Using a Population-specific Reference Panel Improves Genotype Imputation Accuracy in Individuals of African Ancestry

被引：0
|
作者：
Mayanja, Richard [1 ,2 ,3 ]
Kamiza, Abram B. [1 ,2 ,4 ]
Soremekun, Opeyemi [1 ,2 ,5 ]
Hatzikotoulas, Konstantinos [7 ]
Rayner, William N. [7 ]
Zeggini, Eleftheria [7 ]
Morris, Andrew P. [8 ]
Crampin, Mia [4 ]
Chikowore, Tinashe [9 ,10 ]
Fatumo, Segun [1 ,2 ,5 ,6 ,7 ]
机构：
[1] UVRI, MRC, African Computat Genom TACG Res Grp, Entebbe, Uganda
[2] LSHTM, Entebbe, Uganda
[3] Makerere Univ, Coll Hlth Sci, Kampala, Uganda
[4] Malawi Epidemiol & Intervent Res Unit, Lilongwe, Malawi
[5] Uganda Virus Res Inst, London Sch Hyg & Trop Med, Med Res Council, Uganda Res unit, Entebbe, Uganda
[6] London Sch Hyg & Trop Med London, London, England
[7] Helmholtz Zentrum Munchen, Inst Translat Genom, Munich, Germany
[8] Univ Manchester, Div Musculoskeletal & Dermatol Sci, Ctr Genet & Genom Versus Arthrit, Ctr Musculoskeletal Res, Manchester, England
[9] Univ Witwatersrand, Sydney Brenner Inst Mol Biosci, Fac Hlth Sci, Johannesburg, South Africa
[10] Univ Witwatersrand, Dept Paediat, MRC Wits Dev Pathways Hlth Res Unit, Fac Hlth Sci, Johannesburg, South Africa
来源：
GENETIC EPIDEMIOLOGY | 2022年 / 46卷 / 07期
关键词：
D O I：
暂无
中图分类号：
Q3 [遗传学];
学科分类号：
071007 ; 090102 ;
摘要：
108
引用
收藏
页码：515 / 516
页数：2
相关论文
共 50 条
  • [41] Population-specific genotype imputations using minimac or IMPUTE2
    Elisabeth M van Leeuwen
    Alexandros Kanterakis
    Patrick Deelen
    Mathijs V Kattenberg
    P Eline Slagboom
    Paul I W de Bakker
    Cisca Wijmenga
    Morris A Swertz
    Dorret I Boomsma
    Cornelia M van Duijn
    Lennart C Karssen
    Jouke Jan Hottenga
    Nature Protocols, 2015, 10 : 1285 - 1296
  • [42] Population-specific genotype imputations using minimac or IMPUTE2
    van Leeuwen, Elisabeth M.
    Kanterakis, Alexandros
    Deelen, Patrick
    Kattenberg, Mathijs V.
    Slagboom, P. Eline
    de Bakker, Paul I. W.
    Wijmenga, Cisca
    Swertz, Morris A.
    Boomsma, Dorret I.
    van Duijn, Cornelia M.
    Karssen, Lennart C.
    Hottenga, Jouke Jan
    NATURE PROTOCOLS, 2015, 10 (09) : 1285 - 1296
  • [43] Evaluation of transethnic fine mapping with population-specific and cosmopolitan imputation reference panels in diverse Asian populations
    Wang, Xu
    Cheng, Ching-Yu
    Liao, Jiemin
    Sim, Xueling
    Liu, Jianjun
    Chia, Kee-Seng
    Tai, E-Shyong
    Little, Peter
    Khor, Chiea-Chuen
    Aung, Tin
    Wong, Tien-Yin
    Teo, Yik-Ying
    EUROPEAN JOURNAL OF HUMAN GENETICS, 2016, 24 (04) : 592 - 599
  • [44] Evaluation of transethnic fine mapping with population-specific and cosmopolitan imputation reference panels in diverse Asian populations
    Xu Wang
    Ching-Yu Cheng
    Jiemin Liao
    Xueling Sim
    Jianjun Liu
    Kee-Seng Chia
    E-Shyong Tai
    Peter Little
    Chiea-Chuen Khor
    Tin Aung
    Tien-Yin Wong
    Yik-Ying Teo
    European Journal of Human Genetics, 2016, 24 : 592 - 599
  • [45] Leveraging TOPMed imputation server and constructing a cohort-specific imputation reference panel to enhance genotype imputation among cystic fibrosis patients
    Sun, Quan
    Liu, Weifang
    Rosen, Jonathan D.
    Huang, Le
    Pace, Rhonda G.
    Dang, Hong
    Gallins, Paul J.
    Blue, Elizabeth E.
    Ling, Hua
    Corvol, Harriet
    Strug, Lisa J.
    Bamshad, Michael J.
    Gibson, Ronald L.
    Pugh, Elizabeth W.
    Blackman, Scott M.
    Cutting, Garry R.
    O'Neal, Wanda K.
    Zhou, Yi-Hui
    Wright, Fred A.
    Knowles, Michael R.
    Wen, Jia
    Li, Yun
    HUMAN GENETICS AND GENOMICS ADVANCES, 2022, 3 (02):
  • [46] HLA-IMPUTER: an easy to use web application for HLA imputation and association analysis using population-specific reference panels
    Shen, Jiangshan J.
    Yang, Chao
    Wang, Yong-Fei
    Wang, Ting-You
    Guo, Mengbiao
    Lau, Yu Lung
    Zhang, Xuejun
    Sheng, Yujun
    Yang, Wanling
    BIOINFORMATICS, 2019, 35 (07) : 1244 - 1246
  • [47] A comprehensive evaluation of factors affecting the accuracy of pig genotype imputation using a single or multi-breed reference population
    Zhang Kai-li
    Peng Xia
    Zhang Sai-xian
    Zhan Hui-wen
    Lu Jia-hui
    Xie Sheng-song
    Zhao Shu-hong
    Li Xin-yun
    Ma Yun-long
    JOURNAL OF INTEGRATIVE AGRICULTURE, 2022, 21 (02) : 486 - 495
  • [48] A comprehensive evaluation of factors affecting the accuracy of pig genotype imputation using a single or multi-breed reference population
    ZHANG Kai-li
    PENG Xia
    ZHANG Sai-xian
    ZHAN Hui-wen
    LU Jia-hui
    XIE Sheng-song
    ZHAO Shu-hong
    LI Xin-yun
    MA Yun-long
    JournalofIntegrativeAgriculture, 2022, 21 (02) : 486 - 495
  • [49] Genotype Imputation of Metabochip SNPs Using a Study-Specific Reference Panel of ∼4,000 Haplotypes in African Americans From the Women's Health Initiative
    Liu, Eric Yi
    Buyske, Steven
    Aragaki, Aaron K.
    Peters, Ulrike
    Boerwinkle, Eric
    Carlson, Chris
    Carty, Cara
    Crawford, Dana C.
    Haessler, Jeff
    Hindorff, Lucia A.
    Le Marchand, Loic
    Manolio, Teri A.
    Matise, Tara
    Wang, Wei
    Kooperberg, Charles
    North, Kari E.
    Li, Yun
    GENETIC EPIDEMIOLOGY, 2012, 36 (02) : 107 - 117
  • [50] Accuracy of imputation using the most common sires as reference population in layer chickens
    Marzieh Heidaritabar
    Mario P. L. Calus
    Addie Vereijken
    Martien A. M. Groenen
    John W. M. Bastiaansen
    BMC Genetics, 16
12345