MA2C (Model-based Analysis of 2-Color Arrays) is a model-based algorithm for analyzing 2-color microarrays.A novel normalization method based on the GC content of probes is developed for two-color tiling arrays. The proposed method, together with robust estimates of the model parameters, is shown to perform superbly on published data sets. A robust algorithm for detecting peak regions is also formulated and shown to perform well compared to other approaches. The tools have been implemented as a stand-alone Java program called MA2C, which can display various plots of statistical analysis for quality control.
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Song J, Johnson WE, Zhu X, Zhang X, Li W, Manrai AK, Liu JS, Chen R and Liu XS
Modelbased analysis for 2-color arrays (MA2C).
Genome Biology 2007, 8:R178