Rs2104286

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Orientationminus
Geno Mag Summary
(A;A) 0 1.7x risk for RA; 1.6X for T1D; also MS?
(A;G) 0 1.4x risk for RA; 1.3x for T1D; also MS?
(G;G) normal
ReferenceGRCh37 37.1/131
Chromosome10
Position6099045
GeneIL2RA
is asnp
is mentioned by
dbSNPrs2104286
Exacrs2104286
PheGenIrs2104286
nextbiors2104286
hapmaprs2104286
1000 genomesrs2104286
hgdprs2104286
ensemblrs2104286
gopubmedrs2104286
geneviewrs2104286
scholarrs2104286
googlers2104286
pharmgkbrs2104286
gwascentralrs2104286
openSNPrs2104286
23andMers2104286
23andMe allrs2104286
SNP Nexus

SNPshotrs2104286
SNPdbers2104286
MSV3drs2104286
GMAF0.1377
? (A;A) (A;G) (G;G) 28
rs2104286 has also been reported in a large study to be associated with type-1 diabetes.

The risk allele (oriented to the dbSNP entry) is (A); the odds ratio associated with heterozygotes is 1.30 (CI 1.02-1.65), and for homozygotes, 1.57 (CI 1.25-1.99). [PMID 17554300OA-icon.png]

The same (A) allele of rs2104286, which is located in the first intron of the IL2RA gene, was calculated to confer a slight increase (19%) in the risk of developing multiple sclerosis. 10.1056/NEJMoa073493[PMID tbd; NEJM 357, 29 July 2007, DA Hafler et al.]

Note that the (A) allele is the most common at this position in all known populations.

blog post giving perspective on the significance of this SNP with respect to multiple sclerosis

news announcement rs2104286 was significantly associated with UK cases of juvenile idiopathic arthritis (JIA)(allelic odds ratio = 0.76, CI: 0.66-0.88, trend p=0.0002), and the association was strongest in a cohort of patients with oligoarthritis, the most common subtype of JIA. This SNP was most strongly associated with female patients and those positive for antinuclear antibodies. Genotype data for SNP rs2104286 for controls was combined with the data for that SNP obtained from a genome-wide association study (WTCCC GWA), giving a total control sample size of 6787. This association with rs2104286 was replicated in a second study cohort of JIA cases from the USA (odds ratio 0.84, CI: 0.65-1.0, trend p=0.05). Meta-analysis of the two cohorts yielded highly significant evidence for association (odds ratio 0.76, CI: 0.62-0.88, p-value 4.9 x 10-6).[PMID 19116909OA-icon.png]

plos rs12722489 and rs2104286 influence multiple sclerosis and type-1 diabetes

Neighborrs706778
Distance96
[PMID 19265545OA-icon.png] Contrasting genetic association of IL2RA with SLE and ANCA-associated vasculitis.


[PMID 19565500OA-icon.png] Variants in TNFAIP3, STAT4, and C12orf30 loci associated with multiple autoimmune diseases are also associated with juvenile idiopathic arthritis

GWAS snp
PMID [PMID 19525955]
Trait Multiple sclerosis
Title Genome-wide association study identifies new multiple sclerosis susceptibility loci on chromosomes 12 and 20
Risk Allele G
P-val 0.000007
Odds Ratio 1.16 [NR]
GWAS snp
PMID [PMID 19525953OA-icon.png]
Trait Multiple sclerosis
Title Meta-analysis of genome scans and replication identify CD6, IRF8 and TNFRSF1A as new multiple sclerosis susceptibility loci
Risk Allele T
P-val 9E-8
Odds Ratio 1.15 [1.04-1.27]
OMIM612594
DescMULTIPLE SCLEROSIS, SUSCEPTIBILITY TO, 2; MS2
Variant
Relatedalso

[PMID 18650830] Replication of KIAA0350, IL2RA, RPL5 and CD58 as multiple sclerosis susceptibility genes in Australians



[PMID 19956099OA-icon.png] The type I diabetes association of the IL2RA locus


[PMID 21239413] Association of IL2RA polymorphisms with susceptibility to multiple sclerosis is not explained by missense mutations in IL2RA


[PMID 22117963] Interleukin 2 Receptor ? Gene Polymorphism and Risk of Multiple Sclerosis: a Meta-analysis


[PMID 22355377OA-icon.png] Caucasian and asian specific rheumatoid arthritis risk Loci reveal limited replication and apparent allelic heterogeneity in north indians


[PMID 22012429] The autoimmune disease-associated IL2RA locus is involved in the clinical manifestations of systemic sclerosis


[PMID 18224336OA-icon.png] Haplotypic analysis of Wellcome Trust Case Control Consortium data.


[PMID 18274536OA-icon.png] Genome-wide association studies: progress and potential for drug discovery and development.


[PMID 18354419] IL2RA and IL7RA genes confer susceptibility for multiple sclerosis in two independent European populations.


[PMID 18490360OA-icon.png] The complex genetics of multiple sclerosis: pitfalls and prospects.


[PMID 18565446OA-icon.png] Refining genetic associations in multiple sclerosis.


[PMID 18794857OA-icon.png] Rheumatoid arthritis susceptibility loci at chromosomes 10p15, 12q13 and 22q13.


[PMID 18853133OA-icon.png] Gene variants influencing measures of inflammation or predisposing to autoimmune and inflammatory diseases are not associated with the risk of type 2 diabetes.


[PMID 19119414OA-icon.png] IL2RA genetic heterogeneity in multiple sclerosis and type 1 diabetes susceptibility and soluble interleukin-2 receptor production.


[PMID 19125193OA-icon.png] IL2RA/CD25 gene polymorphisms: uneven association with multiple sclerosis (MS) and type 1 diabetes (T1D).


[PMID 19155502OA-icon.png] Soluble IL-2RA levels in multiple sclerosis subjects and the effect of soluble IL-2RA on immune responses.


[PMID 19375175] Fine mapping of multiple sclerosis susceptibility genes provides evidence of allelic heterogeneity at the IL2RA locus.


[PMID 19546505OA-icon.png] IL-21 drives secondary autoimmunity in patients with multiple sclerosis, following therapeutic lymphocyte depletion with alemtuzumab (Campath-1H).


[PMID 19701192OA-icon.png] Cell-specific protein phenotypes for the autoimmune locus IL2RA using a genotype-selectable human bioresource.


[PMID 19956101OA-icon.png] Overview of the Rapid Response data.


[PMID 19956106OA-icon.png] Analysis of 19 genes for association with type I diabetes in the Type I Diabetes Genetics Consortium families.


[PMID 20007504OA-icon.png] Comprehensive follow-up of the first genome-wide association study of multiple sclerosis identifies KIF21B and TMEM39A as susceptibility loci.


[PMID 20017963OA-icon.png] Representation of genetic association via attributable familial relative risks in order to identify polymorphisms functionally relevant to rheumatoid arthritis.


[PMID 20179739OA-icon.png] Polymorphisms in the IL2, IL2RA and IL2RB genes in multiple sclerosis risk.


[PMID 20182566OA-icon.png] The genetic aspects of multiple sclerosis.


[PMID 20368992OA-icon.png] Multiple sclerosis susceptibility-associated SNPs do not influence disease severity measures in a cohort of Australian MS patients.


[PMID 20405052OA-icon.png] The effect of single nucleotide polymorphisms from genome wide association studies in multiple sclerosis on gene expression.


[PMID 20810507] Influence of IL2RA rs2104286 polymorphism in the risk of biopsy-proven giant cell arteritis.


[PMID 21815908] A variant of the Il2ra / Cd25 gene predisposing to graves' disease is associated with increased levels of soluble interleukin-2 receptor.


[PMID 21911588] IL2RA gene polymorphism rs2104286 A>G seen in multiple sclerosis is associated with intermediate uveitis: possible parallel pathways?


[PMID 22211793] Polymorphic variants of the IL2RA gene and susceptibility to type 1 diabetes in the Polish population.


GET Evidence
rs2104286
aa_change
aa_change_short
impact pathogenic
qualified_impact Insufficiently evaluated pathogenic
overall_frequency 0.164062
summary



[PMID 24332945] Interleukin 2 receptor α chain gene polymorphisms and risks of multiple sclerosis and neuromyelitis optica in southern Japanese


[PMID 22328738OA-icon.png] Comprehensive assessment of rheumatoid arthritis susceptibility loci in a large psoriatic arthritis cohort.


[PMID 23529819] Association of variants in IL2RA with progression of joint destruction in rheumatoid arthritis.

GWAS snp
PMID [PMID 24449572]
Trait Rheumatoid arthritis
Title Novel rheumatoid arthritis susceptibility locus at 22q12 identified in an extended UK genome-wide association study.
Risk Allele
P-val 1E-6
Odds Ratio 1.19 [1.11-1.28]