MTAP: The Motif Tool Assessment Platform
Author Information
Author(s): Daniel Quest, Kathryn Dempsey, Mohammad Shafiullah, Dhundy Bastola, Hesham Ali
Primary Institution: University of Nebraska at Omaha
Hypothesis
A platform that automates each operation in cis-regulatory motif discovery enables discovery of better methods for cis-regulatory motif prediction.
Conclusion
MTAP presents a new approach to the challenging problem of assessing regulatory motif discovery methods.
Supporting Evidence
- MTAP automates the steps in cis-regulatory motif discovery, which traditionally required many manual steps.
- The platform integrates phylogenetically related regulatory sequences to improve motif discovery.
- MTAP allows for dynamic changes in data collection and algorithm parameters to enhance benchmarking.
Takeaway
This study introduces a tool that helps scientists find the best software for discovering DNA binding sites, making their work easier and more efficient.
Methodology
MTAP automates motif discovery tool pipelines, constructs orthologous upstream sequences, and provides automated benchmarks for various tools.
Limitations
The study does not address the performance of tools that incorporate additional sources of data such as sequences from phylogenetically related species.
Digital Object Identifier (DOI)
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