Back to Search
Start Over
Prediction of tissue-specific cis-regulatory modules using Bayesian networks and regression trees.
- Source :
-
BMC bioinformatics [BMC Bioinformatics] 2007; Vol. 8 Suppl 10, pp. S2. - Publication Year :
- 2007
-
Abstract
- Background: In vertebrates, a large part of gene transcriptional regulation is operated by cis-regulatory modules. These modules are believed to be regulating much of the tissue-specificity of gene expression.<br />Result: We develop a Bayesian network approach for identifying cis-regulatory modules likely to regulate tissue-specific expression. The network integrates predicted transcription factor binding site information, transcription factor expression data, and target gene expression data. At its core is a regression tree modeling the effect of combinations of transcription factors bound to a module. A new unsupervised EM-like algorithm is developed to learn the parameters of the network, including the regression tree structure.<br />Conclusion: Our approach is shown to accurately identify known human liver and erythroid-specific modules. When applied to the prediction of tissue-specific modules in 10 different tissues, the network predicts a number of important transcription factor combinations whose concerted binding is associated to specific expression.
Details
- Language :
- English
- ISSN :
- 1471-2105
- Volume :
- 8 Suppl 10
- Database :
- MEDLINE
- Journal :
- BMC bioinformatics
- Publication Type :
- Academic Journal
- Accession number :
- 18269696
- Full Text :
- https://doi.org/10.1186/1471-2105-8-S10-S2