Post-Transcriptional Gene Regulation

ISBN-13: 9781588297839 / Angielski / Twarda / 2007 / 318 str.

Jeffrey Wilusz

Opis

This volume strives to present current technical approaches to most aspects of post-transcriptional control and provide the reader with a useful and versatile laboratory bench resource. With chapters split into sections covering bioinformatics, fundamental aspects of the study of RNA biology, and techniques for specific aspects of RNA biology, the expert authors have filled the book with invaluable tricks of the trade, perfected in their laboratories.

Spis treści

Table of Contents Preface Contributors 1. Bioinformatics Approaches for Studying Untranslated Regions of mRNAs Paramjeet S. Bagga 2. Identification of mRNA Polyadenylation Sites in genomes Using cDNA Sequences, Expressed Sequence Tags and Trace Ju Youn Lee, Ji Yeon Park and Bin Tian 3. Bioinformatic Tools for Studying Post-Transcriptional Gene Regulation: The UAlbany TUTR (Training UTR) Collection and other Informatic Resources Francis Doyle, Christopher Zaleski, Alish D. George, Eric Stenson, Adele Ricciardi and Scott A. Tenenbaum 4. In-Line Probing Analysis of Riboswitches Elizabeth E. Regulski and Ronald R. Breaker 5. Ribotrap: Targeted Purification of RNA-Specific RNPs from Cell Lysates via Immunoaffinity Precipitation to Identify Regulatory Proteins and RNAs Dale L. Beach and Jack D. Keene 6. Advances in RIP-Chip Analysis: RNA-Binding Protein Immunoprecipitation- Microarray (Chip) Profiling Timothy E. Baroni, Sridar V. Chittur, Ajish D. George and Scott A. Tenenbaum 7. Biosensors for RNA Aptamer-Protein Interaction Sara Tombelli, Maria Minunni and Marco Mascini 8. A Tethering Approach to Study Proteins that Activate mRNA Turnover in Human Cells Sandra L. Clement and Jens Lykke-Andersen 9. RNA Analysis by Biosynthetic Tagging (RABT) Using 4-Thiouracil and Uracil Phosphoribosyltransferase Gusti M. Zeiner, Michael D. Cleary, Ashley E. Fotus, Christopher D. Meiring, Edward S. Mocarski and John C. Boothroyd 10. Efficient 5' Cap Dependent RNA Purification: Use in Identifying and Studying Subsets of RNA Edyta Z. Bajak and Curt H. Hagedorn 11. Enrichment of Alternatively Spliced Isoforms (EASI) Julian P. Venables 12. In Vivo Methods to Assess Polyadenylation Efficiency Lisa K. Hague, Tyra Hall-Pogarand Carol S. Lutz 13. Monitoring the Temporal and Spatial Distribution of RNA in Living Yeast Cells Roy M. Long and Carl R. Urbinati 14. Analysis of mRNA Partitioning Between the Cytosol and Endoplasmic Reticulum Compartments of Mammalian Cells Samuel B. Stephens, Rebecca D. Dodd, Rachel S. Lerner, Brook M. Pyhtila and Christopher V. Nicchitta 15. In Vivo and In Vitro Analysis of Poly(A) Length Effects on mRNA Translation Jing Peng, Elizabeth L. Murray and Daniel R. Schoenberg........................... 16. A Ribosomal Density Mapping (RDM) Procedure to Explore Ribosome Positions Along Translating mRNAs Naama Eldad and Yoav Arava 17. Identification of Changes in Gene Expression by Quantitation of mRNA Levels Wendy M. Olivas 18. Application of the InvaderR RNA Assay to the Polarity of Vertebrate mRNA Decay Elizabeth L. Murray and Daniel R. Schoenberg 19. Development of an In Vitro mRNA Decay System in Insect Cells Kevin Sokoloski, John R. Andersen and Jeffrey Wilusz 20. Using Synthetic Precursor and Inhibitor miRNAs to Understand miRNA Function Lance P. Ford and Angie Cheng 21. A Step-By-Step Procedure to Analyze the Efficacy of siRNA Using Real-Time PCR Angie Cheng, Charles L. Johnson and Lance P. Ford

Blurb

In Post-Transcriptional Gene Regulation, renowned authors present current technical approaches to most aspects of post-transcriptional control and provide a useful and versatile laboratory bench resource. With chapters split into sections covering bioinformatics, fundamental aspects of the study of RNA biology, and techniques for specific aspects of RNA biology, the expert authors have filled the book with invaluable tricks of the trade, perfected in their state-of-the-art laboratories.

This new volume from the Methods in Molecular Biology series is convinently divided into three sections. The first section presents a series of bioinformatic approaches to address the use of RNA databases and algorithms to the study of post-transcriptional regulation involving untranslated regions of transcripts. In the second section, a series of methods applicable to fundamental issues in mRNA biology are presented. These include RNA structure/function, mRNP analysis and novel methods for mRNA labeling and isolation. The third section of this volume presents methodologies to study particular aspects of post-transcriptional control. This section includes methods for the study of alternative splicing and 3’ end processing, mRNA localization, mRNA translation, mRNA stability and si/miRNA regulation. Collectively, Post-Transcriptional Gene Regulation provides the reader with a useful and versatile laboratory bench resource that will become an essential reference in the field.