caa a22 4500 378926047 CHVBK 20180305123617.0 cr unu---uuuuu 161128e20040608xx s 000 0 eng 10.2202/1544-6115.1057 doi (NATIONALLICENCE)gruyter-10.2202/1544-6115.1057 Saturation and Quantization Reduction in Microarray Experiments using Two Scans at Different Sensitivities [Elektronische Daten] [Jorge García de la Nava, Sacha van Hijum, Oswaldo Trelles] We present a mathematical model to extend the dynamic range of gene expression data measured by laser scanners. The strategy is based on the rather simple but novel idea of producing two images with different scanner sensitivities, obtaining two different sets of expression values: the first is a low-sensitivity measure to obtain high expression values which would be saturated in a high-sensitivity measure; the second, by the converse strategy, obtains additional information about the low-expression levels. Two mathematical models based on linear and gamma curves are presented for relating the two measurements to each other and producing a coherent and extended range of values. The procedure minimizes the quantization relative error and avoids the collateral effects of saturation. Since most of the current scanner devices are able to adjust the saturation level, the strategy can be considered as a universal solution, and not dependent on the image processing software used for reading the DNA chip. Various tests have been performed, on both proprietary and public domain data sets, showing a reduction of the saturation and quantization effects, not achievable by other methods, with a more complete description of gene-expression data and with a reasonable computational complexity. ©2011 Walter de Gruyter GmbH & Co. KG, Berlin/Boston Microarrays nationallicence microarray nationallicence preprocessing nationallicence saturation nationallicence quantization nationallicence García de la Nava Jorge Dept. Computer Architecture, University of Málaga (Spain) aut van Hijum Sacha Department of Molecular Genetics, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, The Netherlands aut Trelles Oswaldo Dept. Computer Architecture, University of Málaga (Spain) aut Statistical Applications in Genetics and Molecular Biology De Gruyter 3/1(2004-06-08), 1-16 3:1<1 2004 3 sagmb https://doi.org/10.2202/1544-6115.1057 text/html Onlinezugriff via DOI 1 research article jats NATIONALLICENCE 856 40 https://doi.org/10.2202/1544-6115.1057 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- García de la Nava Jorge Dept. Computer Architecture, University of Málaga (Spain) aut NATIONALLICENCE 700 1- van Hijum Sacha Department of Molecular Genetics, Groningen Biomolecular Sciences and Biotechnology Institute, University of Groningen, The Netherlands aut NATIONALLICENCE 700 1- Trelles Oswaldo Dept. Computer Architecture, University of Málaga (Spain) aut NATIONALLICENCE 773 0- Statistical Applications in Genetics and Molecular Biology De Gruyter 3/1(2004-06-08), 1-16 3:1<1 2004 3 sagmb CC0 http://creativecommons.org/publicdomain/zero/1.0 nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-gruyter