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Online Journal of Bioinformatics ©
Volume 7(1): 1-14, 2006.
A correction for expression value dependencies in Affymetrix.
Broemel F1, Kruse E2, Neuhäuser M3, Dürig J4, JÖckel KH5
1Institute for Medical Informatics, Biometry and Epidemiology, University Hospital, Essen D-45122, 2Department of Botany, Faculty of Biology, Technical University Darmstadt, Darmstadt D-64287, Institute for Medical Informatics, Biometry and Epidemiology, University Hospital, Essen D-45122, 4Department of Hematology, University Hospital, Essen D-45122, 5Institute for Medical Informatics, Biometry and Epidemiology, University Hospital, Essen D-45122, Germany
Broemel F, Kruse E, Neuhäuser M, Dürig J, JÖckel KH A correction for expression value dependencies in Affymetrix, Onl J Bioinform., 7 (1) : 1-14, 2006. Affymetrix oligonucleotide arrays measure the expression of transcripts in biological samples. As with other high-density oligonucleotide expression arrays, expression data generated by Affymetrix hides/influences significant biological information. A correction for this influence using linear regression is reported. The correction uses 3'/5'-ratios and a scaling factor to quantify the effect. These corrections can be applied to other data sets produced by Affymetrix.
Keywords: Microarray, Affymetrix, Technical Parameters.