HelmholtzZentrum munich
WCMC

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

ONLINE SUPPLEMENTARY INFORMATION

Ideogram
Proteome annotation
Locus annotations

Locus 64

Top associations per target

Target cis/​trans Study SNP SNP location Maj/​min allele MAF N βinv seinv Pinv fclog Plog Praw
FCRL3 cis Discovery rs7522061 1:157,668,390 T/C 0.43 994 0.676 0.040 5.4×10-57 1.100 1.2×10-15 0.112
FCRL3 cis Replication rs7522061 1:157,668,390 A/G 0.45 337 0.426 0.065 2.7×10-10 1.100 1.3×10-4 0.062

 

Regional association plots

 

Boxplots and histograms for top associations

Fc receptor-like protein 3 (FCRL3)

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

Fc receptor-like protein 3 (FCRL3)

Target (abbrv.) FCRL3
Target (full name) Fc receptor-like protein 3
Somalogic ID (Sequence ID) SL014088 (4440-15_2)
Entrez Gene Symbol FCRL3
UniProt ID Q96P31
UniProt Comment
  • Interacts with PTPN6, PTPN11, SYK and ZAP70.

All locus annotations are based on the sentinel SNP (rs7522061) and 12 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
cg17134153 (chr1:157670352) 3.3×10-310 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg25259754 (chr1:157670196) 3.3×10-310 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg19602479 (chr1:157670845) 1.4×10-278 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
cg08786003 (chr1:157670686) 2.1×10-169 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Gene expression of FCRL3 in blood 6.8×10-74 21829388 (PMID) GRASP2 eQTL
Gene expression of [probe 70754 centered at chr1:155915082] in blood 9.1×10-56 21829388 (PMID) GRASP2 eQTL
cg07184316 (chr1:157669087) 2.9×10-46 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Gene expression of [probe 620167 centered at chr1:155914668] in blood 2×10-30 21829388 (PMID) GRASP2 eQTL
Positivity for ZnT8A in Type 1 diabetes 1.1×10-16 22526605 (PMID) GRASP2 nonQTL
Grave's disease 1.5×10-13 21841780 (PMID) GRASP2 nonQTL
Graves' disease 2×10-13 21841780 (PMID) GWAS Catalog via SNiPA
Positivity for ZnT8WA in Type 1 diabetes 8.1×10-12 22526605 (PMID) GRASP2 nonQTL
Insulinoma-associated antigen 2 positive (IA-2A) Type 1 diabetes 8.3×10-12 21829393 (PMID) GRASP2 nonQTL
Type 1 diabetes autoantibodies 1×10-11 21829393 (PMID) GWAS Catalog via SNiPA
Positivity for ZnT8RA in Type 1 diabetes 1.7×10-11 22526605 (PMID) GRASP2 nonQTL
Gene expression of FCRL3 [probe 231093_at] in lymphoblastoid cell lines 1×10-10 17873877 (PMID) GRASP2 eQTL
Gene expression of FCRL3 in CD4+ lymphocytes 4×10-10 20833654 (PMID) GRASP2 eQTL
Gene expression of FCRL3 in peripheral blood monocytes 4.5×10-10 20502693 (PMID) GRASP2 eQTL
Persistent TRAb autoantibody positive Grave's disease 1×10-9 21841780 (PMID) GRASP2 nonQTL
cg15761405 (chr1:157746429) 5.7×10-8 10.1101/033084 (DOI) BIOS QTL cis-meQTLs
Gene expression of FCRL3 in liver 1.7×10-7 18462017 (PMID) GRASP2 eQTL
Multiple sclerosis 9.9×10-7 21833088 (PMID) GRASP2 nonQTL
Monocyte count 1.1×10-6 21738479 (PMID) GRASP2 nonQTL
Gene expression of PLXNB2 in liver 3×10-6 18462017 (PMID) GRASP2 eQTL
Major depressive disorder 3.2×10-6 20673876 (PMID) GRASP2 nonQTL
Serum ratio of (hydroxyisovaleroyl carnitine)/(threitol) 7.3×10-6 21886157 (PMID) GRASP2 metabQTL
Gene expression of IQUB in peripheral blood monocytes 8.7×10-6 20502693 (PMID) GRASP2 eQTL
Graves' disease and Hashimoto's thyroiditis 2.4×10-5 22922229 (PMID) GRASP2 nonQTL
Alkaline phosphatase 3.3×10-5 pha001179 (dbGaP) dbGaP via SNiPA
Persistent TRAb autoantibody negative Grave's disease 6.2×10-5 21841780 (PMID) GRASP2 nonQTL
Gene expression of FCRL3 in blood cells in Celiac disease 8.6×10-5 19128478 (PMID) GRASP2 eQTL
Autoantigen thyroid peroxidase positive (TPOA) Type 1 diabetes 3.5×10-4 21829393 (PMID) GRASP2 nonQTL
Serum ratio of (1-methylurate)/(biliverdin) 3.9×10-4 21886157 (PMID) GRASP2 metabQTL
Rheumatoid arthritis 4.3×10-4 20453842 (PMID) GRASP2 nonQTL