Joint testing of genotype and ancestry association in admixed families
Open accessAbstract
Current genome-wide association studies (GWAS) often involve populations that have experienced recent genetic admixture. Genotype data generated from these studies can be used to test for association directly, as in a non-admixed population. As an alternative, these data can be used to infer chromosomal ancestry, and thus allow for admixture mapping. We quantify the contribution of allele-based and ancestry-based association testing under a family-design, and demonstrate that the two tests can provide non-redundant information. We propose a joint testing procedure, which efficiently integrates the two sources information. The efficiencies of the allele, ancestry and combined tests are compared in the context of a GWAS. We discuss the impact of population history and provide guidelines for future design and analysis of GWAS in admixed populations.
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Based on a combination of simulation and theory, we have previously established a genome-wide significant criterion of p<7×10−6 for this ancestry-based mapping approach.
“Based on a combination of simulation and theory, we have previously established a genome-wide significant criterion of p<7×10−6 for this ancestry-based mapping approach [51].”
From Genetic Architecture of Skin and Eye Color in an African-European Admixed Population (2013) · cites this paper as [51]
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Genetic Architecture of Skin and Eye Color in an African-European Admixed Population
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- Authors
- Tang, H., Siegmund, D. O., Johnson, N. A., Romieu, I., & London, S. J.
- Affiliations
- Stanford Medicine (US)
- Stanford University (US)
- Instituto Nacional de Salud Pública (MX)
- National Institutes of Health (US)
- Corresponding author
- Tang, Hua
- Venue
- Genetic Epidemiology
- Publisher
- Wiley
- Published
- 2010-10-28
- Volume
- 34
- Issue
- 8
- Pages
- 783-791
- ISSN
- 0741-0395 (ISSN-L)
- 1098-2272
- PMC
- PMC3103820
- OpenAlex
- W2158987779
- Cited by
- 48
- References
- 29
- Citations by year
- 2026: 1 · 2025: 2 · 2024: 1 · 2023: 7 · 2022: 2 · 2021: 2 · 2019: 3 · 2018: 1 · 2017: 5 · 2016: 3 · 2015: 3 · 2014: 4 · 2013: 6 · 2012: 2
- FWCI
- 2.52
- Type
- journal article
- Language
- en
- Open access
- green
- www.ncbi.nlm.nih.gov
- Locations
- Genetic Epidemiology (publishedVersion)
- PubMed (publishedVersion)
- PubMed Central (acceptedVersion)
- Funders
- National University of Singapore
- National Institutes of Health
- Centers for Disease Control and Prevention
- National Human Genome Research Institute (HG000848)
- National Institute of General Medical Sciences (GM073059, R01GM073059)
- National Institute of Environmental Health Sciences (ES049019, ES025045, ZIAES049019, ZIAES025045)
- Division of Mathematical Sciences
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Forensic and Genetic Research
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Mapping and Diversity in Plants and Animals
- Keywords
- genetic admixture, admixture mapping, joint testing, genome-wide association study, demographic history, test efficiency
- MeSH terms
- Alleles, Asthma, Child, Chromosome Mapping, Chromosomes, Human, Genetics, Population, Genotype, Humans, Parents, Genome, Human, Confidence Intervals, Mexican Americans, Black People, White People, American Indian or Alaska Native, Genome-Wide Association Study
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