Online Supplementary Figure 3 Eggers plot showing publication
Online Supplementary Figure 3: Egger’s plot showing publication bias in studies reviewed. Regression asymmetry graph plots of the standardized effect estimates, where standardized effect size is defined by odds ratio (OR) / standard error of the OR, and precision by 1 / standard error of the OR. Also show is regression line and the confidence interval about the intercept. Failure of this confidence interval to include zero indicates asymmetry in the funnel plot and may give evidence of publication bias. (A) MTHFR C 677 T, (i) CT vs. TT, (ii) TT vs. CC and (iii) CT+TT vs. CC; (B) MTHFR A 1298 C, (i) AC vs. AA, (ii) CC vs. AA and (iii) AC+CC vs. AA; (C) MTR A 2756 G, (i) AG vs. AA, (ii) GG vs. AA and (iii) AG+GG vs. AA; (D) MTRR A 66 G, (i) AG vs. AA, (ii) GG vs. AA and (iii) AG+GG vs. AA; (E) SHMT 1 C 1420 T, (i) CT vs. CC, (ii) TT vs. CC and (iii) CT+TT vs. CC; (F) RFC 1 G 80 A, (i) GA vs. GG, (ii) AA vs. GG and (iii) GA+AA vs. GG; (G) TS 2 R>3 R, (i) 2 R/3 R vs. 2 R/2 R, (ii) 3 R/3 R vs. 2 R/2 R and (iii) 2 R/3 R+3 R/3 R vs. 2 R/2 R; (H) NQO 1 C 609 T, (i) CT vs. TT, TT vs. CC and (iii) CT+TT vs. CC; (I) NQO 1 C 465 T, (i) CT vs. TT and (ii) CT+TT vs. CC; (J) GSTT 1 & GSTM 1, (i) GSTT 1, Null vs. Present, (ii) GSTM 1, Null vs. Present; (K) GSTP 1 A 1578 G, (i) AG vs. AA, (ii) GG vs. AA and (iii) AG+GG vs. AA; (L) GSTP 1 C 2293 T, (i) CT vs. TT and (ii) CT+TT vs. CC; (M) CYP 1 A 1 T 6235 C, (i) TC vs. TT, (ii) CC vs. TT and (iii) TC+CC vs. TT; (N) CYP 1 A 1 A 4889 G, (i) AG vs. AA, (ii) GG vs. AA and (iii) AG+GG vs. AA; (O) CYP 2 D 6 G 1934 A, (i) GA vs. GG, (ii) AA vs. GG and (iii) GA+AA vs. GG; (P) CYP 2 D 6 *3, (i) Heterozygous model and (ii) carrier status; (Q) CYP 2 E 1*5 B, (i) Heterozygous model and (ii) carrier status; (R) MDR 1 C 3435 T, (i) CT vs. CC, (ii) TT vs. CC and (iii) CT+TT vs. CC; (S) MDR 1 G 2677 T/A, (i) Heterozygous model, (ii) Homozygous model and (iii) carrier status; (T) XRCC 1 C 26304 T, (i) CT vs. TT, (ii) TT vs. CC and (iii) CT+TT vs. CC; (U) XRCC 1 G 28152 A, (i) GA vs. GG, (ii) AA vs. GG and (iii) GA+AA vs. GG; (V) XRCC 1 G 27466 A, (i) GA vs. GG and (ii) GA+AA vs. GG; (W) ERCC 2 G 23591 A, (i) GA vs. GG, (ii) AA vs. GG and (iii) GA+AA vs. GG; (X) ERCC 2 A 35931 C, (i) AC vs. AA, (ii) CC vs. AA and (iii) AC+CC vs. AA. (Y) MTHFR C 677 T, B cell ALL only, (i) CT vs. TT, (ii) TT vs. CC and (iii) CT+TT vs. CC; (Z) GSTT 1 & GSTM 1, B cell ALL only (i) GSTT 1, Null vs. Present, (ii) GSTM 1, Null vs. Present.
2 i. MTHFR C 677 T CT vs. CC standardized effect 1 0 -1 0 5 precision 10 standardized effect . 5 0 ii. MTHFR C 677 T TT vs. CC -. 5 -1 0 2 precision 4 6 2 standardized effect 1 iii. MTHFR C 677 T CT+TT vs. CC 0 -1 -2 0 5 precision 10 Figure 2. A
2 standardized effect 1 i. MTHFR A 1298 C AC vs. AA 0 -1 -2 0 5 precision 10 standardized effect 1 ii. MTHFR A 1298 C CC vs. AA 0 -1 0 2 precision 4 6 2 standardized effect 1 iii. MTHFR A 1298 C AC+CC vs. AA 0 -1 -2 0 5 precision 10 Figure 2. B
standardized effect 2 0 i. MTR A 2756 G AG vs. AA -2 -4 0 2 4 precision 6 8 standardized effect 2 0 ii. MTR A 2756 G GG vs. AA -2 -4 0 1 precision 2 3 standardized effect 2 0 iii. MTR A 2756 G GG+AG vs. AA -2 -4 0 2 4 precision 6 8 Figure 2. C
standardized effect 5 0 i. MTRR A 66 G AG vs. AA -5 0 2 precision 4 6 10 standardized effect 5 ii. MTRR A 66 G GG vs. AA 0 -5 0 2 precision 4 6 standardized effect 5 iii. MTRR A 66 G GG+AG vs. AA 0 -5 0 2 precision 4 6 Figure 2. D
0 standardized effect -. 5 i. SHMT 1 C 1420 T CT vs. CC -1 -1. 5 -2 0 2 4 precision 6 8 2 ii. SHMT 1 C 1420 T TT vs. CC standardized effect 0 -2 -4 -6 0 2 precision 4 standardized effect 0 -1 iii. SHMT 1 C 1420 T CC+CT vs. CC -2 -3 0 2 4 precision 6 8 Figure 2. E
1 . 5 0 -. 5 0 2 4 precision 6 8 ii. RFC 1 G 80 A AA vs. GG 8 6 standardized effect 4 2 0 0 2 precision 4 6 2 iii. RFC 1 G 80 A GA+AA vs. GG standardized effect i. RFC 1 G 80 A GA vs. GG 1. 5 1 . 5 0 0 2 4 precision 6 8 Figure 2. F
standardized effect 1 i. TS 2 R>3 R 2 R/3 R vs. 2 R/2 R . 5 0 -. 5 0 2 precision 4 6 2 standardized effect 1 ii. TS 2 R>3 R 3 R/3 R vs. 2 R/3 R 0 -1 -2 0 2 precision 4 6 2 standardized effect 1 0 iii. TS 2 R>3 R 2 R/3 R+3 R/3 R vs. 2 R/2 R -1 -2 0 2 precision 4 6 Figure 2. G
standardized effect 5 i. NQO 1 C 609 T CT vs. CC 0 -5 0 2 precision 4 6 1 ii. NQO 1 C 609 T TT vs. CC 0 -1 0 1 precision 2 3 6 iii. NQO 1 C 609 T CT+TT vs. CC 4 standardized effect 2 2 0 -2 0 2 precision 4 6 Figure 2. H
standardized effect 1. 5 1 i. NQO 1 C 465 T, heterozygous . 5 0 0 1 2 precision 3 4 standardized effect 1. 5 1 ii. NQO 1 C 465 T, carrier status . 5 0 0 1 2 precision 3 4 Figure 2. I
1 standardized effect . 5 i. GSTT 1, Null vs. Present 0 -. 5 -1 0 2 precision 4 6 standardized effect 2 1 ii. GSTM 1, Null vs. Present 0 -1 0 2 4 precision 6 8 Figure 2. J
1 standardized effect 0 i. GSTP 1 A 1578 G AG vs. AA -1 -2 0 2 precision 4 6 standardized effect 1 . 5 ii. GSTP 1 A 1578 G GG vs. AA 0 -. 5 0 1 2 precision 3 4 . 5 standardized effect 0 iii. GSTP 1 A 1578 G AG+GG vs. AA -. 5 -1 -1. 5 0 2 4 precision 6 8 Figure 2. K
1. 5 i. GSTP 1 C 2293 T CT vs. CC . 5 0 -. 5 0 1 2 precision 3 4 2 ii. GSTP 1 C 2293 T CT+TT vs. CC 1 standardized effect 1 0 -1 0 1 2 precision 3 4 Figure 2. L
20 standardized effect 10 i. CYP 1 A 1 T 6235 C TC vs. TT 0 -10 0 1 2 precision 3 4 2 standardized effect 1 0 ii. CYP 1 A 1 T 6235 C CC vs. TT -1 -2 0 1 precision 2 3 standardized effect 20 10 iii. CYP 1 A 1 T 6235 C CT+CC vs. TT 0 -10 0 1 2 precision 3 4 Figure 2. M
50 standardized effect i. CYP 1 A 1 A 4889 G AG vs. AA 0 -50 0 1 2 precision 3 4 20 standardized effect 10 0 ii. CYP 1 A 1 A 4889 G GG vs. AA -10 -20 0 . 5 1 precision 1. 5 2 standardized effect 50 0 iii. CYP 1 A 1 A 4889 G AG+GG vs. AA -50 0 1 2 precision 3 4 Figure 2. N
standardized effect 5 i. CYP 2 D 6 G 1934 A GA va GG 0 -5 0 2 precision 4 6 standardized effect . 6 . 4 ii. CYP 2 D 6 G 1934 A AA vs. GG . 2 0 0 . 5 1 precision 1. 5 2 standardized effect 5 0 iii. CYP 2 D 6 G 1934 A AA + GA vs. GG -5 -10 0 2 precision 4 6 Figure 2. O
standardized effect 0 -. 5 i. CYP 2 D 6*3 , Heterozygous. -1 -1. 5 0 . 5 1 precision 1. 5 2 standardized effect 0 -. 5 ii. CYP 2 D 6*3 , Carrier status -1 -1. 5 0 1 precision 2 Figure 2. P
10 standardized effect i. CYP 2 E 1 *5 B, Heterozygous 5 0 -5 0 1 precision 2 3 standardized effect 10 5 ii. CYP 2 E 1 *5 B, Carrier status 0 -5 0 1 precision 2 3 Figure 2. Q
standardized effect 2 i. MDR 1 C 3435 T CT vs. CC 0 -2 0 2 precision 4 6 4 standardized effect 2 ii. MDR 1 C 3435 T TT vs. CC 0 -2 -4 0 2 precision 4 6 standardized effect 2 0 iii. MDR 1 C 3435 T CT+TT vs. CC -2 -4 0 2 precision 4 6 Figure 2. R
1. 5 standardized effect 1 i. MDR 1 G 2677 T/A Heterozygous model . 5 0 0 2 precision 4 6 standardized effect 0 ii. MDR 1 G 2677 T/A Homozygous model -10 -20 0 2 precision 4 . 2 standardized effect 0 iii. MDR 1 G 2677 T/A Carrier status -. 2 -. 4 -. 6 0 2 precision 4 6 Figure 2. S
20 i. XRCC 1 C 26304 T CT vs. CC standardized effect 10 0 -10 -20 0 2 precision 4 40 ii. XRCC 1 C 26304 T TT vs. CC standardized effect 20 0 -20 -40 0 . 5 precision 1 1. 5 standardized effect 20 iii. XRCC 1 C 26304 T CT+TT vs. CC 0 -20 0 2 precision 4 Figure 2. T
5 standardized effect i. XRCC 1 G 28152 A GA vs. GG 0 -5 -10 0 1 2 precision 3 4 10 ii. XRCC 1 G 28152 A AA vs. GG standardized effect 0 -10 -20 -30 0 1 precision 2 standardized effect 10 iii. XRCC 1 G 28152 A GA+AA vs. GG 0 -10 -20 0 2 precision 4 Figure 2. U
standardized effect 2 i. XRCC 1 G 27466 A GA vs. GG 0 -2 -4 0 1 2 precision 3 4 2 standardized effect 0 ii. XRCC 1 G 27466 A GA+AA vs. GG -2 -4 -6 0 1 2 precision 3 4 Figure 2. V
8 i. ERCC 2 G 23591 A GA vs. GG standardized effect 6 4 2 0 0 1 precision 2 3 0 ii. ERCC 2 G 23591 A AA vs. GG standardized effect -. 1 -. 2 -. 3 0 . 5 1 precision 1. 5 2 0 standardized effect iii. ERCC 2 G 23591 A AA+GA vs. GG -5 -10 -15 0 1 precision 2 3 Figure 2. W
standardized effect 0 i. ERCC 2 A 35931 AC vs. AA -. 1 -. 2 0 1 2 precision 3 4 1. 5 ii. ERCC 2 A 35931 C CC vs. AA standardized effect 1 . 5 0 0 . 5 1 precision 1. 5 2 . 5 standardized effect iii. ERCC 2 A 35931 C CC+AC vs. AA 0 -. 5 -1 0 1 2 precision 3 4 Figure 2. X
standardized effect 0 i. MTHFR C 677 T CT vs. CC -2 -4 0 1 2 precision 3 4 standardized effect 1 0 ii. MTHFR C 677 T TT vs. CC -1 -2 0 . 5 1 precision 1. 5 2 standardized effect 0 iii. MTHFR C 677 T CT+TT vs. CC -2 -4 0 1 2 precision 3 4 Figure 2. Y
standardized effect 2 1 i. GSTT 1, Null vs. Present 0 -1 0 2 precision 4 6 standardized effect 4 2 ii. GSTM 1, Null vs. Present 0 -2 0 5 precision 10 Figure 2. Z
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