Efficiency of Hybrid Normalization of Microarray Gene Expression: A Simulation Study

Microarray experiment´s data contain errors, from various sources. The process of identifying and adjusting of systematic variation in intensities between samples on the same slide is known as normalization. We implemented a Java application with graphical user interface that allows easy evaluation of errors and the role of hybrid normalization methods to remove the systematic errors from the experiment´s data. We calculated true hybridization intensity then applied different additive and multiplicative errors and computed the normalized intensity logged ratio using background subtraction, self-normalization method and dye-flip technique. Results show the efficiency of hybrid normalization method in order to remove error rates from the intensity values.