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HLA-A

From SNPedia

is agene
is mentioned by
Full namemajor histocompatibility complex, class I, A
EntrezGene3105
PheGenI3105
VariationViewer3105
ClinVarHLA-A
dbSNP3105
SADR3105
HugeNav3105
wikipediaHLA-A
googleHLA-A
gopubmedHLA-A
EVSHLA-A
HEFalMpHLA-A
MyGene2HLA-A
23andMeHLA-A
UniProtP04439
EnsemblENSG00000206503
OMIM142800
# SNPs913
 Max MagnitudeChromosome positionSummary
rs1059418029,942,785
rs1059423029,942,804
rs1059426029,942,806
rs1059438029,942,846
rs1059441029,942,859
rs1059449029,942,921
rs1059451029,942,922
rs1059452029,942,923
rs1059455029,942,939
rs1059462029,942,956
rs1059467029,942,966
rs1059488029,943,321
rs1059506029,943,372
rs1059509029,943,377
rs1059514029,943,413
rs1059516029,943,421
rs1059517029,943,426
rs1059520029,943,430
rs1059526029,943,441
rs1059535029,943,445
rs1059536029,943,448
rs1059537029,943,450
rs1059542029,943,479
rs1059563029,944,151
rs1059564029,944,153
rs1059570029,944,174
rs1059632029,944,310
rs1059644029,944,337
rs1059686029,944,370
rs1059846029,944,549
rs1059896029,944,565
rs1061156029,945,489
rs1061235429,945,521
rs1061815029,945,597
rs1064588029,942,940
rs1071742029,942,982
rs1071743029,943,279
rs112094427029,943,620
rs112525507029,945,738
rs112863520029,945,653
rs113167551029,943,589
rs113324237029,943,635
rs1136656029,942,625
rs1136657029,942,761
rs1136659029,942,780
rs1136683029,942,975
rs1136688029,942,984
rs1136689029,942,990
rs1136690029,942,994
rs1136691029,943,002
... further results


HLA-A is a gene/antigen in the HLA system with 100s of documented alleles, and 68 common ones. It has psudeogene HLA-J,H.

HLA-A*3101 increased risk for carbamazepine hypersensitivity (HSS) and maculopapular exanthema in multiple studies. Amstutz et al. (2013) found odds ratio(OR) 26.4 for HSS.

HIV-1: A2(*0202, *0205, *0214), A28(*6802) decrease risk, A23 increases.

HLA-A29 is in nearly all BSCR cases, 95.8% vs 7% in controls. Transgenic mice had features of BSCR.

HLA-A29 is in linkage disequilibrium with hemochromatosis-producing H63D form. Having both results in higher CD8+ cell count. Cardoso et al. (2002)

HLA-A*0206 was the only HLA-A,B,C allelle with significant association to Stevens-Johnson syndrome.

HLA-A may be associated with type I diabetes.

HLA-A2 homozygosity is associated with Alzheimer's.

HLA*0201 has OR 0.73 for MS in the study of International Multiple Sclerosis Genetics Consortium and Wellcome Trust Case Control Consortium 2 (2011).


Tag SNPs for HLA-A antitypes on the 1M Illumina chip[edit]

HLA SNP r2 HLA_FRQ SNP_FRQ
A*01:02 rs6902544 0.059 0.001 0.01
A*01:03 rs6911622 0.008 0.001 0.06
A*02 rs2394250 0.432 0.43
A*02:03 rs9368704 0.024 0.003 0.01
A*02:01 rs2975033 0.25
A*02:11 rs16897572 0.019 0.003 0.08
A*02:16 rs11754099 0.005 0.000 0.03
A*02:17 rs1233400 0.003 0.001 0.16
A*03:02 rs2523447 0.080 0.004 0.04
A*11:02 rs2286404 0.013 0.001 0.06
A*11:03 rs11754099 0.018 0.001 0.03
A*11:05 rs3025642 0.005 0.000 0.04
A*24:01 rs805284 0.007 0.000 0.03
A*24:03 rs3093665 0.009 0.002 0.02
A*24:07 rs2017525 0.044 0.005 0.10
A*24:10 rs3129727 0.007 0.000 0.02
A*26:08 rs2301751 0.007 0.000 0.05
A*30:04 rs2857449 0.068 0.001 0.01
A*31:01 rs1061235 0.085 0.08
A*31:03 rs6457694 0.008 0.000 0.02
A*31:12 rs3895681 0.014 0.000 0.01
A*34:01 rs6904120 0.079 0.010 0.06
A*34:02 rs16895214 0.061 0.003 0.02
A*36:01 rs2747419 0.040 0.001 0.02
A*36:03 rs4713310 0.004 0.000 0.05
A*66:01 rs9261316 0.064 0.004 0.05
A*66:02 rs6906662 0.006 0.000 0.03
A*68:03 rs4711248 0.046 0.001 0.01
A*69:01 rs2517922 0.012 0.001 0.05
A*80:01 rs2516312 0.015 0.001 0.01