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Public Library of Science, PLoS Computational Biology, 8(11), p. e1004393, 2015

DOI: 10.1371/journal.pcbi.1004393

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Informatics for RNA Sequencing: A Web Resource for Analysis on the Cloud

Journal article published in 2015 by Malachi Griffith, Jason R. Walker, Nicholas C. Spies, Benjamin J. Ainscough ORCID, Obi L. Griffith ORCID, Francis Ouellette
This paper is made freely available by the publisher.
This paper is made freely available by the publisher.

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Abstract

Massively parallel RNA sequencing (RNA-seq) has rapidly become the assay of choice for interrogating RNA transcript abundance and diversity. This article provides a detailed introduction to fundamental RNA-seq molecular biology and informatics concepts. We make available open-access RNA-seq tutorials that cover cloud computing, tool installation, relevant file formats, reference genomes, transcriptome annotations, quality-control strategies, expression, differential expression, and alternative splicing analysis methods. These tutorials and additional training resources are accompanied by complete analysis pipelines and test datasets made available without encumbrance at www.rnaseq.wiki.