Finding Transcription Factor Binding Sites in Yeast DNA
Author Information
Author(s): Lu Chung-Chin, Yuan Wei-Hao, Chen Te-Ming
Primary Institution: National Tsing Hua University
Hypothesis
Can a computational method accurately identify transcription factor binding sites from unaligned DNA sequences?
Conclusion
The study presents a new algorithm that effectively extracts transcription factor binding sites from unaligned gene sequences, outperforming existing methods.
Supporting Evidence
- The algorithm outperformed MDscan and Cosmo in identifying transcription factor binding sites.
- The predicted motifs were more consistent with known specificities reported in the literature.
- The method effectively reduced false positives in motif discovery.
Takeaway
The researchers created a computer program to find important spots in DNA where proteins attach, and it works better than older methods.
Methodology
The study used a binomial probability model and dependency graphs to identify binding motifs from ChIP-chip array data.
Limitations
The algorithm may not perform well for long binding sites (more than 12 base pairs).
Statistical Information
P-Value
<0.001
Statistical Significance
p<0.001
Digital Object Identifier (DOI)
Want to read the original?
Access the complete publication on the publisher's website