May 302011
 

LocalMotif 1.0

:: DESCRIPTION

LocalMotif is a software tool for discovering transcription factor binding motifs in a collection of DNA sequences. LocalMotif is based on a novel scoring function, called spatial confinement score, which can determine the exact interval of localization of a motif. This score is combined with other existing scoring measures including over-representation and relative entropy to determine the overall prominence of the motif. The approach successfully discovers biologically relevant motifs and their intervals of localization in scenarios where the motifs cannot be discovered by general motif finding tools. It is especially useful for discovering multiple co-localized motifs in a set of regulatory sequences, such as those identified by ChIP-Seq.

::DEVELOPER

Dr. Sung Wing Kin, Ken.

:: SCREENSHOTS

Command Line

:: REQUIREMENTS

  • Windows / MacOsX /  Linux

:: DOWNLOAD

LocalMotif

:: MORE INFORMATION

Citation

Narang, V., Mittal, A., Sung, W.K. (2009)
Localized motif discovery in gene regulatory sequences“,
Bioinformatics (2010) 26 (9): 1152-1159.

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