The DOI matches its Crossref record; 3 of the 3 references it cites were found in a registry or an index.
Enhancements to the ADMIXTURE algorithm for individual ancestry estimation
Open accessAbstract
BACKGROUND: The estimation of individual ancestry from genetic data has become essential to applied population genetics and genetic epidemiology. Software programs for calculating ancestry estimates have become essential tools in the geneticist's analytic arsenal. RESULTS: Here we describe four enhancements to ADMIXTURE, a high-performance tool for estimating individual ancestries and population allele frequencies from SNP (single nucleotide polymorphism) data. First, ADMIXTURE can be used to estimate the number of underlying populations through cross-validation. Second, individuals of known ancestry can be exploited in supervised learning to yield more precise ancestry estimates. Third, by penalizing small admixture coefficients for each individual, one can encourage model parsimony, often yielding more interpretable results for small datasets or datasets with large numbers of ancestral populations. Finally, by exploiting multiple processors, large datasets can be analyzed even more rapidly. CONCLUSIONS: The enhancements we have described make ADMIXTURE a more accurate, efficient, and versatile tool for ancestry estimation.
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McCullagh, P., & Nelder, J. A. (1989) · doi:10.1007/978-1-4899-3242-6 · Cited by 16,836
Population Structure and Eigenanalysis
Patterson, N., Price, A. L., & Reich, D. (2006) · PLoS Genetics · doi:10.1371/journal.pgen.0020190 · Cited by 5,280
Integrating common and rare genetic variation in diverse human populations
The International HapMap 3 Consortium (2010) · Nature · doi:10.1038/nature09298 · Cited by 3,026
Research works printed but not linked: 9
- Pritchard J, Stephens M, Donnelly P: Inference of population structure using multilocus genotype data. Genetics 2000, 155(2):945. · DOI · Paper page
- Tang H, Peng J, Wang P, Risch N: Estimation of individual admixture: analytical and study design considerations. Genetic Epidemiology 2005, 28(4):289–301. 10.1002/gepi.20064 · DOI · Paper page
- Zhou H, Alexander D, Lange K: A quasi-Newton acceleration for high-dimensional optimization algorithms. Statistics and Computing Published online 2009., 19(4):
- Alexander D, Novembre J, Lange K: Fast model-based estimation of ancestry in unrelated individuals. Genome Research 2009, 19: 1655–1664. 10.1101/gr.094052.109 · DOI · Paper page
- Scheet P, Stephens M: A fast and flexible statistical model for large-scale population genotype data: applications to inferring missing genotypes and haplotypic phase. American Journal of Human Genetics 2006, 78(4):629–644. 10.1086/502802 · DOI · Paper page
- Wold S: Cross-validatory estimation of the number of components in factor and principal components models. Technometrics 1978, 397–405.
- Candes E, Wakin M, Boyd S: Enhancing sparsity by reweighted ℓ1minimization. Journal of Fourier Analysis and Applications 2008, 14(5):877–905. 10.1007/s00041-008-9045-x · DOI · Paper page
- Dagum L, Menon R: OpenMP: an industry standard API for shared-memory programming. Computational Science & Engineering IEEE 2002, 5: 46–55. · DOI · Paper page
- Balding D, Nichols R: A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity. Genetica 1995, 96: 3–12. 10.1007/BF01441146 · DOI · Paper page
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The Simons Genome Diversity Project: 300 genomes from 142 diverse populations
Mallick, S., Li, H., Lipson, M., Mathieson, I., Gymrek, M., Racimo, F., Zhao, M., Chennagiri, N., Nordenfelt, S., Tandon, A., et al. (2016) · Nature · doi:10.1038/nature18964 · Cited by 1,584
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Noble, K. G., Houston, S. M., Brito, N. H., Bartsch, H., Kan, E., Kuperman, J. M., Akshoomoff, N., Amaral, D. G., Bloss, C. S., Libiger, O., et al. (2015) · Nature Neuroscience · doi:10.1038/nn.3983 · Cited by 1,423
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Lazaridis, I., Patterson, N., Mittnik, A., Renaud, G., Mallick, S., Kirsanow, K., Sudmant, P. H., Schraiber, J. G., Castellano, S., Lipson, M., et al. (2014) · Nature · doi:10.1038/nature13673 · Cited by 1,357
Linck, E., & Battey, C. J. (2019) · Molecular Ecology Resources · doi:10.1111/1755-0998.12995 · Cited by 394
Metadata
- Authors
- Alexander, D. H., & Lange, K.
- Venue
- BMC Bioinformatics
- Published
- 2011-06-18
- Volume
- 12
- Issue
- 1
- Pages
- 246-246
- ISSN
- 1471-2105 (ISSN-L)
- OpenAlex
- W1991301405
- Cited by
- 1,574
- References
- 3
- FWCI
- 6.76
- Type
- journal article
- Language
- en
- Open access
- gold
- Licence
- creativecommons.org/licenses/by/2.0 (tdm)
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