MTAP: The Motif Tool Assessment Platform

9 years 2 months ago
MTAP: The Motif Tool Assessment Platform
Background: In recent years, substantial effort has been applied to de novo regulatory motif discovery. At this time, more than 150 software tools exist to detect regulatory binding sites given a set of genomic sequences. As the number of software packages increases, it becomes more important to identify the tools with the best performance characteristics for specific problem domains. Identifying the correct tool is difficult because of the great variability in motif detection software. Consequently, many labs spend considerable effort testing methods to find one that works well in their problem of interest. Results: In this work, we propose a method (MTAP) that substantially reduces the effort required to assess de novo regulatory motif discovery software. MTAP differs from previous attempts at regulatory motif assessment in that it automates motif discovery tool pipelines (something that traditionally required many manual steps), automatically constructs orthologous upstream sequenc...
Daniel Quest, Kathryn Dempsey, Mohammad Shafiullah
Added 09 Dec 2010
Updated 09 Dec 2010
Type Journal
Year 2008
Authors Daniel Quest, Kathryn Dempsey, Mohammad Shafiullah, Dhundy Bastola, Hesham H. Ali
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