Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome
| Autor: | Mark Hansen, Gonçalo R. Abecasis, Zhaohui S. Qin, Jingjing Gao, Dave Bullis, Antoine Lizee, Rasika A. Mathias, Terri H. Beaty, Henry Richard Johnston, Kathleen C. Barnes, Eimear E. Kenny, Timothy D. O’Connor, Rob Genuario, Cindy Lawley, Pierre-Antoine Gourraud, Christopher R. Gignoux, Carlos Bustamante, Genevieve L. Wojcik, Yi-Juan Hu |
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| Jazyk: | angličtina |
| Rok vydání: | 2017 |
| Předmět: |
0301 basic medicine
Genotype Population Black People Genome-wide association study Genomics Biology 030105 genetics & heredity Polymorphism Single Nucleotide Article 03 medical and health sciences Genetic variation Humans 1000 Genomes Project education Genotyping Exome sequencing 030304 developmental biology Oligonucleotide Array Sequence Analysis Genetics 0303 health sciences Genetic diversity education.field_of_study Multidisciplinary Genome Human 030305 genetics & heredity Genetic Variation 030104 developmental biology Geography Evolutionary biology Genome-Wide Association Study |
| Zdroj: | Scientific Reports |
| ISSN: | 2045-2322 |
| DOI: | 10.1038/srep46398 |
| Popis: | A primary goal of The C onsortium on A sthma among A frican-ancestry P opulations in the A mericas (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 (~30× 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. |
| Databáze: | OpenAIRE |
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