Literature DB >> 27911493

RNA Secondary Structure Prediction.

David H Mathews1, Douglas H Turner1, Richard M Watson1.   

Abstract

In this unit, protocols are provided for predicting RNA secondary structure with the user-friendly RNAstructure desktop computer program and the RNAstructure Web server. The minimum free energy structure and a set of suboptimal structures with similar free energies are predicted. Prediction of high-affinity oligonucleotide binding sites to a structured RNA target is also presented. © 2016 by John Wiley & Sons, Inc.
Copyright © 2016 John Wiley & Sons, Inc.

Entities:  

Keywords:  RNA folding; RNA secondary structure prediction; binding affinity; free energy minimization; partition function; thermodynamics

Mesh：

Substances：

Year:  2016        PMID： 27911493     DOI： 10.1002/cpnc.19

Source DB:  PubMed          Journal:  Curr Protoc Nucleic Acid Chem        ISSN： 1934-9270


  11 in total

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2.  Evaluation of global HIV/SIV envelope gp120 RNA structure and evolution within and among infected hosts.

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4.  Light-Dependent Translation Change of Arabidopsis psbA Correlates with RNA Structure Alterations at the Translation Initiation Region.

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Review 5.  Advances in the Bioinformatics Knowledge of mRNA Polyadenylation in Baculovirus Genes.

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6.  Assembly of infectious enteroviruses depends on multiple, conserved genomic RNA-coat protein contacts.

Authors:  Rebecca Chandler-Bostock; Carlos P Mata; Richard J Bingham; Eric C Dykeman; Bo Meng; Tobias J Tuthill; David J Rowlands; Neil A Ranson; Reidun Twarock; Peter G Stockley
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7.  Translation inhibitory elements from Hoxa3 and Hoxa11 mRNAs use uORFs for translation inhibition.

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Authors:  Neil T Sullivan; Will Dampier; Cheng-Han Chung; Alexander G Allen; Andrew Atkins; Vanessa Pirrone; Greg Homan; Shendra Passic; Jean Williams; Wen Zhong; Katherine Kercher; Mathew Desimone; Luna Li; Gregory C Antell; Joshua Chang Mell; Garth D Ehrlich; Zsofia Szep; Jeffrey M Jacobson; Michael R Nonnemacher; Brian Wigdahl
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Review 9.  Challenges with Simulating Modified RNA: Insights into Role and Reciprocity of Experimental and Computational Approaches.

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10.  Mapping the Conformational Landscape of the Neutral Network of RNA Sequences That Connect Two Functional Distinctly Different Ribozymes.

Authors:  Bozana Knezic; Sara Keyhani-Goldau; Harald Schwalbe
Journal:  Chembiochem       Date:  2022-02-15       Impact factor: 3.461
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