This data comes from a previously published protein microrray study of the natural immune response to Plasmodium falciparum [10]. The array consists of 2,320 probes. The specific analysis analyzed the sera of children who did (n=29) and did not (n=12) have a clinical malaria episode in the following malaria season. For illustrative purposes, this dataset is a subset of two data points each from the malaria positive and malaria negative children.
It has been shown that DNA microarray analysis techniques, like Cyber-T, work well on this type of data [13]. The data file is comma-delimited. The data has not been transformed. It is common to use a VSN normalization for this type of data. There is one header row. There is one label column, and then there are 2 columns for the malaria positive children and then 2 columns for the malaria negative children.
This performs a two-sample t-test using the Bayes-regularized variance estimates. The data is normalized using VSN. PPDE analysis and multiple hypothesis testing correction are performed on the p-values.
This is equivalent to a standard t-test using empirical variances. The data is normalized using VSN. PPDE analysis and multiple hypothesis testing correction are performed on the p-values.