期刊
JOURNAL OF BIOTECHNOLOGY
卷 261, 期 -, 页码 97-104出版社
ELSEVIER
DOI: 10.1016/j.jbiotec.2017.07.007
关键词
RNA secondary structure; RNA constraint folding; RNA interactions; RNA secondary structure comparison; RNA analysis
资金
- BMBF [FKZ 031A538A+B]
In the realm of nucleic acid structures, secondary structure forms a conceptually important intermediate level of description and explains the dominating part of the free energy of structure formation. Secondary structures are well conserved over evolutionary time-scales and for many classes of RNAs evolve slower than the underlying primary sequences. Given the close link between structure and function, secondary structure is routinely used as a basis to explain experimental findings. Recent technological advances, finally, have made it possible to assay secondary structure directly using high throughput methods. From a computational biology point of view, secondary structures have a special role because they can be computed efficiently using exact dynamic programming algorithms. In this contribution we provide a short overview of RNA folding algorithms, recent additions and variations and address methods to align, compare, and cluster RNA structures, followed by a tabular summary of the most important software suites in the fields.
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