title: Differential RNA-seq: the approach behind and the biological insight gained.
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.
authors.affiliation: 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.
authors.forename: Cynthia M
authors.initials: CM
authors.lastname: Sharma
authors.affiliation: 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.
authors.forename: Jörg
authors.initials: J
authors.lastname: Vogel
mesh_terms: D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D009876:Operon / Q000235:genetics; D012313:RNA; D017423:Sequence Analysis, RNA / Q000379:methods*
chemical_list: D012313:RNA