ArticleGenetic epidemiology2011
Haplotype variation and genotype imputation in African populations.
Article in Genetic epidemiology, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 1 of them a synthesis that pooled it.
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Who cites it
30 citing papers in PubMed, 1 synthesis or guideline pooled it, 47 citations in OpenAlex.
- KidneyGenAfrica multi-cohort Genome-wide association study and polygenic prediction of kidney function in 110,000 Africans.Nature communications · 2026Pooled it
- The importance of accurate phenotyping in large-scale analyses of common disorders such as hearing loss.European journal of human genetics : EJHG · 2025Article
- Genomic Exploration of Essential Hypertension in African-Brazilian Quilombo Populations: A Comprehensive Approach With Pedigree Analysis and Family-Based Association Studies.Journal of the American Heart Association · 2025Article
- A joint use of pooling and imputation for genotyping SNPs.BMC bioinformatics · 2022Article
- Individualized Medicine in Africa: Bringing the Practice Into the Realms of Population Heterogeneity.Frontiers in genetics · 2022Article
- Human OMICs and Computational Biology Research in Africa: Current Challenges and Prospects.Omics : a journal of integrative biology · 2021Article
- Mining whole genome sequence data to efficiently attribute individuals to source populations.Scientific reports · 2020Article
- Polygenic risk scores in psychiatry: Will they be useful for clinicians?F1000Research · 2019Review
- A genome scan for genes underlying adult body size differences between Central African hunter-gatherers and farmers.Human genetics · 2018Article
- Weighted likelihood inference of genomic autozygosity patterns in dense genotype data.BMC genomics · 2017Article
- Imputation of missing genotypes within LD-blocks relying on the basic coalescent and beyond: consideration of population growth and structure.BMC genomics · 2017Article
- Linkage disequilibrium matches forensic genetic records to disjoint genomic marker sets.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- Comparing performance of modern genotype imputation methods in different ethnicities.Scientific reports · 2016Article
- A new strategy for enhancing imputation quality of rare variants from next-generation sequencing data via combining SNP and exome chip data.BMC genomics · 2015Article
- Choosing Subsamples for Sequencing Studies by Minimizing the Average Distance to the Closest Leaf.Genetics · 2015Article
- Genetic Diversity and Societally Important Disparities.Genetics · 2015Review
- Impact of genetic similarity on imputation accuracy.BMC genetics · 2015Article
- Imputation-based assessment of next generation rare exome variant arrays.Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · 2014Article
- Article
- Genotype imputation in a coalescent model with infinitely-many-sites mutation.Theoretical population biology · 2013Article
Corrections and comments
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Authors and funding
9 authors at 8 institutions in 5 countries.
Funding
Abstract
Sub-Saharan Africa has been identified as the part of the world with the greatest human genetic diversity. This high level of diversity causes difficulties for genome-wide association (GWA) studies in African populations-for example, by reducing the accuracy of genotype imputation in African populations compared to non-African populations. Here, we investigate haplotype variation and imputation in Africa, using 253 unrelated individuals from 15 Sub-Saharan African populations. We identify the populations that provide the greatest potential for serving as reference panels for imputing genotypes in the remaining groups. Considering reference panels comprising samples of recent African descent in Phase 3 of the HapMap Project, we identify mixtures of reference groups that produce the maximal imputation accuracy in each of the sampled populations. We find that optimal HapMap mixtures and maximal imputation accuracies identified in detailed tests of imputation procedures can instead be predicted by using simple summary statistics that measure relationships between the pattern of genetic variation in a target population and the patterns in potential reference panels. Our results provide an empirical basis for facilitating the selection of reference panels in GWA studies of diverse human populations, especially those of African ancestry.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.