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WCMC

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

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Locus annotations

Locus 60

Top associations per target

Target cis/​trans Study SNP SNP location Maj/​min allele MAF N βinv seinv Pinv fclog Plog Praw
Lysozyme cis Discovery rs7959452 12:69,735,492 A/G 0.50 993 -0.671 0.038 1.2×10-60 -1.100 7.8×10-61 2.2×10-59
Lysozyme cis Replication rs2168029 12:69,734,641 C/A 0.45 337 0.247 0.059 3.4×10-5 1.050 4.7×10-5 1.2×10-5

 

Regional association plots

 

Boxplots and histograms for top associations

Lysozyme C (Lysozyme)

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

Lysozyme C (Lysozyme)

Target (abbrv.) Lysozyme
Target (full name) Lysozyme C
Somalogic ID (Sequence ID) SL000510 (4920-10_1)
Entrez Gene Symbol LYZ
UniProt ID P61626
UniProt Comment
  • Lysozymes have primarily a bacteriolytic function; those in tissues and body fluids are associated with the monocyte-macrophage system and enhance the activity of immunoagents.
Biomarker applications (based on IPA annotation)
  • unspecified application
Pathway Interaction Database
  • C-MYB transcription factor network
Reactome
  • Amyloids

All locus annotations are based on the sentinel SNP (rs7959452) and 7 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
eQTL genes

 

Results from other genome-wide association studies

Trait P Study Source
Gene expression of LYZ in blood 9.8×10-198 21829388 (PMID) GRASP2 eQTL
Gene expression of CREB1 in blood 3.2×10-67 21829388 (PMID) GRASP2 eQTL
Gene expression of SHCBP1 in blood 5.2×10-65 21829388 (PMID) GRASP2 eQTL
Gene expression of LYZ in blood cells in Celiac disease 2.2×10-16 19128478 (PMID) GRASP2 eQTL
Gene expression of AC025177.5 in blood 2.4×10-13 21829388 (PMID) GRASP2 eQTL
Gene expression of YEATS4 in blood 4×10-13 21829388 (PMID) GRASP2 eQTL
Gene expression of LYZ [probeset 1555745_a_at] in sputum 3.7×10-10 21949713 (PMID) GRASP2 eQTL
LYZ gene expression in psoriatic uninvolved skin 4.8×10-10 21129726 (PMID) GRASP2 eQTL
Gene expression of LYZ in liver 7.7×10-10 22006096 (PMID) GRASP2 eQTL
Differential exon level expression of CPSF6 [probe 3421459] in peripheral blood mononuclear cells 5×10-9 19222302 (PMID) GRASP2 eQTL
Differential exon level expression of CPSF6 [probe 3421459] in brain cortex 5.9×10-9 19222302 (PMID) GRASP2 eQTL
Gene expression of LYZ in normal prepouch ileum 1.8×10-6 23474282 (PMID) GRASP2 eQTL
Gene expression of YEATS4 in normal prepouch ileum 4.2×10-6 23474282 (PMID) GRASP2 eQTL
Gene expression of LYZ [probe ILMN_4879] in osteoblasts treated with PGE2 1×10-4 21283786 (PMID) GRASP2 eQTL
Gene expression of LYZ [probeset 213975_s_at] in sputum 2.4×10-4 21949713 (PMID) GRASP2 eQTL