Literature DB >> 21747404

Epigenome-wide association studies for common human diseases.

Vardhman K Rakyan1, Thomas A Down, David J Balding, Stephan Beck.   

Abstract

Despite the success of genome-wide association studies (GWASs) in identifying loci associated with common diseases, a substantial proportion of the causality remains unexplained. Recent advances in genomic technologies have placed us in a position to initiate large-scale studies of human disease-associated epigenetic variation, specifically variation in DNA methylation. Such epigenome-wide association studies (EWASs) present novel opportunities but also create new challenges that are not encountered in GWASs. We discuss EWAS design, cohort and sample selections, statistical significance and power, confounding factors and follow-up studies. We also discuss how integration of EWASs with GWASs can help to dissect complex GWAS haplotypes for functional analysis.

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Year:  2011        PMID： 21747404      PMCID： PMC3508712          DOI： 10.1038/nrg3000

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


  94 in total

1.  Paternally induced transgenerational environmental reprogramming of metabolic gene expression in mammals.

Authors:  Benjamin R Carone; Lucas Fauquier; Naomi Habib; Jeremy M Shea; Caroline E Hart; Ruowang Li; Christoph Bock; Chengjian Li; Hongcang Gu; Phillip D Zamore; Alexander Meissner; Zhiping Weng; Hans A Hofmann; Nir Friedman; Oliver J Rando
Journal:  Cell       Date:  2010-12-23       Impact factor: 41.582

2.  Comprehensive high-throughput arrays for relative methylation (CHARM).

Authors:  Rafael A Irizarry; Christine Ladd-Acosta; Benilton Carvalho; Hao Wu; Sheri A Brandenburg; Jeffrey A Jeddeloh; Bo Wen; Andrew P Feinberg
Journal:  Genome Res       Date:  2008-03-03       Impact factor: 9.043

3.  Potential etiologic and functional implications of genome-wide association loci for human diseases and traits.

Authors:  Lucia A Hindorff; Praveen Sethupathy; Heather A Junkins; Erin M Ramos; Jayashri P Mehta; Francis S Collins; Teri A Manolio
Journal:  Proc Natl Acad Sci U S A       Date:  2009-05-27       Impact factor: 11.205

4.  Epigenetics: Tet proteins in the limelight.

Authors:  Nathalie Véron; Antoine H F M Peters
Journal:  Nature       Date:  2011-05-19       Impact factor: 49.962

5.  Non-CpG methylation is prevalent in embryonic stem cells and may be mediated by DNA methyltransferase 3a.

Authors:  B H Ramsahoye; D Biniszkiewicz; F Lyko; V Clark; A P Bird; R Jaenisch
Journal:  Proc Natl Acad Sci U S A       Date:  2000-05-09       Impact factor: 11.205

Review 6.  From discovery to the clinic: the novel DNA methylation biomarker (m)SEPT9 for the detection of colorectal cancer in blood.

Authors:  Shannon R Payne
Journal:  Epigenomics       Date:  2010-08       Impact factor: 4.778

7.  Biological and clinical relevance of quantitative global methylation of repetitive DNA sequences in chronic lymphocytic leukemia.

Authors:  Sonia Fabris; Valentina Bollati; Luca Agnelli; Fortunato Morabito; Valeria Motta; Giovanna Cutrona; Serena Matis; Anna Grazia Recchia; Vincenzo Gigliotti; Massimo Gentile; Giorgio Lambertenghi Deliliers; Pier Alberto Bertazzi; Manlio Ferrarini; Antonino Neri; Andrea Baccarelli
Journal:  Epigenetics       Date:  2011-02-01       Impact factor: 4.528

8.  Discovery and characterization of chromatin states for systematic annotation of the human genome.

Authors:  Jason Ernst; Manolis Kellis
Journal:  Nat Biotechnol       Date:  2010-07-25       Impact factor: 54.908

9.  Extensive sequence-influenced DNA methylation polymorphism in the human genome.

Authors:  Asaf Hellman; Andrew Chess
Journal:  Epigenetics Chromatin       Date:  2010-05-24       Impact factor: 4.954

10.  Association of breast cancer DNA methylation profiles with hormone receptor status and response to tamoxifen.

Authors:  Martin Widschwendter; Kimberly D Siegmund; Hannes M Müller; Heidi Fiegl; Christian Marth; Elisabeth Müller-Holzner; Peter A Jones; Peter W Laird
Journal:  Cancer Res       Date:  2004-06-01       Impact factor: 12.701
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  521 in total

1.  Association of Brain DNA methylation in SORL1, ABCA7, HLA-DRB5, SLC24A4, and BIN1 with pathological diagnosis of Alzheimer disease.

Authors:  Lei Yu; Lori B Chibnik; Gyan P Srivastava; Nathalie Pochet; Jingyun Yang; Jishu Xu; James Kozubek; Nikolaus Obholzer; Sue E Leurgans; Julie A Schneider; Alexander Meissner; Philip L De Jager; David A Bennett
Journal:  JAMA Neurol       Date:  2015-01       Impact factor: 18.302

Review 2.  Bioinformatics for personal genome interpretation.

Authors:  Emidio Capriotti; Nathan L Nehrt; Maricel G Kann; Yana Bromberg
Journal:  Brief Bioinform       Date:  2012-01-13       Impact factor: 11.622

Review 3.  Unraveling the genetic component of systemic sclerosis.

Authors:  José Ezequiel Martín; Lara Bossini-Castillo; Javier Martín
Journal:  Hum Genet       Date:  2012-01-05       Impact factor: 4.132

Review 4.  Understanding transgenerational epigenetic inheritance via the gametes in mammals.

Authors:  Lucia Daxinger; Emma Whitelaw
Journal:  Nat Rev Genet       Date:  2012-01-31       Impact factor: 53.242

5.  Bump hunting to identify differentially methylated regions in epigenetic epidemiology studies.

Authors:  Andrew E Jaffe; Peter Murakami; Hwajin Lee; Jeffrey T Leek; M Daniele Fallin; Andrew P Feinberg; Rafael A Irizarry
Journal:  Int J Epidemiol       Date:  2012-02       Impact factor: 7.196

6.  Is epidemiology ready for epigenetics?

Authors:  Caroline L Relton; George Davey Smith
Journal:  Int J Epidemiol       Date:  2012-02       Impact factor: 7.196

7.  Two-step epigenetic Mendelian randomization: a strategy for establishing the causal role of epigenetic processes in pathways to disease.

Authors:  Caroline L Relton; George Davey Smith
Journal:  Int J Epidemiol       Date:  2012-02       Impact factor: 7.196

8.  Genome-wide survey reveals predisposing diabetes type 2-related DNA methylation variations in human peripheral blood.

Authors:  Gidon Toperoff; Dvir Aran; Jeremy D Kark; Michael Rosenberg; Tatyana Dubnikov; Batel Nissan; Julio Wainstein; Yechiel Friedlander; Ephrat Levy-Lahad; Benjamin Glaser; Asaf Hellman
Journal:  Hum Mol Genet       Date:  2011-10-12       Impact factor: 6.150

9.  Placental DNA methylation alterations associated with maternal tobacco smoking at the RUNX3 gene are also associated with gestational age.

Authors:  Jennifer Z J Maccani; Devin C Koestler; Eugene Andrés Houseman; Carmen J Marsit; Karl T Kelsey
Journal:  Epigenomics       Date:  2013-12       Impact factor: 4.778

Review 10.  Epigenetics and development of food allergy (FA) in early childhood.

Authors:  Xiumei Hong; Xiaobin Wang
Journal:  Curr Allergy Asthma Rep       Date:  2014-09       Impact factor: 4.806
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