RT Journal Article
SR Electronic
T1 Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 112235
DO 10.1101/112235
A1 Henry Richard Johnston
A1 Yi-Juan Hu
A1 Jingjing Gao
A1 Timoty D. O’Connor
A1 Goncalo Abecasis
A1 Genevieve L Wojcik
A1 Christopher R. Gignoux
A1 Pierre-Antoine Gourraud
A1 Antoine Lizee
A1 Mark Hansen
A1 Rob Genuario
A1 Dave Bullis
A1 Cindy Lawley
A1 Eimear E. Kenny
A1 Carlos Bustamante
A1 Terri H. Beaty
A1 Rasika A. Mathias
A1 Kathleen C. Barnes
A1 Zhaohui Steve Qin
A1 CAAPA Consortium
YR 2017
UL http://biorxiv.org/content/early/2017/02/27/112235.abstract
AB A primary goal of The Consortium on Asthma among African-ancestry Populations in the Americas (CAAPA) is to develop an ‘African Diaspora Power Chip’ (ADPC), a genotyping array consisting of tagging SNPs, useful in comprehensively identifying African specific genetic variation. This array is designed based on the novel variation identified in 642 CAAPA samples of African ancestry with high coverage whole genome sequence data (~30x depth). This novel variation extends the pattern of variation catalogued in the 1000 Genomes and Exome Sequencing Projects to a spectrum of populations representing the wide range of West African genomic diversity. These individuals from CAAPA also comprise a large swath of the African Diaspora population and incorporate historical genetic diversity covering nearly the entire Atlantic coast of the Americas. Here we show the results of designing and producing such a microchip array. This novel array covers African specific variation far better than other commercially available arrays, and will enable better GWAS analyses for researchers with individuals of African descent in their study populations. A recent study1 cataloging variation in continental African populations suggests this type of African-specific genotyping array is both necessary and valuable for facilitating large-scale GWAS in populations of African ancestry.