How to find RNA thermometers

Temperature-driven differential gene expression by RNA thermosensors

(2014) Stefanie Sandra Krajewski et al.   Biochimica et Biophysica Acta-Gene Regulatory Mechanisms

A tricistronic heat shock operon is important for stress tolerance ofPseudomonas putidaand conserved in many environmental bacteria

(2014) Stefanie S. Krajewski et al.   ENVIRONMENTAL MICROBIOLOGY

Simultaneous Folding of Alternative RNA Structures with Mutual Constraints: An Application to Next-Generation Sequencing-based RNA Structure Probing

(2014) Cuncong Zhong et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Landscape and variation of RNA secondary structure across the human transcriptome

(2014) Yue Wan et al.   NATURE

RNAthermsw: Direct Temperature Simulations for Predicting the Location of RNA Thermometers

(2014) Alexander Churkin et al.   PLoS One

Translational control of small heat shock genes in mesophilic and thermophilic cyanobacteria by RNA thermometers

(2014) Annika Cimdins et al.   RNA Biology

Mod-seq: high-throughput sequencing for chemical probing of RNA structure

(2014) J. Talkish et al.   RNA

A Decade of Riboswitches

(2013) Alexander Serganov et al.   CELL

Role for cis-Acting RNA Sequences in the Temperature-Dependent Expression of the Multiadhesive Lig Proteins in Leptospira interrogans

(2013) J. Matsunaga et al.   JOURNAL OF BACTERIOLOGY

Differential control ofSalmonellaheat shock operons by structured mRNAs

(2013) Annika Cimdins et al.   MOLECULAR MICROBIOLOGY

Temperature triggers immune evasion by Neisseria meningitidis

(2013) Edmund Loh et al.   NATURE

In vivo genome-wide profiling of RNA secondary structure reveals novel regulatory features

(2013) Yiliang Ding et al.   NATURE

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

(2013) Silvi Rouskin et al.   NATURE

RNAtips: analysis of temperature-induced changes of RNA secondary structure

(2013) Andrey Chursov et al.   NUCLEIC ACIDS RESEARCH

Transient RNA structure features are evolutionarily conserved and can be computationally predicted

(2013) Jing Yun A. Zhu et al.   NUCLEIC ACIDS RESEARCH

RNA-Mediated Thermoregulation of Iron-Acquisition Genes in Shigella dysenteriae and Pathogenic Escherichia coli

(2013) Andrew B. Kouse et al.   PLoS One

Short ROSE-Like RNA Thermometers Control IbpA Synthesis in Pseudomonas Species

(2013) Stefanie S. Krajewski et al.   PLoS One

SeqFold: Genome-scale reconstruction of RNA secondary structure integrating high-throughput sequencing data

(2012) Z. Ouyang et al.   GENOME RESEARCH

Thermogenetic tools to monitor temperature-dependent gene expression in bacteria

(2012) Birgit Klinkert et al.   JOURNAL OF BIOTECHNOLOGY

Genome-wide Measurement of RNA Folding Energies

(2012) Yue Wan et al.   MOLECULAR CELL

RNA SHAPE analysis in living cells

(2012) Robert C Spitale et al.   Nature Chemical Biology

Bacterial RNA thermometers: molecular zippers and switches

(2012) Jens Kortmann et al.   NATURE REVIEWS MICROBIOLOGY

Regulatory Impact of RNA Secondary Structure across the Arabidopsis Transcriptome

(2012) F. Li et al.   PLANT CELL

Global Analysis of RNA Secondary Structure in Two Metazoans

(2012) Fan Li et al.   Cell Reports

Concerted Actions of a Thermo-labile Regulator and a Unique Intergenic RNA Thermosensor Control Yersinia Virulence

(2012) Katja Böhme et al.   PLoS Pathogens

Understanding the transcriptome through RNA structure

(2011) Yue Wan et al.   NATURE REVIEWS GENETICS

Modulation of the stability of the Salmonella fourU-type RNA thermometer

(2011) Jörg Rinnenthal et al.   NUCLEIC ACIDS RESEARCH

Modeling and automation of sequencing-based characterization of RNA structure

(2011) S. Aviran et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq)

(2011) J. B. Lucks et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

RNA folding in living cells

(2011) Georgeta Zemora et al.   RNA Biology

Advances in RNA structure analysis by chemical probing

(2010) Kevin M Weeks   CURRENT OPINION IN STRUCTURAL BIOLOGY

The cspA mRNA Is a Thermosensor that Modulates Translation of the Cold-Shock Protein CspA

(2010) Anna Maria Giuliodori et al.   MOLECULAR CELL

Genome-wide measurement of RNA secondary structure in yeast

(2010) Michael Kertesz et al.   NATURE

FragSeq: transcriptome-wide RNA structure probing using high-throughput sequencing

(2010) Jason G Underwood et al.   NATURE METHODS

Direct observation of the temperature-induced melting process of the Salmonella fourU RNA thermometer at base-pair resolution

(2010) Jörg Rinnenthal et al.   NUCLEIC ACIDS RESEARCH

Translation on demand by a simple RNA-based thermosensor

(2010) Jens Kortmann et al.   NUCLEIC ACIDS RESEARCH

Genome-Wide Double-Stranded RNA Sequencing Reveals the Functional Significance of Base-Paired RNAs in Arabidopsis

(2010) Qi Zheng et al.   PLoS Genetics

A trans-Acting Riboswitch Controls Expression of the Virulence Regulator PrfA in Listeria monocytogenes

(2009) Edmund Loh et al.   CELL

Architecture and secondary structure of an entire HIV-1 RNA genome

(2009) Joseph M. Watts et al.   NATURE