Beyond Bioinformatics

Title

Exploratory methods for checking quality of microarray data

Authors

Eun-Kyung Lee & Taesung Park^*

Affiliation

Department of Statistics, Seoul National University, Seoul, Korea

Email

tspark@stats.snu.ac.kr; * Corresponding author

Article Type

Prediction Model

Date

      revised January 12, 2007; accepted February 02, 2007; published online April 10, 2007

Abstract

In microarray experiments many undesirable systematic variations are commonly observed. Often investigators analyzing microarray data need to make subjective decisions about the quality of the experiment, by examining its chip image and a simple scatter plot. Thus, a more rigorous but simple method is desirable to determine the quality of microarray data. We propose two exploratory methods to investigate the quality of microarray experiments with replicated chips. The first method is based on correlations among chips and the second on the actual intensity values for each gene. The proposed methods are illustrated using a real microarray data set. The methods provide an initial estimation for determining the quality of microarray experiments.

Keywords

microarray; quality; checking; exploratory methods

Citation

Lee & Park, Bioinformation 1(10): 423-428 (2007)

Edited by

Susmita Datta

ISSN

0973-2063

Publisher

Biomedical Informatics Publishing Group

Copyright

Publisher

Copyright Transfer Agreement

The authors of published articles in Bioinformation automatically transfer the copyright to the publisher upon formal acceptance. However, the authors reserve right to use the information contained in the article for non commercial purposes.

License

This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.