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WCMC

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

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Locus annotations

Locus 198

Top associations per target

Target cis/​trans Study SNP SNP location Maj/​min allele MAF N βinv seinv Pinv fclog Plog Praw
MICB cis Discovery rs2248372 6:31,446,466 G/A 0.33 996 0.417 0.045 9.7×10-20 1.150 1.4×10-9 0.013
MICB cis Replication rs2248372 6:31,446,466 G/A 0.34 337 0.413 0.063 1.8×10-10 1.180 1.4×10-7 0.095

 

Regional association plots

MHC class I polypeptide-related sequence B (MICB)

Download the association data used to generate this plot

 

Boxplots and histograms for top associations

MHC class I polypeptide-related sequence B (MICB)

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

MHC class I polypeptide-related sequence B (MICB)

Target (abbrv.) MICB
Target (full name) MHC class I polypeptide-related sequence B
Somalogic ID (Sequence ID) SL005200 (5102-55_3)
Entrez Gene Symbol MICB
UniProt ID Q29980
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 (rs2248372) and 3 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
  • HCP5 HLA complex P5 (non-protein coding)
Potentially regulated genes
eQTL genes
  • ATP6V1G2 ATPase, H+ transporting, lysosomal 13kDa, V1 subunit G2
  • HCG27 HLA complex group 27 (non-protein coding)
  • LY6G5C lymphocyte antigen 6 complex, locus G5C
  • PSORS1C2 psoriasis susceptibility 1 candidate 2
  • HLA-C major histocompatibility complex, class I, C
  • XXbac-BPG181B23.7
  • MICA MHC class I polypeptide-related sequence A
  • HLA-B major histocompatibility complex, class I, B
  • XXbac-BPG248L24.12
  • MICB MHC class I polypeptide-related sequence B
  • PSORS1C1 psoriasis susceptibility 1 candidate 1
  • LST1 leukocyte specific transcript 1

 

Results from other genome-wide association studies

Trait P Study Source
Rheumatoid arthritis 4.4×10-12 20453842 (PMID) GRASP2 nonQTL
Type 1 diabetes 2.8×10-11 17632545 (PMID) GRASP2 nonQTL
Triglycerides 2.9×10-11 24097068 (PMID) Supplemental file
Grave's disease 7.8×10-9 21900946 (PMID) GRASP2 nonQTL
Gene expression of MICA in peripheral blood monocytes 1.7×10-7 20502693 (PMID) GRASP2 eQTL
HIV-1 control (viral load at set point) 1.8×10-7 20041166 (PMID) GRASP2 nonQTL
Total cholesterol 1.6×10-6 24097068 (PMID) Supplemental file
Pemphigus vulgaris 1.9×10-6 22437316 (PMID) GRASP2 nonQTL
LDL cholesterol 1.3×10-5 24097068 (PMID) Supplemental file
HIV-1 infection (natural long-term nonprogression) 2.6×10-5 22238471 (PMID) GRASP2 nonQTL
gamma-glutamylglutamine 2.9×10-5 24816252 (PMID) gwas.eu via SNiPA
HDL cholesterol 6×10-5 24097068 (PMID) Supplemental file
Body mass index (BMI) 9.3×10-5 20935630 (PMID) GRASP2 nonQTL
Gene expression of [probe 1440603 centered at chr6:31556036] in blood 3.3×10-4 21829388 (PMID) GRASP2 eQTL
Gene expression of HLA-B in blood 3.7×10-4 21829388 (PMID) GRASP2 eQTL
Gene expression of TNF in blood 4×10-4 21829388 (PMID) GRASP2 eQTL