AMD, an automated motif discovery tool using stepwise refinement of gapped consensuses.
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ABSTRACT:
SUBMITTER: Shi J
PROVIDER: S-EPMC3171486 | biostudies-literature | 2011
REPOSITORIES: biostudies-literature
Publications
AMD, an automated motif discovery tool using stepwise refinement of gapped consensuses.
Shi Jiantao J Yang Wentao W Chen Mingjie M Du Yanzhi Y Zhang Ji J Wang Kankan K
PloS one 20110912 9
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. ...[more]
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