{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,21]],"date-time":"2026-03-21T17:36:17Z","timestamp":1774114577189,"version":"3.50.1"},"reference-count":6,"publisher":"Oxford University Press (OUP)","issue":"14","funder":[{"DOI":"10.13039\/100000002","name":"the National Institutes of Health, USA","doi-asserted-by":"crossref","award":["GM099568"],"award-info":[{"award-number":["GM099568"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"crossref"}]},{"name":"NHLBI and NIDCR","award":["HHSN268201300005C AM03 and MOD03"],"award-info":[{"award-number":["HHSN268201300005C AM03 and MOD03"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2016,7,15]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: In a genome-wide association study (GWAS) of an admixed population, such as Hispanic Americans, ancestry-specific allele frequencies can inform the design of a replication GWAS. We derive an EM algorithm to estimate ancestry-specific allele frequencies for a bi-allelic marker given genotypes and local ancestries on a 3-way admixed population, when the phase of each admixed individual\u2019s genotype relative to the pair of local ancestries is unknown. We call our algorithm Ancestry Specific Allele Frequency Estimation (ASAFE). We demonstrate that ASAFE has low error on simulated data.<\/jats:p>\n               <jats:p>Availability and implementation: The R source code for ASAFE is available for download at https:\/\/github.com\/BiostatQian\/ASAFE<\/jats:p>\n               <jats:p>Contact: \u00a0qszhang@uw.edu<\/jats:p>\n               <jats:p>Supplementary information: \u00a0Supplementary data are available at Bioinformatics online.<\/jats:p>","DOI":"10.1093\/bioinformatics\/btw220","type":"journal-article","created":{"date-parts":[[2016,5,4]],"date-time":"2016-05-04T01:03:16Z","timestamp":1462323796000},"page":"2227-2229","source":"Crossref","is-referenced-by-count":8,"title":["ASAFE: ancestry-specific allele frequency estimation"],"prefix":"10.1093","volume":"32","author":[{"given":"Qian S.","family":"Zhang","sequence":"first","affiliation":[{"name":"1Department of Medicine"},{"name":"2Department of Biostatistics and"}]},{"given":"Brian L.","family":"Browning","sequence":"additional","affiliation":[{"name":"2Department of Biostatistics and"},{"name":"3Division of Medical Genetics, Department of Medicine, University of Washington, Seattle, WA, USA"}]},{"given":"Sharon R.","family":"Browning","sequence":"additional","affiliation":[{"name":"2Department of Biostatistics and"}]}],"member":"286","published-online":{"date-parts":[[2016,5,3]]},"reference":[{"key":"2023020112443600300_btw220-B1","doi-asserted-by":"crossref","first-page":"1655","DOI":"10.1101\/gr.094052.109","article-title":"Fast model-based estimation of ancestry in unrelated individuals","volume":"19","author":"Alexander","year":"2009","journal-title":"Genome Res"},{"key":"2023020112443600300_btw220-B3","doi-asserted-by":"crossref","first-page":"1567","DOI":"10.1093\/genetics\/164.4.1567","article-title":"Inference of population structure using multilocus genotype data: linked loci and correlated allele frequencies","volume":"164","author":"Falush","year":"2003","journal-title":"Genetics"},{"key":"2023020112443600300_btw220-B4","doi-asserted-by":"crossref","first-page":"e1004023","DOI":"10.1371\/journal.pgen.1004023","article-title":"Reconstructing Native American migrations from whole-genome and whole-exome data","volume":"9","author":"Gravel","year":"2013","journal-title":"PLoS Genet"},{"key":"2023020112443600300_btw220-B5","doi-asserted-by":"crossref","first-page":"278","DOI":"10.1016\/j.ajhg.2013.06.020","article-title":"RFMix: a discriminative modeling approach for rapid and robust local-ancestry inference","volume":"93","author":"Maples","year":"2013","journal-title":"Am. 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