RNA Detection and Visualization

Methods and Protocols

  • Jeffrey E. Gerst

Part of the Methods in Molecular Biology book series (MIMB, volume 714)

Table of contents

  1. Front Matter
    Pages i-xiv
  2. Visualizing mRNAs In Situ

    1. Front Matter
      Pages 1-1
    2. Mona Batish, Arjun Raj, Sanjay Tyagi
      Pages 3-13
    3. James Uniacke, Daniel Colón-Ramos, William Zerges
      Pages 15-29
    4. James A. Gagnon, Kimberly L. Mowry
      Pages 71-82
    5. Yossy Machluf, Gil Levkowitz
      Pages 83-102
    6. José Roberto Sotelo-Silveira, Aldo Calliari, Alejandra Kun, Victoria Elizondo, Lucía Canclini, José Roberto Sotelo
      Pages 125-138
  3. Visualizing mRNAs In Vivo Using Molecular Probes or Reconstituted Fluorescent Proteins

    1. Front Matter
      Pages 139-139
    2. Diana P. Bratu, Irina E. Catrina, Salvatore A. E. Marras
      Pages 141-157
    3. Antony K. Chen, Won Jong Rhee, Gang Bao, Andrew Tsourkas
      Pages 159-174
    4. Azra Borogovac, Natalia E. Broude
      Pages 189-199
  4. Visualizing mRNAs In Vivo Using Aptamers and Intact Fluorescent Proteins

    1. Front Matter
      Pages 201-201
    2. Franck Gallardo, Pascal Chartrand
      Pages 203-219
    3. Sunglan Chung, Peter A. Takizawa
      Pages 221-235
    4. Sharon Yunger, Yaron Shav-Tal
      Pages 249-263
  5. Use of Cell Fractionation to Demonstrate the Sub-Cellular Localization of RNA

    1. Front Matter
      Pages 285-285
    2. Erez Eliyahu, Daniel Melamed, Yoav Arava
      Pages 287-299
    3. Sujatha Jagannathan, Christine Nwosu, Christopher V. Nicchitta
      Pages 301-321
    4. Dianna E. Willis, Jeffery L. Twiss
      Pages 335-352
  6. Affinity Purification of mRNAs and the Identification of Trans-Acting Factors

    1. Front Matter
      Pages 367-367
    2. Sabarinath Jayaseelan, Francis Doyle, Salvatore Currenti, Scott A. Tenenbaum
      Pages 407-422
    3. Scott C. Walker, Paul D. Good, Theresa A. Gipson, David R. Engelke
      Pages 423-444
  7. Use of Bioinformatics to Identify Cis-Acting Motifs and Structures in RNAs

    1. Front Matter
      Pages 445-445
    2. Russell S. Hamilton, Ilan Davis
      Pages 447-466
  8. Back Matter
    Pages 481-497

About this book


With its complex and extensively regulated metabolism, the study of the RNA lifecycle demands tools that allow for the localization of RNAs to be observed either in an in situ setting or, preferably, under in vivo conditions.  In RNA Detection and Visualization: Methods and Protocols, the best and brightest investigators provide an up-to-date and in-depth description of basic methods and protocols used for detecting and visualizing mRNAs in both fixed and live cells, from bacteria to mammals.  For novices and experts alike, this mix of classic in situ hybridization and advanced live imaging techniques, cell fractionation and affinity purification procedures, and bioinformatics tools gives researchers the most complete and extensive array of research aids possible. As a volume written in the highly successful Methods in Molecular Biology™ series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and expert tips on troubleshooting and avoiding known pitfalls.


Authoritative and cutting-edge, RNA Detection and Visualization: Methods and Protocols offers well-honed techniques in order to inspire researchers around the world to further our knowledge of the vital biological significance of RNA.


Advanced live imaging Affinity purification Bioinformatic tools Cell fractionation In situ hybridization Sub-cellular localization Visualizing mRNAs

Editors and affiliations

  • Jeffrey E. Gerst
    • 1
  1. 1., Department of Molecular GeneticsWeizmann Institute of ScienceRehovotIsrael

Bibliographic information

  • DOI
  • Copyright Information Springer Science+Business Media, LLC 2011
  • Publisher Name Humana Press, Totowa, NJ
  • eBook Packages Springer Protocols
  • Print ISBN 978-1-61779-004-1
  • Online ISBN 978-1-61779-005-8
  • Series Print ISSN 1064-3745
  • Series Online ISSN 1940-6029
  • Buy this book on publisher's site