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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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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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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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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

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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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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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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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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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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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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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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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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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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variable homopolymeric G-repeat defines small RNA-mediated posttranscriptional regulation of a chemotaxis receptor in Helicobacter pylori

Proceedings of the National Academy of Sciences - PNAS, 2014-01, Vol.111 (4), p.E501-E510

2014

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The small non-coding RNA RsaE influences extracellular matrix composition in Staphylococcus epidermidis biofilm communities

PLoS pathogens, 2019-03, Vol.15 (3), p.e1007618-e1007618

2019

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A three-dimensional intestinal tissue model reveals factors and small regulatory RNAs important for colonization with Campylobacter jejuni

PLoS pathogens, 2020-02, Vol.16 (2), p.e1008304-e1008304

2020

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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

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

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

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

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

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

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

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

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

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

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

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

Primary transcriptome map of the hyperthermophilic archaeon Thermococcus kodakarensis

variable homopolymeric G-repeat defines small RNA-mediated posttranscriptional regulation of a chemotaxis receptor in Helicobacter pylori

The small non-coding RNA RsaE influences extracellular matrix composition in Staphylococcus epidermidis biofilm communities

A three-dimensional intestinal tissue model reveals factors and small regulatory RNAs important for colonization with Campylobacter jejuni

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