911823
LOX rs2278226 Liu Y 2012 22911823 LOX rs1800449 Liu Y 2012 22911823 MDM2 rs201821879 He J 2013 23933591 MDM2 rs199812774 He J 2013 23933591 MDM2 rs2279744 Toffoli G 2009 19451596 miR-34b/c rs4938723 Tian Q 2014 24063968
MMP2 rs243865 Cui Y 2016 26754027 MMP-3 rs3025058 Cui Y 2016 26754027 MMP-3 rs679620 Adiguzel M 2016 27145630 MMP-3 rs41380244 Adiguzel M 2016 27145630
MMP9 rs3918242 Cui Y 2016 26754027 MPO rs2333227 Oliveira ID 2007 17483704 MTHFR rs1801133 Ozger H 2008 18498722
MTAP rs7023329 Zhi L 2016 27994653 NAT2 rs1799929 Huang Z 2015 26445549 NAT2 rs1208 Huang Z 2015 26445549 NAT2 rs1041983 Huang Z 2015 26445549 NAT2 rs1801280 Huang Z 2015 26445549 NAT2 rs1799930 Huang Z 2015 26445549 NAT2 rs1799931 Huang Z 2015 26445549 NAT2 rs1801279 Huang Z 2015 26445549 NBN rs709816 Jin G 2015 26101473 NBN rs1805794 Jin G 2015 26101473 NFKB1 rs28362491 Li X 2015 25785149 PECAM-1 rs688 Oliveira ID 2007 17483704
PIK3CA rs7646409 He ML 2013 24175786 PIK3CA rs9866361 He ML 2013 24175786 PON1 192 rs662 Ergen A 2011 21104436
PON1 55 rs854560 Ergen A 2011 21104436
PRCKG rs2547362 Lu H 2015 25663494 PRCKG rs3745406 Lu H 2015 25663494 RAD51 rs1801320 Jin G 2015 26101473 RAD51 rs1801321 Jin G 2015 26101473 RAD51 rs12593359 Jin G 2015 26101473 RECQL5 rs820200 Zhi LQ 2014 24287950 RECQL5 rs4789223 Zhi LQ 2014 24287950
SND1 rs3823994 Bilbao-Aldaiturriaga
N 2015 25663449 TGF-β1 rs1982073 Wu Y 2015 25663491
TNF-b rs909253 Oliveira ID 2007 17483704 TNF-α rs361525 Zhao Z 2015 26097610 TP53 rs12602273 Ru JY 2015 26045840 TP53 rs12951053 Ru JY 2015 26045840 TP53 rs8064946 Ru JY 2015 26045840 TP53 rs9895829 Ru JY 2015 26045840 WWOX rs10220974 Zhang N 2016 26929649 WWOX rs12918952 Zhang N 2016 26929649 WWOX rs3764340 Zhang N 2016 26929649 WWOX rs1074963 Zhang N 2016 26929649 WWOX rs383362 Zhang N 2016 26929649 WWOX rs1424110 Zhang N 2016 26929649 WWOX rs12828 Zhang N 2016 26929649 XRCC3 rs861539 Jin G 2015 26101473
