A comparison on effects of normalisations in the detection of differentially expressed genes.

ABSTRACT:

Background

Various normalisation techniques have been developed in the context of microarray analysis to try to correct expression measurements for experimental bias and random fluctuations. Major techniques include: total intensity normalisation; intensity dependent normalisation; and variance stabilising normalisation. The aim of this paper is to discuss the impact of normalisation techniques for two-channel array technology on the process of identification of differentially expressed genes.

Results

Through three precise simulation plans, we quantify the impact of normalisations: (a) on the sensitivity and specificity of a specified test statistic for the identification of deregulated genes, (b) on the gene ranking induced by the statistic.

Conclusion

Although we fo

SUBMITTER: Chiogna M 

PROVIDER: S-EPMC2680204 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature