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WCMC

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

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Locus annotations

Locus 419

Top associations per target

Target cis/​trans Study SNP SNP location Maj/​min allele MAF N βinv seinv Pinv fclog Plog Praw
TSG-6 cis Discovery rs1046668 2:152,226,570 A/G 0.14 996 -0.402 0.059 2.1×10-11 -1.120 6.3×10-10 1.3×10-6
TSG-6 cis Replication rs1046675 2:152,236,398 A/G 0.11 337 -0.343 0.090 1.7×10-4 -1.130 1.7×10-4 0.001

 

Regional association plots

Tumor necrosis factor-inducible gene 6 protein (TSG-6)

Download the association data used to generate this plot

 

Boxplots and histograms for top associations

Tumor necrosis factor-inducible gene 6 protein (TSG-6)

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

Tumor necrosis factor-inducible gene 6 protein (TSG-6)

Target (abbrv.) TSG-6
Target (full name) Tumor necrosis factor-inducible gene 6 protein
Somalogic ID (Sequence ID) SL004782 (5036-50_1)
Entrez Gene Symbol TNFAIP6
UniProt ID P98066
UniProt Comment
  • Possibly involved in cell-cell and cell-matrix interactions during inflammation and tumorigenesis.
Biomarker applications (based on IPA annotation)
  • unspecified application

All locus annotations are based on the sentinel SNP (rs1046668) and 34 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
  • TNFAIP6 tumor necrosis factor, alpha-induced protein 6
  • MIR4773-2 microRNA 4773-1
  • RN7SL124P RNA, 7SL, cytoplasmic 124, pseudogene
Potentially regulated genes
  • TNFAIP6 tumor necrosis factor, alpha-induced protein 6
eQTL genes
  • RBM43 RNA binding motif protein 43
  • NMI N-myc (and STAT) interactor

 

Results from other genome-wide association studies

Trait P Study Source
cg03406844 (chr2:152220553) 1.8×10-10 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Gene expression of TNFAIP6 in blood 1×10-5 21829388 (PMID) GRASP2 eQTL
Serum ratio of (mannitol)/(phenylacetate) 4.6×10-5 21886157 (PMID) GRASP2 metabQTL
Coronary artery disease (CAD) 8.2×10-5 17634449 (PMID) GRASP2 nonQTL
Serum concentration of hydroxyisovaleroyl carnitine 9.1×10-5 21886157 (PMID) GRASP2 metabQTL
Serum ratio of (glycochenodeoxycholate)/(taurochenodeoxycholate) 1.5×10-4 21886157 (PMID) GRASP2 metabQTL