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WCMC

Connecting genetic risk to disease endpoints through the human blood plasma proteome

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Locus annotations

Locus 271

Top associations per target

Target cis/​trans Study SNP SNP location Maj/​min allele MAF N βinv seinv Pinv fclog Plog Praw
MICA cis Discovery rs4418214 6:31,391,401 T/C 0.06 979 -0.710 0.088 2.2×10-15 -1.630 3.7×10-15 3.7×10-8
MICA cis Replication rs4418214 6:31,391,401 A/G 0.06 337 -0.340 0.148 0.023 -1.190 0.032 0.127

 

Regional association plots

MHC class I polypeptide-related sequence A (MICA)

Download the association data used to generate this plot

 

Boxplots and histograms for top associations

MHC class I polypeptide-related sequence A (MICA)

inverse-normalized probe levels log2 transformed probe levels raw probe levels
Discovery study
Replication study

MHC class I polypeptide-related sequence A (MICA)

Target (abbrv.) MICA
Target (full name) MHC class I polypeptide-related sequence A
Somalogic ID (Sequence ID) SL005199 (2730-58_2)
Entrez Gene Symbol MICA
UniProt ID Q29983
UniProt Comment
  • Seems to have no role in antigen presentation. Acts as a stress-induced self-antigen that is recognized by gamma delta T-cells. Ligand for the KLRK1/NKG2D receptor. Binding to KLRK1 leads to cell lysis.
Biomarker applications (based on IPA annotation)
  • safety
Pathway Studio
  • Natural Killer Cell Activation
  • Natural Killer Cell Activation through C-type Lectin-like Receptors

All locus annotations are based on the sentinel SNP (rs4418214) and 1 proxy variant(s) that is/are in linkage disequilibrium r2 ≥ 0.8. Linkage disequilibrium is based on data from the 1000 Genomes Project, phase 3 version 5, European population and was retrieved using SNiPA's Block Annotation feature.
Download the detailed results of SNiPA's block annotation (PDF)

Linked genes


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Genes hit or close-by
  • MICA MHC class I polypeptide-related sequence A
  • HCP5 HLA complex P5 (non-protein coding)
eQTL genes
  • MICA MHC class I polypeptide-related sequence A
  • XXbac-BPG181B23.7
  • MICB MHC class I polypeptide-related sequence B
  • TNXB tenascin XB
  • PSORS1C2 psoriasis susceptibility 1 candidate 2
  • TNXA tenascin XA (pseudogene)

 

Results from other genome-wide association studies

Trait P Study Source
HIV-1 control 1×10-34 21051598 (PMID) GWAS Catalog via SNiPA
HIV-1 control (elite control) 1.3×10-27 21051598 (PMID) GRASP2 nonQTL
Ankylosing spondylitis 2.3×10-24 22138694 (PMID) GRASP2 nonQTL
HIV-1 control (viral load at set point) 1.2×10-14 20041166 (PMID) GRASP2 nonQTL
HIV-1 susceptibility 4×10-11 23935489 (PMID) GWAS Catalog via SNiPA
Crohn's disease 1.1×10-8 Supplemental file
cg10154826 (chr6:17601018) 5.1×10-8 10.1101/033084 (DOI) BIOS QTL trans-meQTLs
cg02138124 (chr8:37901673) 2.6×10-7 10.1101/033084 (DOI) BIOS QTL trans-meQTLs
Cross-disorder, subset Schizophrenia 1.7×10-4 23453885 (PMID) Supplemental file