Literature DB >> 22870857

Single nucleotide analysis of cytosine methylation by whole-genome shotgun bisulfite sequencing.

Michelle D Johnson1, Michael Mueller, Laurence Game, Timothy J Aitman.   

Abstract

Unlike other methods to assess methylation, whole-genome shotgun bisulfite sequencing is used to generate quantitative genome-wide methylation profiles at single-nucleotide resolution. As described in this unit, this method allows for the quantitative measurement of methylation at each cytosine base by treatment of genomic DNA with sodium bisulfite followed by sequencing and alignment of the reads to a reference genome.

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Year:  2012        PMID： 22870857     DOI： 10.1002/0471142727.mb2123s99

Source DB:  PubMed          Journal:  Curr Protoc Mol Biol        ISSN： 1934-3647


  17 in total

1.  The transcriptomic and epigenetic map of vascular quiescence in the continuous lung endothelium.

Authors:  Christoph Plass; Hellmut G Augustin; Katharina Schlereth; Dieter Weichenhan; Tobias Bauer; Tina Heumann; Evangelia Giannakouri; Daniel Lipka; Samira Jaeger; Matthias Schlesner; Patrick Aloy; Roland Eils
Journal:  Elife       Date:  2018-05-11       Impact factor: 8.140

2.  Global analysis of DNA methylation variation in adipose tissue from twins reveals links to disease-associated variants in distal regulatory elements.

Authors:  Elin Grundberg; Eshwar Meduri; Johanna K Sandling; Asa K Hedman; Sarah Keildson; Alfonso Buil; Stephan Busche; Wei Yuan; James Nisbet; Magdalena Sekowska; Alicja Wilk; Amy Barrett; Kerrin S Small; Bing Ge; Maxime Caron; So-Youn Shin; Mark Lathrop; Emmanouil T Dermitzakis; Mark I McCarthy; Timothy D Spector; Jordana T Bell; Panos Deloukas
Journal:  Am J Hum Genet       Date:  2013-10-31       Impact factor: 11.025

3.  DNA Methylation Variation Is Identified in Monozygotic Twins Discordant for Non-syndromic Cleft Lip and Palate.

Authors:  Juan I Young; Susan Slifer; Jacqueline T Hecht; Susan H Blanton
Journal:  Front Cell Dev Biol       Date:  2021-05-12

4.  Characterization of functional methylomes by next-generation capture sequencing identifies novel disease-associated variants.

Authors:  Fiona Allum; Xiaojian Shao; Frédéric Guénard; Marie-Michelle Simon; Stephan Busche; Maxime Caron; John Lambourne; Julie Lessard; Karolina Tandre; Åsa K Hedman; Tony Kwan; Bing Ge; Lars Rönnblom; Mark I McCarthy; Panos Deloukas; Todd Richmond; Daniel Burgess; Timothy D Spector; André Tchernof; Simon Marceau; Mark Lathrop; Marie-Claude Vohl; Tomi Pastinen; Elin Grundberg
Journal:  Nat Commun       Date:  2015-05-29       Impact factor: 17.694

5.  Epigenome data release: a participant-centered approach to privacy protection.

Authors:  Stephanie O M Dyke; Warren A Cheung; Yann Joly; Ole Ammerpohl; Pavlo Lutsik; Mark A Rothstein; Maxime Caron; Stephan Busche; Guillaume Bourque; Lars Rönnblom; Paul Flicek; Stephan Beck; Martin Hirst; Henk Stunnenberg; Reiner Siebert; Jörn Walter; Tomi Pastinen
Journal:  Genome Biol       Date:  2015-07-17       Impact factor: 13.583

6.  Genetic analysis of the cardiac methylome at single nucleotide resolution in a model of human cardiovascular disease.

Authors:  Michelle D Johnson; Michael Mueller; Martyna Adamowicz-Brice; Melissa J Collins; Pascal Gellert; Klio Maratou; Prashant K Srivastava; Maxime Rotival; Shahena Butt; Laurence Game; Santosh S Atanur; Nicholas Silver; Penny J Norsworthy; Sarah R Langley; Enrico Petretto; Michal Pravenec; Timothy J Aitman
Journal:  PLoS Genet       Date:  2014-12-04       Impact factor: 5.917

Review 7.  DNA Methylation Analysis: Choosing the Right Method.

Authors:  Sergey Kurdyukov; Martyn Bullock
Journal:  Biology (Basel)       Date:  2016-01-06

8.  Population whole-genome bisulfite sequencing across two tissues highlights the environment as the principal source of human methylome variation.

Authors:  Stephan Busche; Xiaojian Shao; Maxime Caron; Tony Kwan; Fiona Allum; Warren A Cheung; Bing Ge; Susan Westfall; Marie-Michelle Simon; Amy Barrett; Jordana T Bell; Mark I McCarthy; Panos Deloukas; Mathieu Blanchette; Guillaume Bourque; Timothy D Spector; Mark Lathrop; Tomi Pastinen; Elin Grundberg
Journal:  Genome Biol       Date:  2015-12-23       Impact factor: 13.583

9.  Epigenome-wide association study reveals decreased average methylation levels years before breast cancer diagnosis.

Authors:  Karin van Veldhoven; Silvia Polidoro; James M Flanagan; Paolo Vineis; Laura Baglietto; Gianluca Severi; Carlotta Sacerdote; Salvatore Panico; Amalia Mattiello; Domenico Palli; Giovanna Masala; Vittorio Krogh; Claudia Agnoli; Rosario Tumino; Graziella Frasca; Kirsty Flower; Ed Curry; Nicholas Orr; Katarzyna Tomczyk; Michael E Jones; Alan Ashworth; Anthony Swerdlow; Marc Chadeau-Hyam; Eiliv Lund; Montserrat Garcia-Closas; Torkjel M Sandanger
Journal:  Clin Epigenetics       Date:  2015-08-04       Impact factor: 6.551

10.  The relationship between DNA methylation, genetic and expression inter-individual variation in untransformed human fibroblasts.

Authors:  James R Wagner; Stephan Busche; Bing Ge; Tony Kwan; Tomi Pastinen; Mathieu Blanchette
Journal:  Genome Biol       Date:  2014-02-20       Impact factor: 13.583
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