Scientific Publications

Annotation of loci from genome-wide association studies using tissue-specific quantitative interaction proteomics.

Publication TypeJournal Article
AuthorsLundby, A., Rossin EJ, Steffensen AB, Acha MR, Newton-Cheh C., Pfeufer A., Lynch SN, The QT Interval International GWAS Consortium(QT-IGC), Olesen SP, Brunak S., Ellinor PT, Jukema JW, Trompet S., Ford I., Macfarlane PW, Krijthe BP, Hofman A., Uitterlinden AG, Stricker BH, Nathoe HM, Spiering W., Daly M. J., Asselbergs FW, van der Harst P., Milan DJ, de Bakker PI, Lage K., and Olsen JV
AbstractGenome-wide association studies (GWAS) have identified thousands of loci associated with complex traits, but it is challenging to pinpoint causal genes in these loci and to exploit subtle association signals. We used tissue-specific quantitative interaction proteomics to map a network of five genes involved in the Mendelian disorder long QT syndrome (LQTS). We integrated the LQTS network with GWAS loci from the corresponding common complex trait, QT-interval variation, to identify candidate genes that were subsequently confirmed in Xenopus laevis oocytes and zebrafish. We used the LQTS protein network to filter weak GWAS signals by identifying single-nucleotide polymorphisms (SNPs) in proximity to genes in the network supported by strong proteomic evidence. Three SNPs passing this filter reached genome-wide significance after replication genotyping. Overall, we present a general strategy to propose candidates in GWAS loci for functional studies and to systematically filter subtle association signals using tissue-specific quantitative interaction proteomics.
Year of Publication2014
JournalNature methods
Date Published (YYYY/MM/DD)2014/06/22
ISSN Number1548-7091
DOI10.1038/nmeth.2997
PubMedhttp://www.ncbi.nlm.nih.gov/pubmed/24952909?dopt=Abstract