Motivation: Genome-wide screens for structured ncRNA genes in mammals, urochordates, and nematodes have predicted thousands of putative ncRNA genes and other structured RNA motifs. A prerequisite for their functional annotation is to determine the reading direction with high precision.
Results: While folding energies of an RNA and its reverse complement
are similar, the difference are sufficient at least in conjunction
with substitution patterns to discriminate between structured RNAs
and their complements. We present here a support vector machine
(SVM) that reliably classifies the reading direction of a structured RNA
from a multiple sequence alignment.
Software: RNAstrand is freely available as a stand-alone tool from
http://www.bioinf.uni-leipzig.de/Software and included
in the latest release of RNAz, a part of the Vienna RNA Package, from http://www.bioinf.uni-leipzig.de/RNA.
| Identifer | oai:union.ndltd.org:DRESDEN/oai:qucosa:de:qucosa:32024 |
| Date | 25 October 2018 |
| Creators | Missal, Kristin, Stadler, Peter F. |
| Source Sets | Hochschulschriftenserver (HSSS) der SLUB Dresden |
| Language | English |
| Detected Language | English |
| Type | info:eu-repo/semantics/publishedVersion, doc-type:article, info:eu-repo/semantics/article, doc-type:Text |
| Rights | info:eu-repo/semantics/openAccess |
| Relation | 1748-7188, 6 |
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