Table 1. Proportion of X-linkage for different SNP categories.
| SNP class | Gene 1 type | Median | 95% CI 2 | V | P 3 | 95% CI 4 | DF | W | P 5 |
|---|---|---|---|---|---|---|---|---|---|
| All trans | SCV | 0.095 | 0.08–0.11 | 2320 | <0.0001 | - | - | - | - |
| SDV.all | 0.140 | 0.13–0.18 | 4042 | 0.2111 | 0.02–0.07 | 1 | 9955 | 0.0004 | |
| SDV.F | 0.156 | 0.13–0.21 | 1539 | 0.0831 | 0.03–0.09 | 1 | 6083 | 0.0003 | |
| SDV.M | 0.102 | 0.09–0.15 | 663 | 0.2723 | -0.01–0.05 | 1 | 4005 | 0.4133 | |
| - Intergenic | SCV | 0.071 | 0.07–0.10 | 1787 | <0.0001 | - | - | - | - |
| SDV.all | 0.097 | 0.09–0.17 | 3185 | 0.5662 | -0.00–0.06 | 1 | 8273 | 0.0548 | |
| SDV.F | 0.128 | 0.11–0.22 | 1212 | 0.4966 | 0.0–0.09 | 1 | 5020 | 0.0122 | |
| SDV.M | 0.058 | 0.05–0.13 | 483 | 0.0251 | -0.01–0.01 | 1 | 3347 | 0.9286 | |
| - Genic | SCV | 0.098 | 0.09–0.12 | 2786 | 0.0002 | - | - | - | - |
| SDV.all | 0.145 | 0.13–0.19 | 4121 | 0.1012 | 0.01–0.08 | 1 | 9639 | 0.0018 | |
| SDV.F | 0.147 | 0.13–0.20 | 1490 | 0.1479 | 0.01–0.09 | 1 | 5752 | 0.0057 | |
| SDV.M | 0.137 | 0.10–0.18 | 730 | 0.9177 | -0.00–0.06 | 1 | 4033 | 0.1869 | |
| - -Exon | SCV | 0.053 | 0.07–0.11 | 2448 | <0.0001 | - | - | - | - |
| SDV.all | 0.089 | 0.11–0.17 | 3378 | 0.9098 | -0.00–0.05 | 1 | 7412 | 0.0770 | |
| SDV.F | 0.105 | 0.11–0.19 | 1156 | 0.7478 | -0.00–0.07 | 1 | 4137 | 0.2391 | |
| SDV.M | 0.077 | 0.09–0.18 | 654 | 0.7530 | -0.00–0.06 | 1 | 3346 | 0.1262 | |
| - -Intron | SCV | 0.094 | 0.09–0.12 | 3021 | 0.0013 | - | - | - | - |
| SDV.all | 0.156 | 0.13–0.19 | 4117 | 0.1031 | 0.00–0.08 | 1 | 9346 | 0.0086 | |
| SDV.F | 0.165 | 0.13–0.21 | 1551 | 0.0713 | 0.00–0.10 | 1 | 5599 | 0.0169 | |
| SDV.M | 0.123 | 0.09–0.17 | 720 | 0.6778 | -0.01–0.06 | 1 | 3917 | 0.3289 |
P-values for testing whether the median proportion of X-linkage for different SNP categories departs from the expected 0.137, and for testing whether X-linkage differs between SNP categories.
1SNPs are divided into those with a sexually concordant (SCV) and sexually discordant (SDV) effect on gene expression. SDV SNPs are further decomposed onto the categories SDV.M or SDV.F, which represents SNPs with a male- or female-biased effect size.
295% CI of the median proportion of X-linked SNPs.
3Two-tailed P-values (Wilcoxon test) testing if the X-linked proportion differs from 0.137.
495% CI of the difference in the median proportion of X-linkage for SDV SNP category and SCV SNPs
5Two-tailed P-values (Wilcoxon test) testing for a difference in X-linkage between SDV SNP category and SCV SNPs
Note: Not all genes had SNPs that passed the P-value threshold, and some genes had no SNPs which passed the P-value threshold for a certain SNP-class. All trans SNPs N = 133 (SCV), N = 119 (SDV); Intergenic SNPs N = 125 (SCV), N = 116 (SDV); Genic SNPs N = 133 (SCV), N = 118 (SDV); Exon SNPs N = 119 (SCV), N = 110 (SDV); Intron SNPs N = 133 (SCV), N = 118 (SDV).