A new program package for model-based microarray analysis

Microarrays aim at measuring the expression degree of thousands of genes in a single experiment. The measured intensities of the probe spots are unfortu-nately affected by parasitic interferences, which in many cases prohibit the direct translation into the target RNA concentrations. The calibration of raw intensity data is therefore a fundamental prerequi-site for the analysis of oligonucleotide microarray data. The field of array normalization tools can be separated into tools that use only the perfect match probes (PMs) of one chip, tools that use PMs and mismatch probes (MMs) of one chip and tools that rely on multichip normalization techniques and ref-erence arrays. The best results are yielded by mul