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Curr Opin Microbiol. 2014 Jun;19:97-105. doi: 10.1016/j.mib.2014.06.010. Epub 2014 Jul 12.

Differential RNA-seq: the approach behind and the biological insight gained.

Author information

1
University of Würzburg, Institute for Molecular Infection Biology & Research Center for Infectious Diseases, Josef-Schneider-Straße 2/D15, D-97080 Würzburg, Germany. Electronic address: cynthia.sharma@uni-wuerzburg.de.
2
University of Würzburg, Institute for Molecular Infection Biology & Research Center for Infectious Diseases, Josef-Schneider-Straße 2/D15, D-97080 Würzburg, Germany. Electronic address: joerg.vogel@uni-wuerzburg.de.

Abstract

RNA-sequencing has revolutionized the quantitative and qualitative analysis of transcriptomes in both prokaryotes and eukaryotes. It provides a generic approach for gene expression profiling, annotation of transcript boundaries and operons, as well as identifying novel transcripts including small noncoding RNA molecules and antisense RNAs. We recently developed a differential RNA-seq (dRNA-seq) method which in addition to the above, yields information as to whether a given RNA is a primary or processed transcript. Originally applied to describe the primary transcriptome of the gastric pathogen Helicobacter pylori, dRNA-seq has since provided global maps of transcriptional start sites in diverse species, informed new biology in the CRISPR-Cas9 system, advanced to a tool for comparative transcriptomics, and inspired simultaneous RNA-seq of pathogen and host.

PMID:
25024085
DOI:
10.1016/j.mib.2014.06.010
[Indexed for MEDLINE]

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