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- Title
KnotInFrame: prediction of -1 ribosomal frameshift events.
- Authors
Theis, Corinna; Reeder, Jens; Giegerich, Robert
- Abstract
Programmed -1 ribosomal frameshift (-1 PRF) allows for alternative reading frames within one mRNA. First found in several viruses, it is now believed to exist in all kingdoms of life. Strong stimulators for -1 PRF are a heptameric slippery site and an RNA pseudoknot. Here, we present a new algorithm KnotInFrame, for the automatic detection of -1 PRF signals from genomic sequences. It finds the frameshifting stimulators by means of a specialized RNA-pseudoknot folding program, fast enough for genome-wide analyses. Evaluations on known -1 PRF signals demonstrate a high sensitivity.
- Publication
Nucleic acids research, 2008, Vol 36, Issue 18, p6013
- ISSN
1362-4962
- Publication type
Journal Article
- DOI
10.1093/nar/gkn578