Nucleosome Occupancy and Transcription Factor Binding Sites
Author Information
Author(s): Daenen Floris, Roy Frans, De Bleser Pieter J
Primary Institution: Bioinformatics Core, VIB, Ghent, Belgium
Hypothesis
Nucleosome occupancy around functional human transcription factor binding sites is lower compared to non-functional sites.
Conclusion
Nucleosome occupancy is significantly lower around true functional human transcription factor binding sites than around non-functional sites.
Supporting Evidence
- Nucleosome occupancy is lower around true functional TFBSs compared to false positives.
- The study used a dataset of 232 experimentally verified TFBSs.
- Statistical analysis showed significant differences in nucleosome occupancy.
Takeaway
This study found that real binding sites for proteins on DNA have fewer nucleosomes around them, making them easier for the proteins to access.
Methodology
The study compared nucleosome occupancy probabilities around verified transcription factor binding sites with those around false positives and random sequences.
Potential Biases
Potential bias in the reference dataset due to the selection of sequences from specific genomic regions.
Limitations
The study relies on the accuracy of the experimental verification of TFBSs and the construction of the false positives dataset.
Statistical Information
P-Value
8.46e-9
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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