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mRNA Processing and Metabolism

Methods and Protocols

  • Book
  • © 2004

Overview

Editors:
  1. Daniel R. Schoenberg

    1. Department of Molecular and Cellular Biochemistry, The Ohio State University, Columbus

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Part of the book series: Methods in Molecular Biology (MIMB, volume 257)

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Table of contents (20 protocols)

  1. Front Matter

    Pages i-xv
    Download chapter PDF

  2. Using Chromatin Immunoprecipitation to Map Cotranscriptional mRNA Processing in Saccharomyces cerevisiae

    • Michael-Christopher Keogh, Stephen Buratowski
    Pages 1-16

  3. Identifying PhosphoCTD-Associating Proteins

    • Hemali P. Phatnani, Arno L. Greenleaf
    Pages 17-28

  4. Imaging Alternative Splicing in Living Cells

    • Eric J. Wagner, Andrea Baines, Todd Albrecht, Robert M. Brazas, Mariano A. Garcia-Blanco
    Pages 29-46

  5. Tobramycin Affinity Tag Purification of Spliceosomes

    • Klaus Hartmuth, Hans-Peter Vornlocher, Reinhard Lührmann
    Pages 47-64

  6. Using Single-Strand Conformational Polymorphism Gel Electrophoresis to Analyze Mutually Exclusive Alternative Splicing

    • Alicia M. Celotto, Brenton R. Graveley
    Pages 65-73

  7. Methods for the Analysis of Adenosine-to-Inosine Editing in RNA

    • Zuo Zhang, Gordon G. Carmichael
    Pages 75-83

  8. Assaying Nuclear Messenger RNA Export in Human Cells

    • Bryan R. Cullen
    Pages 85-92

  9. RNA Unwinding Assay for DExD/H-Box RNA Helicases

    • Stephanie S. Tseng-Rogenski, Tien-Hsien Chang
    Pages 93-101

  10. Approaches for Monitoring Nuclear Translation

    • Francisco J. Iborra, Dean A. Jackson, Peter R. Cook
    Pages 103-113

  11. Immunopurification and Analysis of Protein and RNA Components of mRNP in Mammalian Cells

    • Fabrice Lejeune, Lynne E. Maquat
    Pages 115-124

  12. Gene Expression Analysis of Messenger RNP Complexes

    • Luiz O. F. Penalva, Scott A. Tenenbaum, Jack D. Keene
    Pages 125-134

  13. Using the λN Peptide to Tether Proteins to RNAs

    • Julie Baron-Benhamou, Niels H. Gehring, Andreas E. Kulozik, Matthias W. Hentze
    Pages 135-153

  14. An Efficient System for Cap- and Poly(A)-Dependent Translation In Vitro

    • Yuri V. Svitkin, Nahum Sonenberg
    Pages 155-170

  15. A Poly(A) Tail-Responsive In Vitro System for Cap- or IRES-Driven Translation From HeLa Cells

    • Christian Thoma, Antje Ostareck-Lederer, Matthias W. Hentze
    Pages 171-180

  16. Assessing Messenger RNA Decapping in Cellular Extracts

    • Naomi Bergman, Joseph Milone, Elizabeth J. Bates, Mateusz Opyrchal, Vivian Bellofatto, Jeffrey Wilusz
    Pages 181-192

  17. Analysis of RNA Exonucleolytic Activities in Cellular Extracts

    • Devi Mukherjee, David T. Fritz, Walter J. Kilpatrick, Min Gao, Jeffrey Wilusz
    Pages 193-211

  18. Application of Ligation-Mediated Reverse Transcription Polymerase Chain Reaction to the Identification of In Vivo Endonuclease-Generated Messenger RNA Decay Intermediates

    • Mark N. Hanson, Daniel R. Schoenberg
    Pages 213-221

  19. Biochemical Dissection of RNA Silencing in Plants

    • Guiliang Tang, Phillip D. Zamore
    Pages 223-243

  20. RNA Interference of mRNA Processing Factors in Drosophila S2 Cells

    • Alicia M. Celotto, Brenton R. Graveley
    Pages 245-254
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About this book

Cells possess a wealth of posttranscriptional control mechanisms that impact on every conceivable aspect of the life of an mRNA. These processes are intimately intertwined in an almost baroque manner, where promoter context influences the recruitment of splicing factors, where the majority of pre-mRNAs undergo alternative splicing, and where proteins deposited during nuclear processing impact distal cytoplasmic processing, translation, and decay. If there is a unifying theme to mRNA Processing and Metabolism: Methods and Protocols, it is that mRNA processing and metabolism are integrated processes. Many of the techniques used to study mRNA have been described in a previous volume of this series (RNA–Protein Interaction Protocols, Susan Haynes, ed.) and specialized methods journals. In selecting topics for mRNA Processing and Metabolism: Methods and Protocols, I sought input on new and novel techniques and approaches that build on this foundation using technological advances in microscopy, whole genome sequencing, microarrays, mass spectrometry, fluorescent detection methodologies, and RNA interference. I have tried not to bias this book toward any single model organism, and approaches described in the various chapters use yeast, Drosophila, Xenopus, mice, plants, and cultured mammalian cells.

Reviews

"...the shear diversity of current techniques on offer in this book makes it a valuable resource not only for those studying mRNA processing and metabolism but for those interested in RNA or RNA-protein interactions in general." - ChemBioChem

Editors and Affiliations

  • Department of Molecular and Cellular Biochemistry, The Ohio State University, Columbus

    Daniel R. Schoenberg

Bibliographic Information

  • Book Title: mRNA Processing and Metabolism

  • Book Subtitle: Methods and Protocols

  • Editors: Daniel R. Schoenberg

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1385/1592597505

  • Publisher: Humana Totowa, NJ

  • eBook Packages: Springer Protocols

  • Copyright Information: Humana Press 2004

  • Hardcover ISBN: 978-1-58829-225-4Published: 05 February 2004

  • Softcover ISBN: 978-1-61737-434-0Published: 10 November 2010

  • eBook ISBN: 978-1-59259-750-5Published: 05 February 2008

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XVI, 270

  • Topics: Cell Biology

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