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PriorsEditor: a tool for the creation and use of positional priors in motif discovery
- Source :
- Bioinformatics
- Publication Year :
- 2010
-
Abstract
- Summary: Computational methods designed to discover transcription factor binding sites in DNA sequences often have a tendency to make a lot of false predictions. One way to improve accuracy in motif discovery is to rely on positional priors to focus the search to parts of a sequence that are considered more likely to contain functional binding sites. We present here a program called PriorsEditor that can be used to create such positional priors tracks based on a combination of several features, including phylogenetic conservation, nucleosome occupancy, histone modifications, physical properties of the DNA helix and many more. Availability: PriorsEditor is available as a web start application and downloadable archive from http://tare.medisin.ntnu.no/priorseditor (requires Java 1.6). The web site also provides tutorials, screenshots and example protocol scripts. Contact: kjetil.klepper@ntnu.no
- Subjects :
- Statistics and Probability
Java
Amino Acid Motifs
Biology
computer.software_genre
Biochemistry
DNA sequencing
Software
Prior probability
Molecular Biology
computer.programming_language
Information retrieval
Binding Sites
business.industry
Sequence Analysis, DNA
Computer Science Applications
DNA binding site
Computational Mathematics
Applications Note
Computational Theory and Mathematics
Scripting language
Data mining
Motif (music)
business
Sequence motif
computer
Sequence Analysis
Algorithms
Transcription Factors
Subjects
Details
- ISSN :
- 13674811
- Volume :
- 26
- Issue :
- 17
- Database :
- OpenAIRE
- Journal :
- Bioinformatics (Oxford, England)
- Accession number :
- edsair.doi.dedup.....ea9cd46dc5714457a5e2daf0c8ddc19b