BayesPI: a new biophysical model for studying protein-DNA interaction

Using Bayesian model regularization with biophysical modeling to study protein-DNA interaction.

To further understand the implementation of hyperparameters re-estimation technique in Bayesian hierarchical model, we added two more prior assumptions over the weight in BayesPI, namely Laplace prior and Cauchy prior, by using the evidence approximation method. In addition, we divided hyperparameter (regularization constants of the model) into multiple distinct classes based on either the structure of the neural networks or the property of the weights. The newly implemented BayesPI was tested on both synthetic and real ChIP-based high-throughput datasets to identify the corresponding protein binding energy matrices
http://www.biomedcentral.com/1471-2105/10/345