Bayesian Robust Inference for Differential Gene Expression
Description
Test for differentially expressed genes with microarray
data. This package can be used with both cDNA microarrays or
Affymetrix chip. The packge fits a robust Bayesian hierarchical model
for testing for differential expression. Outliers are modeled
explicitly using a $t$-distribution. The model includes an
exchangeable prior for the variances which allow different variances
for the genes but still shrink extreme empirical variances. Our model
can be used for testing for differentially expressed genes among
multiple samples, and can distinguish between the different possible
patterns of differential expression when there are three or more
samples. Parameter estimation is carried out using a novel version of
Markov Chain Monte Carlo that is appropriate when the model puts mass
on subspaces of the full parameter space.