Memory-efficient RNA energy landscape exploration.
Ontology highlight
ABSTRACT:
SUBMITTER: Mann M
PROVIDER: S-EPMC4155248 | biostudies-literature | 2014 Sep
REPOSITORIES: biostudies-literature
Publications
Memory-efficient RNA energy landscape exploration.
Mann Martin M Kucharík Marcel M Flamm Christoph C Wolfinger Michael T MT
Bioinformatics (Oxford, England) 20140514 18
<h4>Motivation</h4>Energy landscapes provide a valuable means for studying the folding dynamics of short RNA molecules in detail by modeling all possible structures and their transitions. Higher abstraction levels based on a macro-state decomposition of the landscape enable the study of larger systems; however, they are still restricted by huge memory requirements of exact approaches.<h4>Results</h4>We present a highly parallelizable local enumeration scheme that enables the computation of exact ...[more]
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