
  This data set consists of 4 experiments using the same RNA preparation on 4
  different slides. The expression levels of ~7000 cellular RNA transcripts were assessed
  in CD4-T-cell lines at time $t=24$ hour after infection with HIV virus
  type 1. The first 4 columns correspond to the first treatment state (hiv
  infected). The second four represent the control state. The experiment
  is a balanced dye swap experiment. Finally, the last two columns
  contain the row and column positions of each gene on the array (slide).


datasets

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.

Raphael Gottardo

bridge

Bayesian Robust Inference for Differential Gene Expression

hiv function

http://expression.microslu.washington.edu/expression/vantwoutjvi2002.html

Source

This data set consists of 4 experiments using the same RNA preparation on 4
  different slides. The expression levels of ~7000 cellular RNA transcripts were assessed
  in CD4-T-cell lines at time $t=24$ hour after infection with HIV virus
  type 1. The first 4 columns correspond to the first treatment state (hiv
  infected). The second four represent the control state. The experiment
  is a balanced dye swap experiment. Finally, the last two columns
  contain the row and column positions of each gene on the array (slide).

hiv: Cellular gene expression upon human immunodeficiency virus type 1 infection of CD4+-T-Cell lines

Description

Usage

Arguments

Source

References