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

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Locus annotations

Locus 184

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 rs289828 2:152,137,181 T/C 0.43 994 0.395 0.041 2.1×10-21 1.120 8.3×10-19 2.3×10-11
TSG-6 cis Replication rs2278089 2:152,146,672 A/C 0.37 337 0.441 0.053 1.5×10-15 1.160 3.2×10-15 2.5×10-13

 

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 (rs289828) and 39 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
  • RBM43 RNA binding motif protein 43
  • NMI N-myc (and STAT) interactor
eQTL genes
  • RBM43 RNA binding motif protein 43
  • RIF1 replication timing regulatory factor 1
  • NMI N-myc (and STAT) interactor
  • TNFAIP6 tumor necrosis factor, alpha-induced protein 6

 

Results from other genome-wide association studies

Trait P Study Source
Gene expression of TNFAIP6 in blood 5.4×10-101 21829388 (PMID) GRASP2 eQTL
Gene expression of TNFAIP6 in peripheral blood monocytes 3.6×10-63 20502693 (PMID) GRASP2 eQTL
Gene expression of RBM43 in blood 8.4×10-53 21829388 (PMID) GRASP2 eQTL
Gene expression of NMI in blood 8.4×10-23 21829388 (PMID) GRASP2 eQTL
cg19350357 (chr2:152118859) 1.5×10-13 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Gene expression of NMI in normal prepouch ileum 3.9×10-12 23474282 (PMID) GRASP2 eQTL
Differential exon level expression of NMI [probe 2580969] in peripheral blood mononuclear cells 3.5×10-6 19222302 (PMID) GRASP2 eQTL
Gene expression of NMI [probe ILMN_3552] in osteoblasts treated with PGE2 4.7×10-6 21283786 (PMID) GRASP2 eQTL
Gene expression of NMI [probe ILMN_3552] in untreated osteoblasts 1.1×10-5 21283786 (PMID) GRASP2 eQTL
Smoking behaviour, Ever smoked 3.2×10-5 20418890 (PMID) Supplemental file
Gene expression of TNFAIP6 in blood cells in Celiac disease 7.5×10-5 19128478 (PMID) GRASP2 eQTL
Obsessive-compulsive disorder (OCD) 3.6×10-4 22889921 (PMID) GRASP2 nonQTL
Serum ratio of (alpha-ketoglutarate)/(alpha-tocopherol) 4.5×10-4 21886157 (PMID) GRASP2 metabQTL
Triglycerides 4.9×10-4 20686565 (PMID) GRASP2 nonQTL