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WCMC

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

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Locus annotations

Locus 253

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 rs33932084 6:28,268,824 A/G 0.08 993 -0.672 0.081 4.2×10-16 -1.180 5.3×10-5 0.901
MICB cis Replication rs7752448 6:28,301,099 A/G 0.09 337 0.106 0.111 0.343 1.030 0.598 0.682

 

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 (rs33932084) and 161 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
  • OR2B8P olfactory receptor, family 2, subfamily B, member 8 pseudogene
  • AL022393.7
  • RP1-265C24.5
  • PRSS16 protease, serine, 16 (thymus)
  • OR2B7P olfactory receptor, family 2, subfamily B, member 7 pseudogene
  • ZSCAN26 zinc finger and SCAN domain containing 26
  • HIST1H3J histone cluster 1, H3j
  • ZSCAN23 zinc finger and SCAN domain containing 23
  • HIST1H4J histone cluster 1, H4j
  • ZNF192P1 zinc finger protein 192 pseudogene 1
  • ZSCAN31 zinc finger and SCAN domain containing 31
  • RP1-313I6.12
  • BTN2A2 butyrophilin, subfamily 2, member A2
  • HIST1H3I histone cluster 1, H3i
  • BTN3A2 butyrophilin, subfamily 3, member A2
  • BTN3A3 butyrophilin, subfamily 3, member A3
  • HIST1H2BK histone cluster 1, H2bk
  • ZNF165 zinc finger protein 165
  • ZKSCAN3 zinc finger with KRAB and SCAN domains 3
  • LINC01556 long intergenic non-protein coding RNA 1556
  • ABT1 activator of basal transcription 1
  • ZNF391 zinc finger protein 391
  • ZFP57 ZFP57 zinc finger protein
  • HLA-G major histocompatibility complex, class I, G
  • HLA-F-AS1 HLA-F antisense RNA 1
  • HLA-C major histocompatibility complex, class I, C

 

Results from other genome-wide association studies

Trait P Study Source
Gene expression of BTN3A2 in peripheral blood monocytes 4×10-72 20502693 (PMID) GRASP2 eQTL
cg12351042 (chr6:27879773) 2.5×10-66 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg11517269 (chr6:28058765) 2×10-64 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg18105139 (chr6:28058880) 1×10-51 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg12623302 (chr6:28058778) 8.2×10-51 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg09156207 (chr6:28058700) 7.4×10-45 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg00856041 (chr6:27798431) 1.8×10-40 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg03597347 (chr6:28058885) 4.9×10-32 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Schizophrenia 3.1×10-30 25056061 (PMID) Supplemental file
cg23266546 (chr6:28190786) 3.7×10-23 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Idiopathic membranous nephropathy 4.3×10-23 21323541 (PMID) GRASP2 nonQTL
cg25164649 (chr6:28176254) 1.3×10-22 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Gene expression of HLA-A29.1 in peripheral blood monocytes 5.8×10-17 20502693 (PMID) GRASP2 eQTL
Gene expression of BTN3A2 [probe 209846_s_at] in lymphoblastoid cell lines 6.4×10-16 17873877 (PMID) GRASP2 eQTL
Gene expression of HLA-G in peripheral blood monocytes 2.4×10-15 20502693 (PMID) GRASP2 eQTL
Gene expression of BTN3A2 [probe 204820_s_at] in lymphoblastoid cell lines 3×10-15 17873877 (PMID) GRASP2 eQTL
Gene expression of BTN3A3 [probe 204820_s_at] in lymphoblastoid cell lines 3×10-15 17873877 (PMID) GRASP2 eQTL
Gene expression of HLA-A in peripheral blood monocytes 1.1×10-14 20502693 (PMID) GRASP2 eQTL
Gene expression of AL022393.1 in blood 1.5×10-14 21829388 (PMID) GRASP2 eQTL
Gene expression of HLA-DRB1 in peripheral blood monocytes 1.9×10-14 20502693 (PMID) GRASP2 eQTL
Gene expression of BTN3A2 in lymphoblastoid cell lines 2.6×10-14 17873877 (PMID) GRASP2 eQTL
Gene expression of BTN3A3 in lymphoblastoid cell lines 3.1×10-14 17873877 (PMID) GRASP2 eQTL
Gene expression of HLA-DRB4 in peripheral blood monocytes 3.1×10-14 20502693 (PMID) GRASP2 eQTL
Gene expression of BTN3A2 [probe 212613_at] in lymphoblastoid cell lines 1.4×10-13 17873877 (PMID) GRASP2 eQTL
cg10401017 (chr6:28887562) 1.5×10-12 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Type 1 diabetes 2.2×10-12 17554300 (PMID) GRASP2 nonQTL
Gene expression of ZFP57 in peripheral blood monocytes 2.7×10-12 20502693 (PMID) GRASP2 eQTL
cg08658810 (chr6:28832751) 1.3×10-10 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Gene expression of HLA-DQA1 in peripheral blood monocytes 1.4×10-10 20502693 (PMID) GRASP2 eQTL
Psychosis 2.2×10-10 23164818 (PMID) GRASP2 nonQTL
cg09589105 (chr6:28543213) 4.2×10-10 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg03111404 (chr6:28175960) 5.7×10-10 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Bipolar disorder vs. Schizophrenia 5.9×10-10 24280982 (PMID) Supplemental file
Lupus erythematosus, systemic 1.2×10-9 pha002848 (dbGaP) dbGaP via SNiPA
Lung cancer 2.2×10-9 22899653 (PMID) GRASP2 nonQTL
Gene expression of VARS2 in peripheral blood monocytes 2.9×10-9 20502693 (PMID) GRASP2 eQTL
Gene expression of ZKSCAN4 in peripheral blood monocytes 7.3×10-9 20502693 (PMID) GRASP2 eQTL
cg23281280 (chr6:28129335) 1.1×10-8 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Methylation levels at chr6:26472772-26472822 [hg18 coord, probe cg14345882] in Temporal cortex 4×10-8 20485568 (PMID) GRASP2 meQTL
Gene expression of HIST1H2BD in peripheral blood monocytes 6.1×10-8 20502693 (PMID) GRASP2 eQTL
Cross-disorder, subset Schizophrenia 7.5×10-8 23453885 (PMID) Supplemental file
Gene expression of KIT in peripheral blood monocytes 9.1×10-8 20502693 (PMID) GRASP2 eQTL
Gene expression of APOM in peripheral blood monocytes 9.6×10-8 20502693 (PMID) GRASP2 eQTL
HIV-1 seropositive nonprogression 3.8×10-7 19115949 (PMID) GRASP2 nonQTL
Gene expression of HLA-DRB5 in peripheral blood monocytes 4.1×10-7 20502693 (PMID) GRASP2 eQTL
Gene expression of HLA-DQB1 in peripheral blood monocytes 1×10-6 20502693 (PMID) GRASP2 eQTL
Gene expression of HCG4 in peripheral blood monocytes 2.2×10-6 20502693 (PMID) GRASP2 eQTL
Gene expression of HLA-DPB1 in peripheral blood monocytes 3×10-6 20502693 (PMID) GRASP2 eQTL
phenol sulfate 4.7×10-6 24816252 (PMID) gwas.eu via SNiPA
HIV-1 control (viral load at set point) 5.1×10-6 20041166 (PMID) GRASP2 nonQTL
betaine 7.2×10-6 24816252 (PMID) gwas.eu via SNiPA
Lung function, forced expiratory volume in 1 second (FEV1) 9.7×10-6 20010835 (PMID) GRASP2 nonQTL
HDL cholesterol 1.1×10-5 24097068 (PMID) Supplemental file
Total cholesterol 1.6×10-5 24097068 (PMID) Supplemental file
Gene expression of ZNF435 in blood 1.8×10-5 21829388 (PMID) GRASP2 eQTL
cg02470690 (chr6:27839524) 5.7×10-5 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Rheumatoid arthritis 7.3×10-5 20453842 (PMID) GRASP2 nonQTL
cg15338675 (chr6:28193004) 1.1×10-4 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Triglycerides 1.5×10-4 20686565 (PMID) GRASP2 nonQTL
Lung function, ratio of forced expiratory volume in 1 second (FEV1) to forced vital capacity (FVC) (FEV1/FVC) 1.6×10-4 20010835 (PMID) GRASP2 nonQTL
Head Circumfence 3×10-4 22504419 (PMID) Supplemental file
Infant head circumference 3×10-4 22504419 (PMID) GRASP2 nonQTL
Advanced age-related macular degeneration 4.9×10-4 23455636 (PMID) GRASP2 nonQTL