TABLE 1.
The number of cis-eQTLs, eSNPs and eGenes in each chromosome.
| CHR | Cis-eQTLs | GWAS SNPs |
eSNPs |
eGenes |
||||||||
| Genotyped Genotyped | Imputed | Total | l eQTL | 2 eQTLs | >3 eQTLs | Total | Proportion (%)a | Genes | eGenes | Proportion (%)b | ||
| 1 | 11,420 | 43,125 | 460,009 | 503,134 | 8,178 | 926 | 378 | 9,482 | 1.9 | 2,280 | 360 | 15.8 |
| 2 | 12,314 | 42,445 | 492,868 | 535,313 | 7,395 | 947 | 1,006 | 9,348 | 1.7 | 1,580 | 287 | 18.2 |
| 3 | 7,487 | 35,633 | 434,092 | 469,725 | 4,931 | 1,161 | 78 | 6,170 | 1.3 | 1,296 | 210 | 16.2 |
| 4 | 6,768 | 30,082 | 448,317 | 478,399 | 4,218 | 341 | 456 | 5,015 | 1.0 | 854 | 174 | 20.4 |
| 5 | 6,341 | 31,540 | 383,596 | 415,136 | 3,777 | 811 | 310 | 4,898 | 1.2 | 1,043 | 192 | 18.4 |
| 6 | 15,859 | 35,863 | 427,405 | 463,268 | 9,345 | 2,644 | 403 | 12,392 | 2.7 | 1,066 | 224 | 21.0 |
| 7 | 7,180 | 28,274 | 355,223 | 383,497 | 4,331 | 1,145 | 156 | 5,632 | 1.5 | 1,083 | 216 | 19.9 |
| 8 | 3,781 | 27,460 | 327,106 | 354,566 | 2,968 | 345 | 40 | 3,353 | 0.9 | 806 | 158 | 19.6 |
| 9 | 3,376 | 24,614 | 259,305 | 283,919 | 2,290 | 366 | 98 | 2,754 | 1.0 | 916 | 141 | 15.4 |
| 10 | 8,172 | 28,916 | 308,710 | 337,626 | 5,568 | 1,126 | 86 | 6,780 | 2.0 | 842 | 157 | 18.6 |
| 11 | 6,204 | 27,091 | 294,143 | 321,234 | 4,382 | 803 | 72 | 5,257 | 1.6 | 1,220 | 196 | 16.1 |
| 12 | 11,754 | 26,471 | 287,778 | 314,249 | 4,257 | 977 | 1,184 | 6,418 | 2.0 | 1,194 | 255 | 21.4 |
| 13 | 1,633 | 20,487 | 217,333 | 237,820 | 1,182 | 218 | 5 | 1,405 | 0.6 | 392 | 66 | 16.8 |
| 14 | 3,997 | 17,482 | 194,929 | 212,411 | 2,756 | 481 | 93 | 3,330 | 1.6 | 817 | 133 | 16.3 |
| 15 | 4,507 | 16,715 | 165,539 | 182,254 | 2,557 | 641 | 222 | 3,420 | 1.9 | 769 | 136 | 17.7 |
| 16 | 4,254 | 16,922 | 171,964 | 188,886 | 2,262 | 578 | 184 | 3,024 | 1.6 | 1,054 | 168 | 15.9 |
| 17 | 6,265 | 14,941 | 143,621 | 158,562 | 3,929 | 724 | 245 | 4,898 | 3.1 | 1,329 | 211 | 15.9 |
| 18 | 1,846 | 16,131 | 164,466 | 180,597 | 1,274 | 112 | 116 | 1,502 | 0.8 | 350 | 68 | 19.4 |
| 19 | 5,366 | 10,993 | 119,710 | 130,703 | 4,050 | 266 | 219 | 4,535 | 3.5 | 1,438 | 222 | 15.4 |
| 20 | 2,183 | 13,804 | 122,336 | 136,140 | 1,881 | 151 | 0 | 2,032 | 1.5 | 556 | 80 | 14.4 |
| 21 | 1,381 | 7,919 | 78,373 | 86,292 | 754 | 180 | 81 | 1,015 | 1.2 | 256 | 59 | 23.0 |
| 22 | 3,076 | 7,727 | 69,655 | 77,382 | 1,563 | 565 | 112 | 2,240 | 2.9 | 577 | 103 | 17.9 |
| Total | 135,164 | 524,635 | 5,926,478 | 6,451,113 | 83,848 | 15,508 | 5,544 | 104,900 | 1.6 | 21,718 | 3,816 | 17.6 |
CHR, chromosome; eQTL, expression quantitative trait loci; GWAS, genome-wide association study; SNP, single nucleotide polymorphism. a Proportion of the eSNPs per chromosome GWA-SNPs. b Proportion of eGenes in total number of genes used for eQTL analysis per chromosome.