Analysis of Core Promoter Elements in Human and Mouse
Author Information
Author(s): Jin Victor X, Singer Gregory AC, Agosto-Pérez Francisco J, Liyanarachchi Sandya, Davuluri Ramana V
Primary Institution: The Ohio State University
Hypothesis
Can DNA sequence conservation improve the identification of functional core promoter elements in the human genome?
Conclusion
The study shows that DNA sequence conservation significantly enhances the identification of functional core promoter elements.
Supporting Evidence
- DNA sequence conservation can improve the identification of functional core promoter elements.
- Two novel synergistic relationships were identified: TATA-Inr-MTE and BRE-Inr-MTE.
- Only 3.1% of promoters had no identifiable known core promoter elements.
Takeaway
This study looked at how similar DNA sequences in humans and mice can help scientists find important parts of genes that control when they turn on or off.
Methodology
The study analyzed 9,010 orthologous mouse-human promoter pairs using positional weight matrices and conservation data.
Potential Biases
Potential bias due to the dinucleotide frequencies in the negative dataset.
Limitations
The high false discovery rate in identifying core promoter elements may affect the results.
Statistical Information
P-Value
4.1 × 10-6
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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