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

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Locus annotations

Locus 407

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 rs17200698 6:31,483,700 C/T 0.04 995 0.813 0.118 1.1×10-11 1.630 4.6×10-9 4.9×10-5

 

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

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 (rs17200698) and 7 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
  • Y_RNA
  • MICB MHC class I polypeptide-related sequence B
  • PPIAP9 peptidylprolyl isomerase A (cyclophilin A) pseudogene 9
  • XXbac-BPG16N22.5
  • RPL15P4 ribosomal protein L15 pseudogene 4
  • MCCD1 mitochondrial coiled-coil domain 1
  • ATP6V1G2 ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G2
  • ATP6V1G2-DDX39B ATP6V1G2-DDX39B readthrough (NMD candidate)
  • NFKBIL1 nuclear factor of kappa light polypeptide gene enhancer in B-cells inhibitor-like 1
  • LST1 leukocyte specific transcript 1
  • NCR3 natural cytotoxicity triggering receptor 3
eQTL genes

 

Results from other genome-wide association studies

Trait P Study Source
Schizophrenia 2.9×10-4 23974872 (PMID) Supplemental file