Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome
Henry Richard Johnston,
Timoty D. O’Connor,
Genevieve L Wojcik,
Chris R Gignoux,
Terri H Beaty,
Rasika A. Mathias,
Kathleen C Barnes,
Zhaohui Steve Qin,
Posted 27 Feb 2017
bioRxiv DOI: 10.1101/112235 (published DOI: 10.1038/srep46398)
Posted 27 Feb 2017
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 study 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.
- Downloaded 399 times
- Download rankings, all-time:
- Site-wide: 75,316
- In genomics: 5,087
- Year to date:
- Site-wide: 109,099
- Since beginning of last month:
- Site-wide: 132,364
Downloads over time
Distribution of downloads per paper, site-wide
- 27 Nov 2020: The website and API now include results pulled from medRxiv as well as bioRxiv.
- 18 Dec 2019: We're pleased to announce PanLingua, a new tool that enables you to search for machine-translated bioRxiv preprints using more than 100 different languages.
- 21 May 2019: PLOS Biology has published a community page about Rxivist.org and its design.
- 10 May 2019: The paper analyzing the Rxivist dataset has been published at eLife.
- 1 Mar 2019: We now have summary statistics about bioRxiv downloads and submissions.
- 8 Feb 2019: Data from Altmetric is now available on the Rxivist details page for every preprint. Look for the "donut" under the download metrics.
- 30 Jan 2019: preLights has featured the Rxivist preprint and written about our findings.
- 22 Jan 2019: Nature just published an article about Rxivist and our data.
- 13 Jan 2019: The Rxivist preprint is live!