Profound influence of microarray scanner characteristics on gene expression ratios: analysis and procedure for correction |
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| Authors: | Heidi Lyng Azadeh Badiee Debbie H Svendsrud Eivind Hovig Ola Myklebost Trond Stokke |
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| Institution: | (1) Department of Biophysics, The Norwegian Radium Hospital, Oslo, Norway;(2) Centre for Medical Genetics and Molecular Medicine, Haukeland University Hospital, Bergen, Norway;(3) Department of Tumor Biology, The Norwegian Radium Hospital, Oslo, Norway |
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| Abstract: | Background High throughput gene expression data from spotted cDNA microarrays are collected by scanning the signal intensities of the
corresponding spots by dedicated fluorescence scanners. The major scanner settings for increasing the spot intensities are
the laser power and the voltage of the photomultiplier tube (PMT). It is required that the expression ratios are independent
of these settings. We have investigated the relationships between PMT voltage, spot intensities, and expression ratios for
different scanners, in order to define an optimal scanning procedure. |
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