ModuleMiner: A New Tool for Detecting Gene Regulation Modules
Author Information
Author(s): Van Loo Peter, Aerts Stein, Thienpont Bernard, De Moor Bart, Moreau Yves, Marynen Peter
Primary Institution: Department of Molecular and Developmental Genetics, VIB, University of Leuven, Belgium
Hypothesis
Can ModuleMiner effectively detect cis-regulatory modules in co-expressed genes across different tissues?
Conclusion
ModuleMiner successfully identifies cis-regulatory modules in both adult tissues and embryonic development, showing distinct patterns of regulation.
Supporting Evidence
- ModuleMiner outperforms existing methods for detecting cis-regulatory modules.
- CRMs predicted for adult tissues are enriched near transcription start sites.
- CRMs for embryonic development are less frequent near transcription start sites.
Takeaway
ModuleMiner is like a smart detective that finds important parts of DNA that help control how genes work, especially in different types of cells.
Methodology
ModuleMiner uses a genetic algorithm to detect cis-regulatory modules by analyzing co-expressed genes without needing prior knowledge of transcription factors.
Potential Biases
Potential biases may arise from the reliance on existing transcription factor binding site data.
Limitations
The performance of ModuleMiner may vary based on the quality and number of co-expressed genes provided.
Statistical Information
P-Value
p<0.05
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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