Table 4 Top ten SNPs with the strongest effects from whole-genome prediction using Bayes-B method fitting all SNPs as random effects.
SNP name | Chromosome: base pair | Alleles | Major allele | MAFa | Gene nameb | Distance from gene | Effect |
|---|---|---|---|---|---|---|---|
rs11179382 | 12: 72820377 | C/T | T | 0.269 | A lncRNA with ensemble code ID ENSG00000258235 | 91 Kb downstream | −0.26015 |
rs2077507 | 3: 11576994 | A/G | A | 0.287 | Vestigial-like family member 4 (VGLL4) | Body | −0.25294 |
rs660895 | 6: 32609603 | A/G | A | 0.198 | Major histocompatibility complex, class II, DQ alpha 1 (HLA-DQA1) | 19 Kb upstream | −0.16400 |
rs2395175 | 6: 32437249 | A/G | G | 0.098 | Major histocompatibility complex, class II, DR alpha (HLA-DRA) | 2.6 Kb upstream | −0.10898 |
rs2395163 | 6: 32420032 | C/T | T | 0.153 | Butyrophilin-like 2 (BTNL2) | 13 Kb downstream | −0.09879 |
rs1004664 | 14: 24424005 | G/T | T | 0.376 | KH and NYN domain containing (KHNYN) | Body | −0.08766 |
rs3763309 | 6: 32408196 | A/C | C | 0.150 | Butyrophilin-like 2 (BTNL2) | Body | −0.07728 |
rs2395157 | 6: 32380368 | A/G | A | 0.208 | A ncRNA LOC101929163 (uncharacterized) | Body | −0.06514 |
rs3817963 | 6: 32400310 | A/G | A | 0.257 | Butyrophilin-like 2 (BTNL2) | Body | −0.05923 |
rs6910071 | 6: 32315077 | A/G | A | 0.105 | Chromosome 6 open reading frame 10 (C6orf10) | Body | −0.05694 |
