1. Predicting RNA Structure: Advances and Limitations
Ivo L. Hofacker and Ronny Lorenz
2. Cis-Acting 5' Hammerhead Optimization for In Vitro Transcription of Highly Structured RNAs
Mélanie Meyer and Benoît Masquida
3. RNA Structural Analysis by Enzymatic Digestion
Elisa Biondi and Donald H. Burke
4. A Mutate-and-Map Protocol for Inferring Base Pairs in Structured RNA
Pablo Cordero, Wipapat Kladwang, Christopher C. VanLang, and Rhiju Das
5. Mapping RNA Structure In Vitro Using Nucleobase-Specific Probes
Nora Sachsenmaier, Stefan Handl, Franka Debeljak, and Christina Waldsich
6. Massively Parallel RNA Chemical Mapping with a Reduced Bias MAP-Seq Protocol
Matthew Seetin, Wipapat Kladwang, John. P. Bida, and Rhiju Das
7. Probing RNA Folding by Hydroxyl Radical Footprinting
Maria Costa and Dario Monachello
8. Monitoring Global Structural Changes and Specific Metal Binding Sites in RNA by In-Line Probing and Tb(III) Cleavage
Pallavi K. Choudhary, Sofia Gallo, and Roland K.O. Sigel
9. Chemical Probing of RNA in Living Cells
Michael Wildauer, Georgeta Zemora, Andreas Liebeg, Verena Heisig, and Christina Waldsich
10. A Chemogenetic Approach to Study the Structural Basis of Protein-Facilitated RNA Folding
Olga Fedorova
11. Applying UV Crosslinking to Study RNA-Protein Interactions in Multicomponent Ribonucleoprotein Complexes
Andrey S. Krasilnikov
12. The Kinetics of Ribozyme Cleavage: A Tool to Analyze RNA Folding as a Function of Catalysis
Nora Zingler
13. RNA Catalytic Activity as a Probe of Chaperone-Mediated RNA Folding
Brant Gracia and Rick Russell
14. Evaluation of RNA Chaperone Activity In Vivo and In Vitro Using Misfolded Group I Ribozymes
Katharina Semrad
15. RNA Conformational Changes Analyzed by Comparative Gel Electrophoresis
Sébastien H. Eschbach and Daniel A. Lafontaine
16. Detecting RNA Tertiary Folding by Sedimentation Velocity Analytical Ultracentrifugation
Somdeb Mitra
17. RNA Folding Dynamics Using Laser Assisted Single-Molecule Refolding
Bishnu Paudel and David Rueda
18. RNA Refolding Studied by Light-Coupled NMR Spectroscopy
Harald Schwalbe and Boris Fürtig
19. Exploring RNA Oligomerization and Ligand Binding by Fluorescence Correlation Spectroscopy and Small Angle X-Ray Scattering
Eileen Magbanua, Petr V. Konarev, Dmitri I. Svergun, and Ulrich Hahn
