Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm. Johansson, O, Alkema, W, Wasserman, W W, & Lagergren, J Bioinformatics, 19 Suppl 1(Suppl 1):i169–i176, 2003.
Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm. [link]Paper  bibtex   
@article{Johansson2003, 
title={Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm.}, 
volume={19 Suppl 1}, url={http://bioinformatics.oxfordjournals.org/cgi/doi/10.1093/bioinformatics/btg1021}, 
number={Suppl 1}, 
journal={Bioinformatics},
author={Johansson, O and Alkema, W and Wasserman, W W and Lagergren, J}, 
year={2003}, 
pages={i169--i176}
}

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