RNA structure determination : methods and protocols /

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Bibliographic Details
Imprint:	New York, NY : Humana Press, 2016.
Description:	1 online resource (xv, 283 pages) : illustrations (some color)
Language:	English
Series:	Methods in molecular biology, 1064-3745 ; 1490 Methods in molecular biology (Clifton, N.J.) ; v. 1490.
Subject:	RNA -- Structure -- Laboratory manuals. RNA -- ultrastructure Protein Structure, Quaternary RNA -- Structure Laboratory Manual Laboratory manuals Laboratory manuals.
Format:	E-Resource Book
URL for this record:	http://pi.lib.uchicago.edu/1001/cat/bib/11267097

Hidden Bibliographic Details
Other authors / contributors:	Turner, Douglas H., editor. Mathews, David H., editor.
ISBN:	9781493964338 149396433X 1493964313 9781493964314 9781493964314
Notes:	Includes bibliographical references and index. Online resource; title from PDF title page (SpringerLink, viewed September 30, 2016).
Summary:	This volume provides protocols and procedures for determining and modeling RNA structure. Chapters guide the reader through protocols for RNA secondary structure prediction, single sequence modeling, Crumple, RNAstructure to model conserved secondary structures with multiple homologs, the prediction of bimolecular secondary structures with RNAstructure, STarMir, protocols for structure mapping, mapping data to constrain or restrain RNA secondary structure prediction with RNAstructure, unassigned NMR resonances, modeling protocols for Rosetta FARFAR, RNAComposer, ModeRNA, and MC-Fold. 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 tips on troubleshooting and avoiding known pitfalls.
Other form:	Print version: RNA structure determination. New York, NY : Humana Press, 2016 9781493964314 1493964313
Standard no.:	10.1007/978-1-4939-6433-8

Table of Contents:

Crumple: An Efficient Tool to Explore thoroughly the RNA Folding Landscape
Secondary Structure Prediction of Single Sequences using RNAstructure
Prediction of Secondary Structures Conserved in Multiple RNA Sequences
Predicting RNA-RNA Interactions Using RNAstructure
A Method to Predict the Structure and Stability of RNA/RNA Complexes
STarMir Tools for Prediction of microRNA Binding Sites
Traditional Chemical Mapping of RNA Structure in vitro and in vivo
High-throughput Nuclease Probing of RNA Structures using FragSeq
Mapping RNA Structure in vitro with SHAPE Chemistry and Next Generation Sequencing (SHAPE-Seq)
Experiment-assisted Secondary Structure Prediction with RNAstructure
RNA Secondary Structure Determination by NMR
Modeling Small Non-canonical RNA Motifs with the Rosetta FARFAR Server
Automated RNA 3D Structure Prediction with RNAComposer
RNA 3D Structure Modeling by Combination of Template-Based Method ModeRNA, Template-Free Folding with SimRNA, and Refinement with QRNAS
Exploring Alternative RNA Structure Sets using MC-FLashfold and db2cm
NMR Methods for Characterization of RNA Secondary Structure
The Quick and the Dead: A Guide to Fast Phasing of Small Ribozyme and Riboswitch Crystal Structures.

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