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WCMC

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

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Locus annotations

Locus 298

Top associations per target

Target cis/​trans Study SNP SNP location Maj/​min allele MAF N βinv seinv Pinv fclog Plog Praw
Nidogen trans Discovery rs9651367 10:20,223,450 G/A 0.28 997 -0.355 0.045 1.2×10-14 -1.070 2.1×10-13 2.5×10-10
Nidogen trans Replication rs1018635 10:20,226,672 G/A 0.24 337 -0.247 0.081 0.003 -1.050 0.003 0.01

 

Regional association plots

 

Boxplots and histograms for top associations

Nidogen-1 (Nidogen)

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

Nidogen-1 (Nidogen)

Target (abbrv.) Nidogen
Target (full name) Nidogen-1
Somalogic ID (Sequence ID) SL000640 (3213-65_2)
Entrez Gene Symbol NID1
UniProt ID P14543
UniProt Comment
  • Sulfated glycoprotein widely distributed in basement membranes and tightly associated with laminin. Also binds to collagen IV and perlecan. It probably has a role in cell-extracellular matrix interactions.
Pathway Interaction Database
  • Beta1 integrin cell surface interactions
Reactome
  • Degradation of the extracellular matrix
  • Laminin interactions

All locus annotations are based on the sentinel SNP (rs9651367) and 8 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
  • PLXDC2 plexin domain containing 2