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

doi:10.1186/gb-2008-9-2-r26

Genome Biology

Volume 9
Issue 2

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

Aron C Eklund¹^,2 and Zoltan Szallasi¹^,2

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

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

author email corresponding author email

Genome Biology 2008, 9:R26doi:10.1186/gb-2008-9-2-r26


Published:	4 February 2008

Subject areas: Bioinformatics, Cancer, Genome studies

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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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