HelmholtzZentrum munich
WCMC

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

ONLINE SUPPLEMENTARY INFORMATION

Ideogram
Proteome annotation
Locus annotations

Locus 260

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 rs2534674 6:31,465,103 C/T 0.35 995 0.358 0.044 6.9×10-16 1.100 1.1×10-5 0.401

 

Regional association plots

MHC class I polypeptide-related sequence B (MICB)

 

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

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 (rs2534674) and 8 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
  • Y_RNA
  • MICB MHC class I polypeptide-related sequence B
eQTL genes
  • HCP5 HLA complex P5 (non-protein coding)
  • XXbac-BPG248L24.12
  • MUC22 mucin 22
  • MICB MHC class I polypeptide-related sequence B
  • HCG22 HLA complex group 22
  • HCG27 HLA complex group 27 (non-protein coding)
  • LST1 leukocyte specific transcript 1
  • HLA-DRB5 major histocompatibility complex, class II, DR beta 5
  • HLA-C major histocompatibility complex, class I, C
  • HLA-DRB6 major histocompatibility complex, class II, DR beta 6 (pseudogene)

 

Results from other genome-wide association studies

Trait P Study Source
Gene expression of HLA-DRB1 in peripheral blood monocytes 2.7×10-19 20502693 (PMID) GRASP2 eQTL
Gene expression of HLA-DRB5 in peripheral blood monocytes 2×10-17 20502693 (PMID) GRASP2 eQTL
Gene expression of HLA-DRB6 in peripheral blood monocytes 6.1×10-17 20502693 (PMID) GRASP2 eQTL
Gene expression of LST1 in peripheral blood monocytes 8.9×10-13 20502693 (PMID) GRASP2 eQTL
Gene expression of HLA-C in peripheral blood monocytes 2.6×10-12 20502693 (PMID) GRASP2 eQTL
Height 1.9×10-9 25282103 (PMID) Supplemental file
Rheumatoid arthritis 2.5×10-9 20453842 (PMID) GRASP2 nonQTL
Gene expression of HSPA1L in peripheral blood monocytes 2.2×10-8 20502693 (PMID) GRASP2 eQTL
Gene expression of IER3 in peripheral blood monocytes 2.3×10-8 20502693 (PMID) GRASP2 eQTL
Gene expression of TNF in peripheral blood monocytes 3.1×10-8 20502693 (PMID) GRASP2 eQTL
Ulcerative collitis 4.8×10-8 Supplemental file
Inflammatory bowel disease 1.5×10-7 Supplemental file
Dengue shock syndrome in adolescents 8.5×10-7 22001756 (PMID) GRASP2 nonQTL
Gene expression of LTA in peripheral blood monocytes 1.3×10-6 20502693 (PMID) GRASP2 eQTL
Gene expression of HCG27 in peripheral blood monocytes 4.4×10-6 20502693 (PMID) GRASP2 eQTL
Gene expression of MED21 in peripheral blood monocytes 8×10-6 20502693 (PMID) GRASP2 eQTL
Type 2 diabetes 9×10-5 22885922 (PMID) Supplemental file
Hip circumfence, adjusted for BMI 3.6×10-4 25673412 (PMID) Supplemental file
Smoking behaviour, Age of onset 4.5×10-4 20418890 (PMID) Supplemental file