RNA structure prediction: from 2D to 3D-Reference-Cited by-同舟云学术

RNA structure prediction: from 2D to 3D

Published:2017-09-15 Issue:3 Volume:1 Page:275-285
ISSN:2397-8554
Container-title:Emerging Topics in Life Sciences
language:en
Short-container-title:

Author:

Thiel Bernhard C.¹,Flamm Christoph¹,Hofacker Ivo L.¹²

Affiliation:

1. Department of Theoretical Chemistry, Faculty of Chemistry, University of Vienna, Vienna, Austria

2. Research Group BCB, Faculty of Computer Science, University of Vienna, Vienna, Austria

Abstract

We summarize different levels of RNA structure prediction, from classical 2D structure to extended secondary structure and motif-based research toward 3D structure prediction of RNA. We outline the importance of classical secondary structure during all those levels of structure prediction.

Publisher

Portland Press Ltd.

Subject

General Agricultural and Biological Sciences,General Biochemistry, Genetics and Molecular Biology

Link

https://portlandpress.com/emergtoplifesci/article-pdf/1/3/275/481477/etls-2016-0027c.pdf

Reference70 articles.

1. Algorithms for loop matchings;Nussinov;SIAM J. Appl. Math.,1978

2. ViennaRNA package 2.0;Lorenz;Algorithms Mol. Biol.,2011

3. NNDB: the nearest neighbor parameter database for predicting stability of nucleic acid secondary structure;Turner;Nucleic Acids Res.,2010

4. Fast folding and comparison of RNA secondary structures;Hofacker;Monatsh. Chem.,1994

5. Complete suboptimal folding of RNA and the stability of secondary structures;Wuchty;Biopolymers,1999

Cited by 14 articles. 订阅此论文施引文献订阅此论文施引文献，注册后可以免费订阅5篇论文的施引文献，订阅后可以查看论文全部施引文献

1. Selective and non-selective evolutionary signatures found in the simplest replicative biological entities;Journal of Evolutionary Biology;2024-06-01

2. Advances in RNA 3D Structure Prediction;Journal of Chemical Information and Modeling;2022-11-30

3. DNA and RNA Structure;Nucleic Acids in Chemistry and Biology;2022-06-24

4. DNA nanomachine for visual detection of structured RNA and double stranded DNA;Chemical Communications;2022

5. Phenotype Bias Determines How Natural RNA Structures Occupy the Morphospace of All Possible Shapes;Molecular Biology and Evolution;2021-09-20