A scaling normalization method for differential expression analysis of RNA-seq data

The fine detail provided by sequencing-based transcriptome surveys suggests that RNA-seq is likely to become the platform of choice for interrogating steady state RNA. In order to discover biologically important changes in expression, we show that normalization continues to be an essential step in t...

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Detalles Bibliográficos
Autores principales: Robinson, Mark D, Oshlack, Alicia
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2010
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2864565/
https://www.ncbi.nlm.nih.gov/pubmed/20196867
http://dx.doi.org/10.1186/gb-2010-11-3-r25
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author Robinson, Mark D
Oshlack, Alicia
author_facet Robinson, Mark D
Oshlack, Alicia
author_sort Robinson, Mark D
collection PubMed
description The fine detail provided by sequencing-based transcriptome surveys suggests that RNA-seq is likely to become the platform of choice for interrogating steady state RNA. In order to discover biologically important changes in expression, we show that normalization continues to be an essential step in the analysis. We outline a simple and effective method for performing normalization and show dramatically improved results for inferring differential expression in simulated and publicly available data sets.
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spelling pubmed-28645652010-05-05 A scaling normalization method for differential expression analysis of RNA-seq data Robinson, Mark D Oshlack, Alicia Genome Biol Method The fine detail provided by sequencing-based transcriptome surveys suggests that RNA-seq is likely to become the platform of choice for interrogating steady state RNA. In order to discover biologically important changes in expression, we show that normalization continues to be an essential step in the analysis. We outline a simple and effective method for performing normalization and show dramatically improved results for inferring differential expression in simulated and publicly available data sets. BioMed Central 2010 2010-03-02 /pmc/articles/PMC2864565/ /pubmed/20196867 http://dx.doi.org/10.1186/gb-2010-11-3-r25 Text en Copyright ©2010 Robinson and Oshlack; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Method
Robinson, Mark D
Oshlack, Alicia
A scaling normalization method for differential expression analysis of RNA-seq data
title A scaling normalization method for differential expression analysis of RNA-seq data
title_full A scaling normalization method for differential expression analysis of RNA-seq data
title_fullStr A scaling normalization method for differential expression analysis of RNA-seq data
title_full_unstemmed A scaling normalization method for differential expression analysis of RNA-seq data
title_short A scaling normalization method for differential expression analysis of RNA-seq data
title_sort scaling normalization method for differential expression analysis of rna-seq data
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2864565/
https://www.ncbi.nlm.nih.gov/pubmed/20196867
http://dx.doi.org/10.1186/gb-2010-11-3-r25
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