rs660895
| Orientation | plus |
| Stabilized | plus |
| Geno | Mag | Summary |
|---|---|---|
| (A;A) | 0 | normal |
| (A;G) | ||
| (G;G) | 2.5 | 6x higher risk of rheumatoid arthritis |
| Reference | GRCh38 38.1/141 |
| Chromosome | 6 |
| Position | 32609603 |
| is a | snp |
| is | mentioned by |
| dbSNP | rs660895 |
| dbSNP (classic) | rs660895 |
| ClinGen | rs660895 |
| ebi | rs660895 |
| HLI | rs660895 |
| Exac | rs660895 |
| Gnomad | rs660895 |
| Varsome | rs660895 |
| LitVar | rs660895 |
| Map | rs660895 |
| PheGenI | rs660895 |
| Biobank | rs660895 |
| 1000 genomes | rs660895 |
| hgdp | rs660895 |
| ensembl | rs660895 |
| geneview | rs660895 |
| scholar | rs660895 |
| rs660895 | |
| pharmgkb | rs660895 |
| gwascentral | rs660895 |
| openSNP | rs660895 |
| 23andMe | rs660895 |
| SNPshot | rs660895 |
| SNPdbe | rs660895 |
| MSV3d | rs660895 |
| GWAS Ctlg | rs660895 |
| GMAF | 0.2089 |
| Max Magnitude | 2.5 |
| ? | (A;A) (A;G) (G;G) | 28 |
|---|---|---|
|
| ||
This SNP, along with SNPs rs6910071 and rs3817964, is a tag SNP for the HLA-DRB1*0401 allele.
The HLA-DRB1*0401 allele has been associated with higher risk for rheumatoid arthritis, and in particular, rheumatoid vasculitis. The association is seen particularly for individuals carrying two copies of, i.e. homozygous for, the allele. The reported odds ratio for rs660895(G;G) homozygotes is 6.2 (CI: 1.01 - 37.9). [PMID 15529352]
The risk for rheumatoid arthritis may be higher for individuals carrying one copy (one "dose") of the HLA-DRB1*0401 allele, if they also carry a different HLA-DRB1 risk allele. In particular, *0401/*0404 individuals are reported to have an odds ratio for rheumatoid vasculitis of 4.1 (CI: 1.1 - 16.2), and *0401/*0101 individuals have an odds ratio of 4.0 (CI: 1.4 - 11.6). [PMID 15529352]
- (A;A) is 0 dose of HLA-DRB1*0401
- (A;G) is 1 dose of HLA-DRB1*0401
| GWAS snp | |
|---|---|
| PMID | [PMID 17804836 ]
|
| Trait | Rheumatoid arthritis |
| Title | TRAF1-C5 as a risk locus for rheumatoid arthritis--a genomewide study |
| Risk Allele | |
| P-val | 1E-108 |
| Odds Ratio | 3.62 [NR] |
[PMID 24270849] rs660895 was found to be associated with rheumatoid arthritis based on a study by the eMERGE network in which electronic medical records were searched to find clinical associations associated with selected SNPs.
| GWAS snp | |
|---|---|
| PMID | [PMID 22197929] |
| Trait | |
| Title | A genome-wide association study in Han Chinese identifies multiple susceptibility loci for IgA nephropathy. |
| Risk Allele | G |
| P-val | 4E-20 |
| Odds Ratio | 1.3400 None |
[PMID 22355377] Caucasian and asian specific rheumatoid arthritis risk Loci reveal limited replication and apparent allelic heterogeneity in north indians
[PMID 15747258] A high-resolution linkage-disequilibrium map of the human major histocompatibility complex and first generation of tag single-nucleotide polymorphisms.
[PMID 18438406] Genetic determinants of ulcerative colitis include the ECM1 locus and five loci implicated in Crohn's disease.
[PMID 19116921] Different patterns of associations with anti-citrullinated protein antibody-positive and anti-citrullinated protein antibody-negative rheumatoid arthritis in the extended major histocompatibility complex region.
[PMID 19143813] Confirmation of HLA class II independent type 1 diabetes associations in the major histocompatibility complex including HLA-B and HLA-A.
[PMID 19143815] MHC fine mapping of human type 1 diabetes using the T1DGC data.
[PMID 19458352] Primary biliary cirrhosis associated with HLA, IL12A, and IL12RB2 variants.
[PMID 20017995] A principal-components-based clustering method to identify multiple variants associated with rheumatoid arthritis and arthritis-related autoantibodies.
[PMID 20018015] Elastic-net regularization approaches for genome-wide association studies of rheumatoid arthritis.
[PMID 20018024] On the association between rheumatoid arthritis and classical HLA class I and class II alleles predicted from single-nucleotide polymorphism data.
[PMID 20018025] Genome-wide analysis of haplotype interaction for the data from the North American Rheumatoid Arthritis Consortium.
[PMID 20018053] A genome-wide association scan for rheumatoid arthritis data by Hotelling's T2 tests.
[PMID 20018057] Detecting single-nucleotide polymorphism by single-nucleotide polymorphism interactions in rheumatoid arthritis using a two-step approach with machine learning and a Bayesian threshold least absolute shrinkage and selection operator (LASSO) model.
[PMID 20018067] A two-stage search strategy for detecting multiple loci associated with rheumatoid arthritis.
[PMID 20018071] Allelic based gene-gene interactions in rheumatoid arthritis.
[PMID 20018077] Incorporating biological knowledge in the search for gene x gene interaction in genome-wide association studies.
[PMID 20018080] Effects of covariates and interactions on a genome-wide association analysis of rheumatoid arthritis.
[PMID 20018081] Assessment of gene-covariate interactions by incorporating covariates into association mapping.
[PMID 20369022] Candidate causal regulatory effects by integration of expression QTLs with complex trait genetic associations.
[PMID 20797713] Endometriosis and autoimmune disease: association of susceptibility to moderate/severe endometriosis with CCL21 and HLA-DRB1.
[PMID 23961418] Association of the HLA locus and TNF with type I autoimmune hepatitis susceptibility in New Zealand Caucasians
[PMID 22807207] Association between Parkinson's disease and the HLA-DRB1 locus.
[PMID 23223422] Identification of the NF-kappaB activating protein-like locus as a risk locus for rheumatoid arthritis.
[PMID 23678157] Integrative analyses for functional mechanisms underlying associations for rheumatoid arthritis.
[PMID 28929317] Risk alleles for IgA nephropathy-associated SNPs conferred completely opposite effects to idiopathic membranous nephropathy in Chinese Han.
[PMID 29168332] Associative role of HLA-DRB1 SNP genotypes as risk factors for susceptibility and severity of rheumatoid arthritis: A North-east Indian population-based study.
