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Correction of technical bias in clinical microarray data improves concordance with known biological information

Aron C Eklund12 and Zoltan Szallasi12*

Author Affiliations

1 Children's Hospital Informatics Program at the Harvard-MIT Division of Health Sciences and Technology (CHIP@HST), Harvard Medical School, Boston, MA 02115, USA

2 Center for Biological Sequence Analysis, Department of Systems Biology, Technical University of Denmark, DK-2800 Lyngby, Denmark

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Genome Biology 2008, 9:R26  doi:10.1186/gb-2008-9-2-r26

Published: 4 February 2008

Additional files

Additional data file 1:

Eight arbitrarily chosen cancer data sets [8-12] were tested for intensity-dependent correlation bias. For each data set, the expression values were calculated from the raw data using the RMA, MAS5, MBEI, and GCRMA normalization algorithms. Regardless of the normalization algorithm, intensity-dependent correlation bias was present, and PSQN reduced this bias.

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