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The normalization method for cDNA microarray data

Published online by Cambridge University Press:  20 March 2007

Zhang Ji-Gang ,
Zhang Qin  and
Yin Zong-Jun
Zhang Ji-Gang
Affiliation:
China Agricultural University, College of Animal Science and Technology, Beijing 100094, China
Zhang Qin*
Affiliation:
China Agricultural University, College of Animal Science and Technology, Beijing 100094, China
Yin Zong-Jun
Affiliation:
China Agricultural University, College of Animal Science and Technology, Beijing 100094, China
*
*Corresponding author. E-mail: qzhang@cau.edu.cn
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Abstract

The widely used processing method for cDNA microarray data involves background correction, log-ratio transformation and data normalization before the statistical testing can be done. Here we propose a method that avoids the log-transformation step in view of its drawbacks, but goes directly to normalization after background correction. This method could better estimate the ‘noise’ effect by utilizing the information more effectively. Simulation studies were carried out to compare the feasibility and efficiency of this approach for eliminating experimental ‘noise’ with the log-ratio approach. Results showed that our approach worked well and the method was more robust and powerful than the log-ratio approach.

Keywords

cDNA microarraylog-rationon-transformationnormalization
Type
Research Article
Information
Chinese Journal of Agricultural Biotechnology , Volume 3 , Issue 3 , December 2006 , pp. 195 - 199
Copyright
China Agricultural University and Cambridge University Press 2006

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