AMD, an Automated Motif Discovery Tool Using Stepwise Refinement of Gapped Consensuses

Jiantao Shi, Wentao Yang, Mingjie Chen, Yanzhi Du, Ji Zhang and Kankan Wang

PLOS ONE, 2011, vol. 6, issue 9, 1-10

Abstract: Motif discovery is essential for deciphering regulatory codes from high throughput genomic data, such as those from ChIP-chip/seq experiments. However, there remains a lack of effective and efficient methods for the identification of long and gapped motifs in many relevant tools reported to date. We describe here an automated tool that allows for de novo discovery of transcription factor binding sites, regardless of whether the motifs are long or short, gapped or contiguous.

Date: 2011
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Persistent link: https://EconPapers.repec.org/RePEc:plo:pone00:0024576

DOI: 10.1371/journal.pone.0024576

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