Table 2.
Genome-wide significant SNPs associated with PUD in the UK Biobank.
| Digestion phenotypes | SNP* | CHR. | BP | A1/A2 | A1 frequency | OR† | P | Nearby genes‡ | Digestive diseases pleiotropy§ | Mental health pleiotropy§ |
|---|---|---|---|---|---|---|---|---|---|---|
| PUD | rs681343 | 19 | 49206462 | C/T | 0.49 | 0.92 | 1.9E−15 | FUT2 | Diarrheal disease, Crohn’s disease, IBD, and Gallstone disease | – |
| rs2976388 | 8 | 143760256 | G/A | 0.58 | 1.09 | 1.8E−14 | PSCA | Duodenal ulcer, gastric atrophy, and gastric cancer | – | |
| rs10500661 | 11 | 6273744 | T/C | 0.80 | 0.90 | 4.1E−14 | CCKBR | – | – | |
| rs147048677 | 1 | 155161794 | C/T | 0.94 | 0.86 | 9.0E−12 | MUC1 | – | – | |
| rs78459074 | 11 | 1029905 | A/G | 0.89 | 1.12 | 2.6E−10 | MUC6 | – | – | |
| rs34074411 | 17 | 39867248 | C/T | 0.56 | 0.93 | 2.6E−10 | GAST | – | – | |
| rs687621 | 9 | 136137065 | A/G | 0.68 | 1.08 | 1.3E−09 | ABO | Duodenal ulcer, Gastric cancer, and pancreatic cancer | – | |
| rs9581957 | 13 | 28557889 | C/T | 0.68 | 0.93 | 3.6E−09 | CDX2 | – | – |
*Locus zoom plot for SNPs are in Supplementary Fig. 4.
†Odds ratio (OR) is for risk of A1 allele compared to A2 allele.
‡We note that we do not have direct evidence to support the nearby genes as causal genes, except when linked to gene expression (see Summary data-based Mendelian randomization analysis at the links to gene expression, eQTLs, and mQTLs section).
§We only annotated SNPs if there are SNPs reported associated with either mental health-related traits or digestive diseases from GWAS Catalog in linkage disequilibrium with our UKB digestion SNPs (see “Methods” section and Supplementary Data 1 for detailed description).
IBD inflammatory bowel diseases.