Ensemble-based prediction of RNA secondary structures
نویسندگان
چکیده
منابع مشابه
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In this paper, we tackle the problem of the prediction by energy computation of RNA stable secondary structures. We present, under the Hypothesis of Loops Dependent Energy (HLDE), our dynamic programming algorithm to compute the free energies of the stable secondary structures and our traceback algorithm to predict these structures. We compute the free energies of the stable secondary structure...
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Many methods can be used to predict the secondary structure of an RNA molecule. One of the methods is the dynamic programming approach. However, the dynamic programming approach usually takes too much time. Thus, it is not very practical to solve the problem of long sequences with dynamic programming. RAGA (RNA Sequence Alignment by the Genetic Algorithm) is a genetic algorithm to align two sim...
متن کاملTurboKnot: rapid prediction of conserved RNA secondary structures including pseudoknots
MOTIVATION Many RNA molecules function without being translated into proteins, and function depends on structure. Pseudoknots are motifs in RNA secondary structures that are difficult to predict but are also often functionally important. RESULTS TurboKnot is a new algorithm for predicting the secondary structure, including pseudoknotted pairs, conserved across multiple sequences. TurboKnot fi...
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The RNA secondary structure prediction is a classical problem in bioinformatics. The most efficient approach to this problem is based on the idea of a comparative analysis. In this approach the algorithms utilize multiple alignment of the RNA sequences and find common RNA structure. This paper describes a new algorithm for this task. This algorithm does not require predefined multiple alignment...
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ژورنال
عنوان ژورنال: BMC Bioinformatics
سال: 2013
ISSN: 1471-2105
DOI: 10.1186/1471-2105-14-139