Standardization of cDNA microarray technology for toxicogenomics; essential data for initiating cDNA microarray studies

Standardization of cDNA microarray technology for toxicogenomics; essential data for initiating cDNA microarray studies

In recent years, the DNA microarray has become one of the most powerful tools for toxicogenomic studies. However, microarray technology is still in its early stages, and standardized analytical methods of cDNA microarray analysis have not been clearly established. These differences in methodology can result in data variability in gene expression profiling. Although many analytical methods have ...

cDNA Microarray Data Normalization

Normalization of cDNA microarray data.

Normalization means to adjust microarray data for effects which arise from variation in the technology rather than from biological differences between the RNA samples or between the printed probes. This paper describes normalization methods based on the fact that dye balance typically varies with spot intensity and with spatial position on the array. Print-tip loess normalization provides a wel...

New Normalization Methods for CDNA Microarray Data

MOTIVATION The focus of this paper is on two new normalization methods for cDNA microarrays. After the image analysis has been performed on a microarray and before differentially expressed genes can be detected, some form of normalization must be applied to the microarrays. Normalization removes biases towards one or other of the fluorescent dyes used to label each mRNA sample allowing for prop...

Bioinformatic Strategies for cDNA-Microarray Data Processing

Pre-processing plays a vital role in cDNA-microarray data analysis. Without proper preprocessing it is likely that the biological conclusions will be misleading. However, there are many alternatives and in order to choose a proper pre-processing procedure it is necessary to understand the effect of different methods. This chapter discusses several pre-processing steps, including image analysis,...