Literature DB >> 23165185

The nature of confounding in genome-wide association studies.

Bjarni J Vilhjálmsson1, Magnus Nordborg.   

Abstract

The authors argue that population structure per se is not a problem in genome-wide association studies - the true sources are the environment and the genetic background, and the latter is greatly underappreciated. They conclude that mixed models effectively address this issue.

Mesh：

Year:  2012        PMID： 23165185     DOI： 10.1038/nrg3382

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN： 1471-0056            Impact factor:   53.242


  20 in total

1.  Association mapping in structured populations.

Authors:  J K Pritchard; M Stephens; N A Rosenberg; P Donnelly
Journal:  Am J Hum Genet       Date:  2000-05-26       Impact factor: 11.025

2.  Genomic control for association studies.

Authors:  B Devlin; K Roeder
Journal:  Biometrics       Date:  1999-12       Impact factor: 2.571

3.  The mystery of missing heritability: Genetic interactions create phantom heritability.

Authors:  Or Zuk; Eliana Hechter; Shamil R Sunyaev; Eric S Lander
Journal:  Proc Natl Acad Sci U S A       Date:  2012-01-05       Impact factor: 11.205

4.  Improved linear mixed models for genome-wide association studies.

Authors:  Jennifer Listgarten; Christoph Lippert; Carl M Kadie; Robert I Davidson; Eleazar Eskin; David Heckerman
Journal:  Nat Methods       Date:  2012-05-30       Impact factor: 28.547

5.  Genome-wide association studies of 14 agronomic traits in rice landraces.

Authors:  Xuehui Huang; Xinghua Wei; Tao Sang; Qiang Zhao; Qi Feng; Yan Zhao; Canyang Li; Chuanrang Zhu; Tingting Lu; Zhiwu Zhang; Meng Li; Danlin Fan; Yunli Guo; Ahong Wang; Lu Wang; Liuwei Deng; Wenjun Li; Yiqi Lu; Qijun Weng; Kunyan Liu; Tao Huang; Taoying Zhou; Yufeng Jing; Wei Li; Zhang Lin; Edward S Buckler; Qian Qian; Qi-Fa Zhang; Jiayang Li; Bin Han
Journal:  Nat Genet       Date:  2010-10-24       Impact factor: 38.330

6.  Principal components analysis corrects for stratification in genome-wide association studies.

Authors:  Alkes L Price; Nick J Patterson; Robert M Plenge; Michael E Weinblatt; Nancy A Shadick; David Reich
Journal:  Nat Genet       Date:  2006-07-23       Impact factor: 38.330

Review 7.  Genetic dissection of complex traits.

Authors:  E S Lander; N J Schork
Journal:  Science       Date:  1994-09-30       Impact factor: 47.728

8.  Common SNPs explain a large proportion of the heritability for human height.

Authors:  Jian Yang; Beben Benyamin; Brian P McEvoy; Scott Gordon; Anjali K Henders; Dale R Nyholt; Pamela A Madden; Andrew C Heath; Nicholas G Martin; Grant W Montgomery; Michael E Goddard; Peter M Visscher
Journal:  Nat Genet       Date:  2010-06-20       Impact factor: 38.330

9.  An efficient multi-locus mixed-model approach for genome-wide association studies in structured populations.

Authors:  Vincent Segura; Bjarni J Vilhjálmsson; Alexander Platt; Arthur Korte; Ümit Seren; Quan Long; Magnus Nordborg
Journal:  Nat Genet       Date:  2012-06-17       Impact factor: 38.330

10.  Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines.

Authors:  Susanna Atwell; Yu S Huang; Bjarni J Vilhjálmsson; Glenda Willems; Matthew Horton; Yan Li; Dazhe Meng; Alexander Platt; Aaron M Tarone; Tina T Hu; Rong Jiang; N Wayan Muliyati; Xu Zhang; Muhammad Ali Amer; Ivan Baxter; Benjamin Brachi; Joanne Chory; Caroline Dean; Marilyne Debieu; Juliette de Meaux; Joseph R Ecker; Nathalie Faure; Joel M Kniskern; Jonathan D G Jones; Todd Michael; Adnane Nemri; Fabrice Roux; David E Salt; Chunlao Tang; Marco Todesco; M Brian Traw; Detlef Weigel; Paul Marjoram; Justin O Borevitz; Joy Bergelson; Magnus Nordborg
Journal:  Nature       Date:  2010-03-24       Impact factor: 49.962
View more
  68 in total

1.  Multi-trait and multi-environment QTL analyses of yield and a set of physiological traits in pepper.

Authors:  N A Alimi; M C A M Bink; J A Dieleman; J J Magán; A M Wubs; A Palloix; F A van Eeuwijk
Journal:  Theor Appl Genet       Date:  2013-08-01       Impact factor: 5.699

Review 2.  Ecological genomics of local adaptation.

Authors:  Outi Savolainen; Martin Lascoux; Juha Merilä
Journal:  Nat Rev Genet       Date:  2013-11       Impact factor: 53.242

Review 3.  Methods of integrating data to uncover genotype-phenotype interactions.

Authors:  Marylyn D Ritchie; Emily R Holzinger; Ruowang Li; Sarah A Pendergrass; Dokyoon Kim
Journal:  Nat Rev Genet       Date:  2015-01-13       Impact factor: 53.242

4.  Inference on the Genetic Basis of Eye and Skin Color in an Admixed Population via Bayesian Linear Mixed Models.

Authors:  Luke R Lloyd-Jones; Matthew R Robinson; Gerhard Moser; Jian Zeng; Sandra Beleza; Gregory S Barsh; Hua Tang; Peter M Visscher
Journal:  Genetics       Date:  2017-04-04       Impact factor: 4.562

5.  Response to Sul and Eskin.

Authors:  Alkes L Price; Noah A Zaitlen; David Reich; Nick Patterson
Journal:  Nat Rev Genet       Date:  2013-02-26       Impact factor: 53.242

6.  Phylogeny-corrected identification of microbial gene families relevant to human gut colonization.

Authors:  Patrick H Bradley; Stephen Nayfach; Katherine S Pollard
Journal:  PLoS Comput Biol       Date:  2018-08-09       Impact factor: 4.475

7.  Genome-wide association mapping in Arabidopsis identifies novel genes underlying quantitative disease resistance to Alternaria brassicae.

Authors:  Sivasubramanian Rajarammohan; Akshay Kumar Pradhan; Deepak Pental; Jagreet Kaur
Journal:  Mol Plant Pathol       Date:  2018-02-01       Impact factor: 5.663

8.  Genome-wide association study using whole-genome sequencing rapidly identifies new genes influencing agronomic traits in rice.

Authors:  Kenji Yano; Eiji Yamamoto; Koichiro Aya; Hideyuki Takeuchi; Pei-Ching Lo; Li Hu; Masanori Yamasaki; Shinya Yoshida; Hidemi Kitano; Ko Hirano; Makoto Matsuoka
Journal:  Nat Genet       Date:  2016-06-20       Impact factor: 38.330

9.  DeepCOMBI: explainable artificial intelligence for the analysis and discovery in genome-wide association studies.

Authors:  Bettina Mieth; Alexandre Rozier; Juan Antonio Rodriguez; Marina M C Höhne; Nico Görnitz; Klaus-Robert Müller
Journal:  NAR Genom Bioinform       Date:  2021-07-20

10.  Clinal variation at phenology-related genes in spruce: parallel evolution in FTL2 and Gigantea?

Authors:  Jun Chen; Yoshiaki Tsuda; Michael Stocks; Thomas Källman; Nannan Xu; Katri Kärkkäinen; Tea Huotari; Vladimir L Semerikov; Giovanni G Vendramin; Martin Lascoux
Journal:  Genetics       Date:  2014-05-09       Impact factor: 4.562
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.