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WCMC

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

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Locus annotations

Locus 179

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 rs2523570 6:31,329,734 C/T 0.17 993 0.570 0.057 2.7×10-22 1.480 1.5×10-21 1.6×10-8
MICA cis Replication rs9266772 6:31,352,113 A/G 0.20 337 0.260 0.088 0.004 1.160 0.002 0.365

 

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 (rs2523570) and 12 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

Genes hit or close-by
Potentially regulated genes
eQTL genes
  • FLOT1 flotillin 1
  • HLA-B major histocompatibility complex, class I, B
  • XXbac-BPG248L24.12
  • SKIV2L superkiller viralicidic activity 2-like (S. cerevisiae)
  • HCG22 HLA complex group 22
  • HCP5 HLA complex P5 (non-protein coding)

 

Results from other genome-wide association studies

Trait P Study Source
Coronary artery disease (CAD) 5.5×10-11 21971053 (PMID) GRASP2 nonQTL
Gene expression of probe 1557242_at in lymphoblastoid cell lines 1.3×10-10 17873877 (PMID) GRASP2 eQTL
Gene expression of HCG27 in blood 2.2×10-7 21829388 (PMID) GRASP2 eQTL
Differential exon level expression of HLA-C [probe 2948914] in peripheral blood mononuclear cells 3.9×10-7 19222302 (PMID) GRASP2 eQTL
Differential exon level expression of HLA-B [probe 2948958] in peripheral blood mononuclear cells 1.9×10-6 19222302 (PMID) GRASP2 eQTL
Gene expression of HLA-B in blood 5×10-5 21829388 (PMID) GRASP2 eQTL
Gene expression of HLA-C [probe 2948887] in peripheral blood mononuclear cells 1.3×10-4 19222302 (PMID) GRASP2 eQTL
Ulcerative collitis 4.4×10-4 Supplemental file