Deep sequencing reveals as-yet-undiscovered small RNAs in Escherichia coli

Studying bacterial transcriptomes using RNA-seq

(2010) Nicholas J Croucher et al.   CURRENT OPINION IN MICROBIOLOGY

The primary transcriptome of the major human pathogen Helicobacter pylori

(2010) Cynthia M. Sharma et al.   NATURE

RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units)

(2010) S. Gama-Castro et al.   NUCLEIC ACIDS RESEARCH

Widespread Antisense Transcription in Escherichia coli

(2010) J. E. Dornenburg et al.   mBio

Regulatory RNAs in Bacteria

(2009) Lauren S. Waters et al.   CELL

RNA-seq: from technology to biology

(2009) Samuel Marguerat et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

A broadening world of bacterial small RNAs

(2009) Jane M Liu et al.   CURRENT OPINION IN MICROBIOLOGY

Next generation sequencing of microbial transcriptomes: challenges and opportunities

(2009) Arnoud H.M. van Vliet   FEMS MICROBIOLOGY LETTERS

Small Stress Response Proteins in Escherichia coli: Proteins Missed by Classical Proteomic Studies

(2009) M. R. Hemm et al.   JOURNAL OF BACTERIOLOGY

Structure and Complexity of a Bacterial Transcriptome

(2009) K. D. Passalacqua et al.   JOURNAL OF BACTERIOLOGY

The transcription unit architecture of the Escherichia coli genome

(2009) Byung-Kwan Cho et al.   NATURE BIOTECHNOLOGY

Coding sequence targeting by MicC RNA reveals bacterial mRNA silencing downstream of translational initiation

(2009) Verena Pfeiffer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Experimental discovery of sRNAs in Vibrio cholerae by direct cloning, 5S/tRNA depletion and parallel sequencing

(2009) Jane M. Liu et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Identification of Transcription Start Sites, Promoters and Transcription Factor Binding Sites in E. coli

(2009) Alfredo Mendoza-Vargas et al.   PLoS One

Mapping the Burkholderia cenocepacia niche response via high-throughput sequencing

(2009) D. R. Yoder-Himes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Strand-Specific RNA–Seq Analysis of the Transcriptome of the Typhoid Bacillus Salmonella Typhi

(2009) Timothy T. Perkins et al.   PLoS Genetics

SOAP: short oligonucleotide alignment program

(2008) R. Li et al.   BIOINFORMATICS

Small membrane proteins found by comparative genomics and ribosome binding site models

(2008) Matthew R. Hemm et al.   MOLECULAR MICROBIOLOGY

Repression of small toxic protein synthesis by the Sib and OhsC small RNAs

(2008) Elizabeth M. Fozo et al.   MOLECULAR MICROBIOLOGY

sRNAMap: genomic maps for small non-coding RNAs, their regulators and their targets in microbial genomes

(2008) Hsi-Yuan Huang et al.   NUCLEIC ACIDS RESEARCH

Deep Sequencing Analysis of Small Noncoding RNA and mRNA Targets of the Global Post-Transcriptional Regulator, Hfq

(2008) Alexandra Sittka et al.   PLoS Genetics