Literature DB >> 18852205

Genome-wide association studies: potential next steps on a genetic journey.

Mark I McCarthy1, Joel N Hirschhorn.   

Abstract

Genome-wide association studies have successfully identified numerous loci at which common variants influence disease risk or quantitative traits. Despite these successes, the variants identified by these studies have generally explained only a small fraction of the heritable component of disease risk, and have not pinpointed with certainty the causal variant(s) at the associated loci. Furthermore, the mechanisms of action by which associated loci influence disease or quantitative phenotypes are often unclear, because we do not know through which gene(s) the associated variants exert their effects or because these gene(s) are of unknown function or have no clear connection to known disease biology. Thus, the initial set of genome-wide association studies serve as a starting point for future genetic and functional studies. We outline possible next steps that may help accelerate progress from genetic studies to the biological knowledge that can guide the development of predictive, preventive, or therapeutic measures.

Mesh:

Year:  2008        PMID: 18852205      PMCID: PMC2782356          DOI: 10.1093/hmg/ddn289

Source DB:  PubMed          Journal:  Hum Mol Genet        ISSN: 0964-6906            Impact factor:   6.150


  70 in total

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Authors:  Elaine R Mardis
Journal:  Trends Genet       Date:  2008-02-11       Impact factor: 11.639

2.  Genomic surveys by methylation-sensitive SNP analysis identify sequence-dependent allele-specific DNA methylation.

Authors:  Kristi Kerkel; Alexandra Spadola; Eric Yuan; Jolanta Kosek; Le Jiang; Eldad Hod; Kerry Li; Vundavalli V Murty; Nicole Schupf; Eric Vilain; Mitzi Morris; Fatemeh Haghighi; Benjamin Tycko
Journal:  Nat Genet       Date:  2008-06-22       Impact factor: 38.330

3.  Many sequence variants affecting diversity of adult human height.

Authors:  Daniel F Gudbjartsson; G Bragi Walters; Gudmar Thorleifsson; Hreinn Stefansson; Bjarni V Halldorsson; Pasha Zusmanovich; Patrick Sulem; Steinunn Thorlacius; Arnaldur Gylfason; Stacy Steinberg; Anna Helgadottir; Andres Ingason; Valgerdur Steinthorsdottir; Elinborg J Olafsdottir; Gudridur H Olafsdottir; Thorvaldur Jonsson; Knut Borch-Johnsen; Torben Hansen; Gitte Andersen; Torben Jorgensen; Oluf Pedersen; Katja K Aben; J Alfred Witjes; Dorine W Swinkels; Martin den Heijer; Barbara Franke; Andre L M Verbeek; Diane M Becker; Lisa R Yanek; Lewis C Becker; Laufey Tryggvadottir; Thorunn Rafnar; Jeffrey Gulcher; Lambertus A Kiemeney; Augustine Kong; Unnur Thorsteinsdottir; Kari Stefansson
Journal:  Nat Genet       Date:  2008-04-06       Impact factor: 38.330

4.  Genetics of gene expression and its effect on disease.

Authors:  Valur Emilsson; Gudmar Thorleifsson; Bin Zhang; Amy S Leonardson; Florian Zink; Jun Zhu; Sonia Carlson; Agnar Helgason; G Bragi Walters; Steinunn Gunnarsdottir; Magali Mouy; Valgerdur Steinthorsdottir; Gudrun H Eiriksdottir; Gyda Bjornsdottir; Inga Reynisdottir; Daniel Gudbjartsson; Anna Helgadottir; Aslaug Jonasdottir; Adalbjorg Jonasdottir; Unnur Styrkarsdottir; Solveig Gretarsdottir; Kristinn P Magnusson; Hreinn Stefansson; Ragnheidur Fossdal; Kristleifur Kristjansson; Hjortur G Gislason; Tryggvi Stefansson; Bjorn G Leifsson; Unnur Thorsteinsdottir; John R Lamb; Jeffrey R Gulcher; Marc L Reitman; Augustine Kong; Eric E Schadt; Kari Stefansson
Journal:  Nature       Date:  2008-03-16       Impact factor: 49.962

5.  Gene modifiers in cystic fibrosis.

Authors:  Frank J Accurso; Marci K Sontag
Journal:  J Clin Invest       Date:  2008-03       Impact factor: 14.808

6.  SNPs in KCNQ1 are associated with susceptibility to type 2 diabetes in East Asian and European populations.

Authors:  Hiroyuki Unoki; Atsushi Takahashi; Takahisa Kawaguchi; Kazuo Hara; Momoko Horikoshi; Gitte Andersen; Daniel P K Ng; Johan Holmkvist; Knut Borch-Johnsen; Torben Jørgensen; Annelli Sandbaek; Torsten Lauritzen; Torben Hansen; Siti Nurbaya; Tatsuhiko Tsunoda; Michiaki Kubo; Tetsuya Babazono; Hiroshi Hirose; Matsuhiko Hayashi; Yasuhiko Iwamoto; Atsunori Kashiwagi; Kohei Kaku; Ryuzo Kawamori; E Shyong Tai; Oluf Pedersen; Naoyuki Kamatani; Takashi Kadowaki; Ryuichi Kikkawa; Yusuke Nakamura; Shiro Maeda
Journal:  Nat Genet       Date:  2008-09       Impact factor: 38.330

7.  Multiple loci identified in a genome-wide association study of prostate cancer.

Authors:  Gilles Thomas; Kevin B Jacobs; Meredith Yeager; Peter Kraft; Sholom Wacholder; Nick Orr; Kai Yu; Nilanjan Chatterjee; Robert Welch; Amy Hutchinson; Andrew Crenshaw; Geraldine Cancel-Tassin; Brian J Staats; Zhaoming Wang; Jesus Gonzalez-Bosquet; Jun Fang; Xiang Deng; Sonja I Berndt; Eugenia E Calle; Heather Spencer Feigelson; Michael J Thun; Carmen Rodriguez; Demetrius Albanes; Jarmo Virtamo; Stephanie Weinstein; Fredrick R Schumacher; Edward Giovannucci; Walter C Willett; Olivier Cussenot; Antoine Valeri; Gerald L Andriole; E David Crawford; Margaret Tucker; Daniela S Gerhard; Joseph F Fraumeni; Robert Hoover; Richard B Hayes; David J Hunter; Stephen J Chanock
Journal:  Nat Genet       Date:  2008-02-10       Impact factor: 38.330

8.  Genome-wide association analysis identifies 20 loci that influence adult height.

Authors:  Michael N Weedon; Hana Lango; Cecilia M Lindgren; Chris Wallace; David M Evans; Massimo Mangino; Rachel M Freathy; John R B Perry; Suzanne Stevens; Alistair S Hall; Nilesh J Samani; Beverly Shields; Inga Prokopenko; Martin Farrall; Anna Dominiczak; Toby Johnson; Sven Bergmann; Jacques S Beckmann; Peter Vollenweider; Dawn M Waterworth; Vincent Mooser; Colin N A Palmer; Andrew D Morris; Willem H Ouwehand; Jing Hua Zhao; Shengxu Li; Ruth J F Loos; Inês Barroso; Panagiotis Deloukas; Manjinder S Sandhu; Eleanor Wheeler; Nicole Soranzo; Michael Inouye; Nicholas J Wareham; Mark Caulfield; Patricia B Munroe; Andrew T Hattersley; Mark I McCarthy; Timothy M Frayling
Journal:  Nat Genet       Date:  2008-04-06       Impact factor: 38.330

9.  Rare independent mutations in renal salt handling genes contribute to blood pressure variation.

Authors:  Weizhen Ji; Jia Nee Foo; Brian J O'Roak; Hongyu Zhao; Martin G Larson; David B Simon; Christopher Newton-Cheh; Matthew W State; Daniel Levy; Richard P Lifton
Journal:  Nat Genet       Date:  2008-04-06       Impact factor: 38.330

10.  Mapping the genetic architecture of gene expression in human liver.

Authors:  Eric E Schadt; Cliona Molony; Eugene Chudin; Ke Hao; Xia Yang; Pek Y Lum; Andrew Kasarskis; Bin Zhang; Susanna Wang; Christine Suver; Jun Zhu; Joshua Millstein; Solveig Sieberts; John Lamb; Debraj GuhaThakurta; Jonathan Derry; John D Storey; Iliana Avila-Campillo; Mark J Kruger; Jason M Johnson; Carol A Rohl; Atila van Nas; Margarete Mehrabian; Thomas A Drake; Aldons J Lusis; Ryan C Smith; F Peter Guengerich; Stephen C Strom; Erin Schuetz; Thomas H Rushmore; Roger Ulrich
Journal:  PLoS Biol       Date:  2008-05-06       Impact factor: 8.029

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  168 in total

Review 1.  Genome-wide association studies of chronic kidney disease: what have we learned?

Authors:  Conall M O'Seaghdha; Caroline S Fox
Journal:  Nat Rev Nephrol       Date:  2011-12-06       Impact factor: 28.314

2.  What is a functional locus? Understanding the genetic basis of complex phenotypic traits.

Authors:  Edward A Ruiz-Narváez
Journal:  Med Hypotheses       Date:  2011-02-01       Impact factor: 1.538

3.  Cohort Profile: the international childhood cardiovascular cohort (i3C) consortium.

Authors:  Terence Dwyer; Cong Sun; Costan G Magnussen; Olli T Raitakari; Nicholas J Schork; Alison Venn; Trudy L Burns; Markus Juonala; Julia Steinberger; Alan R Sinaiko; Ronald J Prineas; Patricia H Davis; Jessica G Woo; John A Morrison; Stephen R Daniels; Wei Chen; Sathanur R Srinivasan; Jorma Sa Viikari; Gerald S Berenson
Journal:  Int J Epidemiol       Date:  2012-03-20       Impact factor: 7.196

4.  Fine mapping of the association with obesity at the FTO locus in African-derived populations.

Authors:  Mohamed T Hassanein; Helen N Lyon; Thutrang T Nguyen; Ermeg L Akylbekova; Kevin Waters; Guillaume Lettre; Bamidele Tayo; Terrence Forrester; Daniel F Sarpong; Dan O Stram; Johannah L Butler; Rainford Wilks; Jiankang Liu; Loic Le Marchand; Laurence N Kolonel; Xiaofeng Zhu; Brian Henderson; Richard Cooper; Colin McKenzie; Herman A Taylor; Christopher A Haiman; Joel N Hirschhorn
Journal:  Hum Mol Genet       Date:  2010-04-29       Impact factor: 6.150

Review 5.  Uncovering the roles of rare variants in common disease through whole-genome sequencing.

Authors:  Elizabeth T Cirulli; David B Goldstein
Journal:  Nat Rev Genet       Date:  2010-06       Impact factor: 53.242

6.  Replication of past candidate loci for common diseases and phenotypes in 100 genome-wide association studies.

Authors:  Konstantinos C M Siontis; Nikolaos A Patsopoulos; John P A Ioannidis
Journal:  Eur J Hum Genet       Date:  2010-03-17       Impact factor: 4.246

Review 7.  Overview of techniques to account for confounding due to population stratification and cryptic relatedness in genomic data association analyses.

Authors:  M J Sillanpää
Journal:  Heredity (Edinb)       Date:  2010-07-14       Impact factor: 3.821

8.  The role of rare variants in systolic blood pressure: analysis of ExomeChip data in HyperGEN African Americans.

Authors:  Yun Ju Sung; Jacob Basson; Nuo Cheng; Khanh-Dung H Nguyen; Priyanka Nandakumar; Steven C Hunt; Donna K Arnett; Victor G Dávila-Román; Dabeeru C Rao; Aravinda Chakravarti
Journal:  Hum Hered       Date:  2015       Impact factor: 0.444

9.  Epigenetics in the Primary Biliary Cholangitis and Primary Sclerosing Cholangitis.

Authors:  Angela C Cheung; Nicholas F LaRusso; Gregory J Gores; Konstantinos N Lazaridis
Journal:  Semin Liver Dis       Date:  2017-05-31       Impact factor: 6.115

Review 10.  Mendelian forms of structural cardiovascular disease.

Authors:  Calum A MacRae
Journal:  Curr Cardiol Rep       Date:  2013-10       Impact factor: 2.931

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