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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Tractor uses local ancestry to enable the inclusion of admixed individuals in GWAS and to boost power

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Author(s):
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Atkinson, Elizabeth G. [1, 2, 3] ; Maihofer, Adam X. [4] ; Kanai, Masahiro [1, 2, 3, 5, 6] ; Martin, Alicia R. [1, 2, 3] ; Karczewski, Konrad J. [2, 3] ; Santoro, Marcos L. [7, 8, 3] ; Ulirsch, Jacob C. [1, 2, 3, 9] ; Kamatani, Yoichiro [10] ; Okada, Yukinori [6, 11, 12] ; Finucane, Hilary K. [1, 2, 3] ; Koenen, Karestan C. [13, 3] ; Nievergelt, Caroline M. [4] ; Daly, Mark J. [1, 2, 3, 14] ; Neale, Benjamin M. [2, 3]
Total Authors: 14
Affiliation:
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[1] Broad Inst MIT & Harvard, Program Med & Populat Genet, Cambridge, MA 02142 - USA
[2] Massachusetts Gen Hosp, Dept Med, Analyt & Translat Genet Unit, Boston, MA 02114 - USA
[3] Broad Inst MIT & Harvard, Stanley Ctr Psychiat Res, Cambridge, MA 02142 - USA
[4] Univ Calif San Diego, Dept Psychiat, La Jolla, CA 92093 - USA
[5] Harvard Med Sch, Program Bioinformat & Integrat Genom, Boston, MA 02115 - USA
[6] Osaka Univ, Grad Sch Med, Dept Stat Genet, Suita, Osaka - Japan
[7] Univ Fed Sao Paulo, Dept Morfol & Genet, Sao Paulo - Brazil
[8] Univ Fed Sao Paulo, Dept Psiquiatria, Sao Paulo - Brazil
[9] Harvard Med Sch, Program Biol & Biomed Sci, Boston, MA 02115 - USA
[10] Univ Tokyo, Lab Complex Trait Genom, Dept Computat Biol & Med Sci, Grad Sch Frontier Sci, Tokyo - Japan
[11] Osaka Univ, Lab Stat Immunol, Immunol Frontier Res Ctr WPI IFReC, Suita, Osaka - Japan
[12] Osaka Univ, Integrated Frontier Res Med Sci Div, Inst Open & Transdisciplinary Res Initiat, Suita, Osaka - Japan
[13] Harvard TH Chan Sch Publ Hlth, Dept Epidemiol, Boston, MA - USA
[14] Univ Helsinki, Inst Mol Med Finland, Helsinki - Finland
Total Affiliations: 14
Document type: Journal article
Source: Nature Genetics; v. 53, n. 2 JAN 2021.
Web of Science Citations: 1
Abstract

Admixed populations are routinely excluded from genomic studies due to concerns over population structure. Here, we present a statistical framework and software package, Tractor, to facilitate the inclusion of admixed individuals in association studies by leveraging local ancestry. We test Tractor with simulated and empirical two-way admixed African-European cohorts. Tractor generates accurate ancestry-specific effect-size estimates and P values, can boost genome-wide association study (GWAS) power and improves the resolution of association signals. Using a local ancestry-aware regression model, we replicate known hits for blood lipids, discover novel hits missed by standard GWAS and localize signals closer to putative causal variants. (AU)

FAPESP's process: 18/09328-2 - EVALUATION OF POLYGENIC RISK SCORE PERFORMANCE AND GENE-ENVIRONMENT INTERACTION IN AN ADMIXED BRAZILIAN COHORT
Grantee:Marcos Leite Santoro
Support type: Scholarships abroad - Research Internship - Post-doctor