On the Effectiveness of Rebuilding RNA Secondary Structures from Sequence Chunks
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@MISC{Taufer_onthe,
author = {Michela Taufer and Thamar Solorio and Abel Licon and David Mireles and Ming-ying Leung},
title = {On the Effectiveness of Rebuilding RNA Secondary Structures from Sequence Chunks},
year = {}
}
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Abstract
Despite the computing power of emerging technologies, predicting long RNA secondary structures with thermodynamics-based methods is still infeasible, especially if the structures include complex motifs such as pseudoknots. This paper presents preliminary results on rebuilding RNA secondary structures by an extensive and systematic sampling of nucleotide chunks. The rebuilding approach merges the significant motifs found in the secondary structures of the single chunks. The extensive sampling and prediction of nucleotide chunks are supported by grid technology as part of the RNAVLab functionality. Significant motifs are identified in the chunk secondary structures and merged in a single structure based on their recurrences and other statistical insights. A critical analysis of the strengths,
Keyphrases
rna secondary structure sequence chunk nucleotide chunk significant motif statistical insight single structure extensive sampling preliminary result long rna secondary structure grid technology complex motif secondary structure single chunk critical analysis chunk secondary structure systematic sampling thermodynamics-based method rnavlab functionality
