RNA Locally Optimal Secondary Structures
نویسندگان
چکیده
RNA locally optimal secondary structures provide a concise and exhaustive description of all possible secondary structures of a given RNA sequence, and hence a very good representation of the RNA folding space. In this paper, we present an efficient algorithm that computes all locally optimal secondary structures for any folding model that takes into account the stability of helical regions. This algorithm is implemented in a software called regliss that runs on a publicly accessible web server.
منابع مشابه
Combinatorics of locally optimal RNA secondary structures.
It is a classical result of Stein and Waterman that the asymptotic number of RNA secondary structures is 1.104366∙n-3/2∙2.618034n. Motivated by the kinetics of RNA secondary structure formation, we are interested in determining the asymptotic number of secondary structures that are locally optimal, with respect to a particular energy model. In the Nussinov energy model, where each base pair con...
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ورودعنوان ژورنال:
- Journal of computational biology : a journal of computational molecular cell biology
دوره 19 10 شماره
صفحات -
تاریخ انتشار 2012