Bacterial regulatory RNA : methods and protocols /
The discovery of wide-spread RNA-based regulation in bacteria has led to new evaluations of the importance of bacterial regulatory RNA in every aspect of bacterial physiology. In Bacteria Regulatory RNA: Methods and Protocols, expert researchers in the field detail many of the methods which are now...
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| Other Authors: | , |
| Format: | Book |
| Language: | English |
| Published: |
New York, N.Y. :
Humana Press,
2012
Totowa, NJ : Humana Press : Imprint: Humana Press, 2012 |
| Series: | Methods in Molecular Biology, Methods and Protocols,
905 Methods in molecular biology (Clifton, N.J.) ; v. 905 Springer Protocols (Springer-12345) Springer protocols (Series) |
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Table of Contents:
- Bioinformatic discovery of bacterial regulatory RNAs using SIPHT / Jonathan Livny
- How to identify CRISPRs in sequencing data / Christine Drevet and Christine Pourcel
- Strategy for identifying noncoding RNAs using whole-genome tiling arrays / Stephen G. Landt and Eduardo Abeliuk
- Genetic screens to identify bacterial sRNA regulators / Pierre Mandin
- Competition assays using barcoded deletion strains to gain insight into small RNA function / Errett C. Hobbs and Gisela Storz
- Use of semi-quantitative northern blot analysis to determine relative quantities of bacterial CRISPR transcripts / Ksenia Pougach and Konstantin Severinov
- RNA visualization in bacteria by fluorescence in situ hybridization / Jay H. Russell and Kenneth C. Keiler
- RNA structure prediction : an overview of methods / Matthew G. Seetin and David H. Mathews
- Crystallization of RNA-protein complexes : from synthesis and purification of individual components to crystals / Anna Perederina and Andrey S. Krasilnikov
- Analysis of RNA folding and ligand binding by conventional and high-throughput calorimetry / Joshua E. Sokoloski and Philip C. Bevilacqua
- Use of aptamer tagging to identify in vivo protein binding partners of small regulatory RNAs / Colin P. Corcoran, Renate Rieder, Dimitri Podkaminski, Benjamin Hofmann, and Jörg Vogel
- Gel mobility shift assays to detect protein-RNA interactions / Alexander V. Yakhnin, Helen Yakhnin, and Paul Babitzke
- RNase footprinting of protein binding sites on an mRNA target of small RNAs / Yi Peng, Toby J. Soper, and Sarah A. Woodson
- Computational identification of sRNA targets / Brian Tjaden
- Detection of sRNA-mRNA interactions by electrophoretic mobility shift assay / Teppei Morita, Kimika Maki, and Hiroji Aiba
- Activity of small RNAs on the stability of targeted mRNAs in vivo / Guillaume Desnoyers and Eric Massé
- Native gel electrophoresis to study the binding and release of RNA polymerase by 6S RNA / Karen M. Wassarman
- Ribosome purification approaches for studying interactions of regulatory proteins and RNAs with the ribosome / Preeti Mehta, Perry Woo, Krithika Venkataraman, and A. Wali Karzai
- Analysis of aminoacyl- and peptidyl-tRNAs by gel electrophoresis / Brian D. Janssen, Elie J. Diner, and Christopher S. Hayes
- In vitro trans-translation assays / Daisuke Kurita, Akira Muto, and Hyouta Himeno