Deep-sequencing protocols influence the results obtained in small-RNA sequencing.

Second-generation sequencing is a powerful method for identifying and quantifying small-RNA components of cells. However, little attention has been paid to the effects of the choice of sequencing platform and library preparation protocol on the results obtained. We present a thorough comparison of s...

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Autores principales:	Joern Toedling, Nicolas Servant, Constance Ciaudo, Laurent Farinelli, Olivier Voinnet, Edith Heard, Emmanuel Barillot
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2012
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/1b959c8571564678af790e407e572181
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spelling	oai:doaj.org-article:1b959c8571564678af790e407e5721812021-11-18T07:26:36ZDeep-sequencing protocols influence the results obtained in small-RNA sequencing.1932-620310.1371/journal.pone.0032724https://doaj.org/article/1b959c8571564678af790e407e5721812012-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/22384282/?tool=EBIhttps://doaj.org/toc/1932-6203Second-generation sequencing is a powerful method for identifying and quantifying small-RNA components of cells. However, little attention has been paid to the effects of the choice of sequencing platform and library preparation protocol on the results obtained. We present a thorough comparison of small-RNA sequencing libraries generated from the same embryonic stem cell lines, using different sequencing platforms, which represent the three major second-generation sequencing technologies, and protocols. We have analysed and compared the expression of microRNAs, as well as populations of small RNAs derived from repetitive elements. Despite the fact that different libraries display a good correlation between sequencing platforms, qualitative and quantitative variations in the results were found, depending on the protocol used. Thus, when comparing libraries from different biological samples, it is strongly recommended to use the same sequencing platform and protocol in order to ensure the biological relevance of the comparisons.Joern ToedlingNicolas ServantConstance CiaudoLaurent FarinelliOlivier VoinnetEdith HeardEmmanuel BarillotPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 7, Iss 2, p e32724 (2012)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Joern Toedling Nicolas Servant Constance Ciaudo Laurent Farinelli Olivier Voinnet Edith Heard Emmanuel Barillot Deep-sequencing protocols influence the results obtained in small-RNA sequencing.
description	Second-generation sequencing is a powerful method for identifying and quantifying small-RNA components of cells. However, little attention has been paid to the effects of the choice of sequencing platform and library preparation protocol on the results obtained. We present a thorough comparison of small-RNA sequencing libraries generated from the same embryonic stem cell lines, using different sequencing platforms, which represent the three major second-generation sequencing technologies, and protocols. We have analysed and compared the expression of microRNAs, as well as populations of small RNAs derived from repetitive elements. Despite the fact that different libraries display a good correlation between sequencing platforms, qualitative and quantitative variations in the results were found, depending on the protocol used. Thus, when comparing libraries from different biological samples, it is strongly recommended to use the same sequencing platform and protocol in order to ensure the biological relevance of the comparisons.
format	article
author	Joern Toedling Nicolas Servant Constance Ciaudo Laurent Farinelli Olivier Voinnet Edith Heard Emmanuel Barillot
author_facet	Joern Toedling Nicolas Servant Constance Ciaudo Laurent Farinelli Olivier Voinnet Edith Heard Emmanuel Barillot
author_sort	Joern Toedling
title	Deep-sequencing protocols influence the results obtained in small-RNA sequencing.
title_short	Deep-sequencing protocols influence the results obtained in small-RNA sequencing.
title_full	Deep-sequencing protocols influence the results obtained in small-RNA sequencing.
title_fullStr	Deep-sequencing protocols influence the results obtained in small-RNA sequencing.
title_full_unstemmed	Deep-sequencing protocols influence the results obtained in small-RNA sequencing.
title_sort	deep-sequencing protocols influence the results obtained in small-rna sequencing.
publisher	Public Library of Science (PLoS)
publishDate	2012
url	https://doaj.org/article/1b959c8571564678af790e407e572181
work_keys_str_mv	AT joerntoedling deepsequencingprotocolsinfluencetheresultsobtainedinsmallrnasequencing AT nicolasservant deepsequencingprotocolsinfluencetheresultsobtainedinsmallrnasequencing AT constanceciaudo deepsequencingprotocolsinfluencetheresultsobtainedinsmallrnasequencing AT laurentfarinelli deepsequencingprotocolsinfluencetheresultsobtainedinsmallrnasequencing AT oliviervoinnet deepsequencingprotocolsinfluencetheresultsobtainedinsmallrnasequencing AT edithheard deepsequencingprotocolsinfluencetheresultsobtainedinsmallrnasequencing AT emmanuelbarillot deepsequencingprotocolsinfluencetheresultsobtainedinsmallrnasequencing
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Deep-sequencing protocols influence the results obtained in small-RNA sequencing.

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