HelmholtzZentrum munich
WCMC

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

ONLINE SUPPLEMENTARY INFORMATION

Ideogram
Proteome annotation
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

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