Literature DB >> 21056564

The DNA methylome.

Mattia Pelizzola1, Joseph R Ecker.   

Abstract

Methylation of cytosines is a pervasive feature of eukaryotic genomes and an important epigenetic layer that is fundamental for cellular differentiation processes and control of transcriptional potential. DNA methylation patterns can be inherited and influenced by the environment, diet and aging, and disrupted in diseases. Complete DNA methylomes for several organisms are now available, helping clarify the evolutionary story of this epigenetic mark and its distribution in key genomic elements. Nonetheless, a complete understanding of its role, the mechanisms responsible for its establishment and maintenance, and its cross talk with other components of cellular machinery remains elusive.
Copyright © 2010 Federation of European Biochemical Societies. Published by Elsevier B.V. All rights reserved.

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Year:  2010        PMID： 21056564      PMCID： PMC3129437          DOI： 10.1016/j.febslet.2010.10.061

Source DB:  PubMed          Journal:  FEBS Lett        ISSN： 0014-5793            Impact factor:   4.124


  49 in total

1.  Identification of epigenetic DNA modifications with a protein nanopore.

Authors:  Emma V B Wallace; David Stoddart; Andrew J Heron; Ellina Mikhailova; Giovanni Maglia; Timothy J Donohoe; Hagan Bayley
Journal:  Chem Commun (Camb)       Date:  2010-10-06       Impact factor: 6.222

2.  Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage.

Authors:  Lukas Chavez; Justyna Jozefczuk; Christina Grimm; Jörn Dietrich; Bernd Timmermann; Hans Lehrach; Ralf Herwig; James Adjaye
Journal:  Genome Res       Date:  2010-08-27       Impact factor: 9.043

Review 3.  Principles and challenges of genomewide DNA methylation analysis.

Authors:  Peter W Laird
Journal:  Nat Rev Genet       Date:  2010-03       Impact factor: 53.242

Review 4.  Establishing, maintaining and modifying DNA methylation patterns in plants and animals.

Authors:  Julie A Law; Steven E Jacobsen
Journal:  Nat Rev Genet       Date:  2010-03       Impact factor: 53.242

5.  DNA methyltransferases Dnmt3a and Dnmt3b are essential for de novo methylation and mammalian development.

Authors:  M Okano; D W Bell; D A Haber; E Li
Journal:  Cell       Date:  1999-10-29       Impact factor: 41.582

6.  Recombinant human DNA (cytosine-5) methyltransferase. I. Expression, purification, and comparison of de novo and maintenance methylation.

Authors:  S Pradhan; A Bacolla; R D Wells; R J Roberts
Journal:  J Biol Chem       Date:  1999-11-12       Impact factor: 5.157

7.  Allelic skewing of DNA methylation is widespread across the genome.

Authors:  Leonard C Schalkwyk; Emma L Meaburn; Rebecca Smith; Emma L Dempster; Aaron R Jeffries; Matthew N Davies; Robert Plomin; Jonathan Mill
Journal:  Am J Hum Genet       Date:  2010-02-12       Impact factor: 11.025

8.  Examination of the specificity of DNA methylation profiling techniques towards 5-methylcytosine and 5-hydroxymethylcytosine.

Authors:  Seung-Gi Jin; Swati Kadam; Gerd P Pfeifer
Journal:  Nucleic Acids Res       Date:  2010-04-05       Impact factor: 16.971

9.  Direct detection of DNA methylation during single-molecule, real-time sequencing.

Authors:  Benjamin A Flusberg; Dale R Webster; Jessica H Lee; Kevin J Travers; Eric C Olivares; Tyson A Clark; Jonas Korlach; Stephen W Turner
Journal:  Nat Methods       Date:  2010-05-09       Impact factor: 28.547

10.  Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications.

Authors:  R Alan Harris; Ting Wang; Cristian Coarfa; Raman P Nagarajan; Chibo Hong; Sara L Downey; Brett E Johnson; Shaun D Fouse; Allen Delaney; Yongjun Zhao; Adam Olshen; Tracy Ballinger; Xin Zhou; Kevin J Forsberg; Junchen Gu; Lorigail Echipare; Henriette O'Geen; Ryan Lister; Mattia Pelizzola; Yuanxin Xi; Charles B Epstein; Bradley E Bernstein; R David Hawkins; Bing Ren; Wen-Yu Chung; Hongcang Gu; Christoph Bock; Andreas Gnirke; Michael Q Zhang; David Haussler; Joseph R Ecker; Wei Li; Peggy J Farnham; Robert A Waterland; Alexander Meissner; Marco A Marra; Martin Hirst; Aleksandar Milosavljevic; Joseph F Costello
Journal:  Nat Biotechnol       Date:  2010-09-19       Impact factor: 54.908
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  31 in total

1.  New technologies for 21st century plant science.

Authors:  David W Ehrhardt; Wolf B Frommer
Journal:  Plant Cell       Date:  2012-02-24       Impact factor: 11.277

Review 2.  Helper T-cell differentiation and plasticity: insights from epigenetics.

Authors:  Kiyoshi Hirahara; Golnaz Vahedi; Kamran Ghoreschi; Xiang-Ping Yang; Shingo Nakayamada; Yuka Kanno; John J O'Shea; Arian Laurence
Journal:  Immunology       Date:  2011-11       Impact factor: 7.397

3.  Base-resolution analysis of 5-hydroxymethylcytosine in the mammalian genome.

Authors:  Miao Yu; Gary C Hon; Keith E Szulwach; Chun-Xiao Song; Liang Zhang; Audrey Kim; Xuekun Li; Qing Dai; Yin Shen; Beomseok Park; Jung-Hyun Min; Peng Jin; Bing Ren; Chuan He
Journal:  Cell       Date:  2012-05-17       Impact factor: 41.582

Review 4.  In praise of mealybugs.

Authors:  Vani Brahmachari; Surbhi Kohli; Parul Gulati
Journal:  J Genet       Date:  2018-06       Impact factor: 1.166

Review 5.  Epigenetic inheritance: a contributor to species differentiation?

Authors:  Dario Boffelli; David I K Martin
Journal:  DNA Cell Biol       Date:  2012-09-11       Impact factor: 3.311

6.  The diet-induced metabolic syndrome is accompanied by whole-genome epigenetic changes.

Authors:  Irais Sánchez; Rosalia Reynoso-Camacho; Luis M Salgado
Journal:  Genes Nutr       Date:  2015-05-22       Impact factor: 5.523

7.  Cancer driver gene discovery through an integrative genomics approach in a non-parametric Bayesian framework.

Authors:  Hai Yang; Qiang Wei; Xue Zhong; Hushan Yang; Bingshan Li
Journal:  Bioinformatics       Date:  2017-02-15       Impact factor: 6.937

Review 8.  Practicing pathology in the era of big data and personalized medicine.

Authors:  Jiang Gu; Clive R Taylor
Journal:  Appl Immunohistochem Mol Morphol       Date:  2014-01

Review 9.  Cancer genome landscapes.

Authors:  Bert Vogelstein; Nickolas Papadopoulos; Victor E Velculescu; Shibin Zhou; Luis A Diaz; Kenneth W Kinzler
Journal:  Science       Date:  2013-03-29       Impact factor: 47.728

Review 10.  Epigenomics of macrophages.

Authors:  David Gosselin; Christopher K Glass
Journal:  Immunol Rev       Date:  2014-11       Impact factor: 12.988
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