RNA Structure Prediction

Risa Karakida Kawaguchi, Junichi Iwakiri

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English

Springer-Verlag New York Inc.
28 January 2023

Quantum & theoretical chemistry; Molecular biology

Series: Methods in Molecular Biology

This book explores recent progress in RNA secondary, tertiary structure prediction, and its application from an expansive point of view. Because of advancements in experimental protocols and devices, the integration of new types of data as well as new analysis techniques is necessary, and this volume discusses additional topics that are closely related to RNA structure prediction, such as the detection of structure-disrupting mutations, high-throughput structure analysis, and 3D structure design. Written for the highly successful Methods in Molecular Biology series, chapters feature the kind of detailed implementation advice that leads to quality research results. Authoritative and practical, RNA Structure Prediction serves as a valuable guide for both experimental and computational RNA researchers.

Edited by: Risa Karakida Kawaguchi, Junichi Iwakiri
Imprint: Springer-Verlag New York Inc.
Country of Publication: United States
Edition: 2023 ed.
Volume: 2586
Dimensions: Height: 254mm, Width: 178mm,
Weight: 794g
ISBN: 9781071627679
ISBN 10: 1071627678
Series: Methods in Molecular Biology
Pages: 290
Publication Date: 28 January 2023
Audience: Professional and scholarly , Undergraduate
Format: Hardback
Publisher's Status: Active

Rtools: A Web Server for Various Secondary Structural Analyses on Single RNA Sequences.- Linear-Time Algorithms for RNA Structure Prediction.- Genome-Wide RNA Secondary Structure Prediction.- Nucleic Acid Structure Prediction Including Pseudoknots through Direct Enumeration of States: A User's Guide to the LandscapeFold Algorithm.- Metrics for RNA Secondary Structure Comparison.- RNA Secondary Structure Prediction Based on Energy Models.- RNA Secondary Structure Alteration Caused by Single Nucleotide Variants.- Evolutionary Conservation of RNA Secondary Structure.- Network-Based Structural Alignment of RNA Sequences Using TOPAS.- Fast RNA-RNA Interaction Prediction Methods for Interaction Analysis of Transcriptome-Scale Large Datasets.- Web Services for RNA-RNA Interaction Prediction.- ResidualBind: Uncovering Sequence-Structure Preferences of RNA-Binding Proteins with Deep Neural Networks.- RNA Structure Determination by High-Throughput Structural Analysis.- RNA 3D Modeling with FARFAR2, Online.- Automated 3D Design and Evaluation of RNA Nanostructures with RNAMake.- RNA 3D Structure Comparison Using RNA-Puzzles Toolkit.