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BMCBI
2007

rMotifGen: random motif generator for DNA and protein sequences

9 years 5 months ago
rMotifGen: random motif generator for DNA and protein sequences
Background: Detection of short, subtle conserved motif regions within a set of related DNA or amino acid sequences can lead to discoveries about important regulatory domains such as transcription factor and DNA binding sites as well as conserved protein domains. In order to help assess motif detection algorithms on motifs with varying properties and levels of conservation, we have developed a computational tool, rMotifGen, with the sole purpose of generating a number of random DNA or protein sequences containing short sequence motifs. Each motif consensus can be user-defined, randomly generated, or created from a position-specific scoring matrix (PSSM). Insertions and mutations within these motifs are created according to user-defined parameters and substitution matrices. The resulting sequences can be helpful in mutational simulations and in testing the limits of motif detection algorithms. Results: Two implementations of rMotifGen have been created, one providing a graphical user in...
Eric C. Rouchka, C. Timothy Hardin
Added 08 Dec 2010
Updated 08 Dec 2010
Type Journal
Year 2007
Where BMCBI
Authors Eric C. Rouchka, C. Timothy Hardin
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