Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans

Epigenetics: choose your DNA methylation probing tool wisely! Researchers who study human epigenetics need to carefully consider the platform used to measure genome-wide patterns of DNA methylation. A team led by Karin Michels and Andrea Baccarelli from Harvard University in Boston, Massachusetts, U...

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Autores principales:	Juan J. Carmona, William P. Accomando, Alexandra M. Binder, John N. Hutchinson, Lorena Pantano, Benedetta Izzi, Allan C. Just, Xihong Lin, Joel Schwartz, Pantel S. Vokonas, Sami S. Amr, Andrea A. Baccarelli, Karin B. Michels
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Genetics QH426-470
Acceso en línea:	https://doaj.org/article/ca7ef4fedc904b3b8804fb40bf166092
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spelling	oai:doaj.org-article:ca7ef4fedc904b3b8804fb40bf1660922021-12-02T12:34:18ZEmpirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans10.1038/s41525-017-0012-92056-7944https://doaj.org/article/ca7ef4fedc904b3b8804fb40bf1660922017-04-01T00:00:00Zhttps://doi.org/10.1038/s41525-017-0012-9https://doaj.org/toc/2056-7944Epigenetics: choose your DNA methylation probing tool wisely! Researchers who study human epigenetics need to carefully consider the platform used to measure genome-wide patterns of DNA methylation. A team led by Karin Michels and Andrea Baccarelli from Harvard University in Boston, Massachusetts, USA, empirically examined the strengths and weaknesses of two methylation profiling tools: Illumina’s Infinium BeadChip, which uses a microarray system to interrogate hundreds of thousands of methylation sites across the genome at single-nucleotide resolution; and a high-throughput sequencing-based approach known as rapid multiplexed reduced representation bisulfite sequencing, or rmRRBS. The former did a better job at reading methylation in protein-coding and mitochondrial-related genes, while the latter required less input DNA and covered more methylation sites across the genome. The authors conclude that a scientist’s platform preference should depend on the nature of his or her investigation.Juan J. CarmonaWilliam P. AccomandoAlexandra M. BinderJohn N. HutchinsonLorena PantanoBenedetta IzziAllan C. JustXihong LinJoel SchwartzPantel S. VokonasSami S. AmrAndrea A. BaccarelliKarin B. MichelsNature PortfolioarticleMedicineRGeneticsQH426-470ENnpj Genomic Medicine, Vol 2, Iss 1, Pp 1-10 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Genetics QH426-470
spellingShingle	Medicine R Genetics QH426-470 Juan J. Carmona William P. Accomando Alexandra M. Binder John N. Hutchinson Lorena Pantano Benedetta Izzi Allan C. Just Xihong Lin Joel Schwartz Pantel S. Vokonas Sami S. Amr Andrea A. Baccarelli Karin B. Michels Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans
description	Epigenetics: choose your DNA methylation probing tool wisely! Researchers who study human epigenetics need to carefully consider the platform used to measure genome-wide patterns of DNA methylation. A team led by Karin Michels and Andrea Baccarelli from Harvard University in Boston, Massachusetts, USA, empirically examined the strengths and weaknesses of two methylation profiling tools: Illumina’s Infinium BeadChip, which uses a microarray system to interrogate hundreds of thousands of methylation sites across the genome at single-nucleotide resolution; and a high-throughput sequencing-based approach known as rapid multiplexed reduced representation bisulfite sequencing, or rmRRBS. The former did a better job at reading methylation in protein-coding and mitochondrial-related genes, while the latter required less input DNA and covered more methylation sites across the genome. The authors conclude that a scientist’s platform preference should depend on the nature of his or her investigation.
format	article
author	Juan J. Carmona William P. Accomando Alexandra M. Binder John N. Hutchinson Lorena Pantano Benedetta Izzi Allan C. Just Xihong Lin Joel Schwartz Pantel S. Vokonas Sami S. Amr Andrea A. Baccarelli Karin B. Michels
author_facet	Juan J. Carmona William P. Accomando Alexandra M. Binder John N. Hutchinson Lorena Pantano Benedetta Izzi Allan C. Just Xihong Lin Joel Schwartz Pantel S. Vokonas Sami S. Amr Andrea A. Baccarelli Karin B. Michels
author_sort	Juan J. Carmona
title	Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans
title_short	Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans
title_full	Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans
title_fullStr	Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans
title_full_unstemmed	Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans
title_sort	empirical comparison of reduced representation bisulfite sequencing and infinium beadchip reproducibility and coverage of dna methylation in humans
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/ca7ef4fedc904b3b8804fb40bf166092
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Empirical comparison of reduced representation bisulfite sequencing and Infinium BeadChip reproducibility and coverage of DNA methylation in humans

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