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

Current opinion in microbiology, 2014-06, Vol.19, p.97-105

2014

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CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

Nature (London), 2011-03, Vol.471 (7340), p.602-607

2011

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An atlas of Hfq-bound transcripts reveals 3′ UTRs as a genomic reservoir of regulatory small RNAs

The EMBO journal, 2012-10, Vol.31 (20), p.4005-4019

2012

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Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, Hfq

PLoS genetics, 2008-08, Vol.4 (8), p.e1000163-e1000163

2008

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Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli

Journal of bacteriology, 2015-01, Vol.197 (1), p.18-28

2015

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Interplay of two small RNAs fine-tunes hierarchical flagella gene expression in Campylobacter jejuni

Nature communications, 2024-06, Vol.15 (1), p.5240-21, Article 5240

2024

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READemption-a tool for the computational analysis of deep-sequencing-based transcriptome data

Bioinformatics, 2014-12, Vol.30 (23), p.3421-3423

2014

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Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation

Proceedings of the National Academy of Sciences - PNAS, 2015-02, Vol.112 (7), p.E766-E775

2015

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High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates

PLoS genetics, 2013-05, Vol.9 (5), p.e1003495-e1003495

2013

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The primary transcriptome of the major human pathogen Helicobacter pylori

Nature (London), 2010-03, Vol.464 (7286), p.250-255

2010

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Identification of regulatory RNAs in Bacillus subtilis

Nucleic acids research, 2010-10, Vol.38 (19), p.6637-6651

2010

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Global regulatory functions of the Staphylococcus aureus endoribonuclease III in gene expression

PLoS genetics, 2012-06, Vol.8 (6), p.e1002782-e1002782

2012

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A Repeat-Associated Small RNA Controls the Major Virulence Factors of Helicobacter pylori

Molecular cell, 2020-10, Vol.80 (2), p.210-226.e7

2020

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A small RNA regulates multiple ABC transporter mRNAs by targeting C/A-rich elements inside and upstream of ribosome-binding sites

Genes & development, 2007-11, Vol.21 (21), p.2804-2817

2007

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Fast mapping of short sequences with mismatches, insertions and deletions using index structures

PLoS computational biology, 2009-09, Vol.5 (9), p.e1000502-e1000502

2009

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The CsrA-FliW network controls polar localization of the dual-function flagellin mRNA in Campylobacter jejuni

Nature communications, 2016-05, Vol.7 (1), p.11667-11667, Article 11667

2016

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experimentally anchored map of transcriptional start sites in the model cyanobacterium Synechocystis sp. PCC6803

Proceedings of the National Academy of Sciences - PNAS, 2011-02, Vol.108 (5), p.2124-2129

2011

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Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA

Proceedings of the National Academy of Sciences - PNAS, 2010-11, Vol.107 (47), p.20435-20440

2010

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Small RNA Binding to 5′ mRNA Coding Region Inhibits Translational Initiation

Molecular cell, 2008-12, Vol.32 (6), p.827-837

2008

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The Primary Transcriptome of Barley Chloroplasts: Numerous Noncoding RNAs and the Dominating Role of the Plastid-Encoded RNA Polymerase

The Plant cell, 2012-01, Vol.24 (1), p.123-136

2012

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Uncovering the small proteome of Methanosarcina mazei using Ribo-seq and peptidomics under different nitrogen conditions

Nature communications, 2024-10, Vol.15 (1), p.8659-21, Article 8659

2024

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Pervasive post‐transcriptional control of genes involved in amino acid metabolism by the Hfq‐dependent GcvB small RNA

Molecular microbiology, 2011-09, Vol.81 (5), p.1144-1165

2011

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The Rsm (Csr) post-transcriptional regulatory pathway coordinately controls multiple CRISPR–Cas immune systems

Nucleic acids research, 2021-09, Vol.49 (16), p.9508-9525

2021

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Deep sequencing analysis of the Methanosarcina mazei Gö1 transcriptome in response to nitrogen availability

Proceedings of the National Academy of Sciences - PNAS, 2009-12, Vol.106 (51), p.21878-21882

2009

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Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis

BMC genomics, 2014-08, Vol.15 (1), p.684-684

2014

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

CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III

An atlas of Hfq-bound transcripts reveals 3′ UTRs as a genomic reservoir of regulatory small RNAs

Deep sequencing analysis of small noncoding RNA and mRNA targets of the global post-transcriptional regulator, Hfq

Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli

Interplay of two small RNAs fine-tunes hierarchical flagella gene expression in Campylobacter jejuni

READemption-a tool for the computational analysis of deep-sequencing-based transcriptome data

Differential RNA-seq of Vibrio cholerae identifies the VqmR small RNA as a regulator of biofilm formation

High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates

The primary transcriptome of the major human pathogen Helicobacter pylori

Identification of regulatory RNAs in Bacillus subtilis

Global regulatory functions of the Staphylococcus aureus endoribonuclease III in gene expression

A Repeat-Associated Small RNA Controls the Major Virulence Factors of Helicobacter pylori

A small RNA regulates multiple ABC transporter mRNAs by targeting C/A-rich elements inside and upstream of ribosome-binding sites

Fast mapping of short sequences with mismatches, insertions and deletions using index structures

The CsrA-FliW network controls polar localization of the dual-function flagellin mRNA in Campylobacter jejuni

experimentally anchored map of transcriptional start sites in the model cyanobacterium Synechocystis sp. PCC6803

Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNA

Small RNA Binding to 5′ mRNA Coding Region Inhibits Translational Initiation

The Primary Transcriptome of Barley Chloroplasts: Numerous Noncoding RNAs and the Dominating Role of the Plastid-Encoded RNA Polymerase

Uncovering the small proteome of Methanosarcina mazei using Ribo-seq and peptidomics under different nitrogen conditions

Pervasive post‐transcriptional control of genes involved in amino acid metabolism by the Hfq‐dependent GcvB small RNA

The Rsm (Csr) post-transcriptional regulatory pathway coordinately controls multiple CRISPR–Cas immune systems

Deep sequencing analysis of the Methanosarcina mazei Gö1 transcriptome in response to nitrogen availability

Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis

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