An overview of image-processing methods for Affymetrix GeneChips. Export

@article{citeulike:2086225, abstract = {We present an overview of image-processing methods for Affymetrix GeneChips. All GeneChips are affected to some extent by spatially coherent defects and image processing has a number of potential impacts on the downstream analysis of GeneChip data. Fortunately, there are now a number of robust and accurate algorithms, which identify the most disabling defects. One group of algorithms concentrate on the transformation from the original hybridisation DAT image to the representative CEL file. Another set uses dedicated pattern recognition routines to detect different types of hybridisation defect in replicates. A third type exploits the information provided by public repositories of GeneChips (such as GEO). The use of these algorithms improves the sensitivity of GeneChips, and should be a prerequisite for studies in which there are only few probes per relevant biological signal, such as exon arrays and SNP chips.}, author = {Arteaga-Salas, Jose M M. and Zuzan, Harry and Langdon, William B B. and Upton, Graham J G J. and Harrison, Andrew P P.}, citeulike-article-id = {2086225}, citeulike-linkout-0 = {http://dx.doi.org/10.1093/bib/bbm055}, citeulike-linkout-1 = {http://bib.oxfordjournals.org/cgi/content/abstract/9/1/25}, citeulike-linkout-2 = {http://view.ncbi.nlm.nih.gov/pubmed/18057073}, citeulike-linkout-3 = {http://www.hubmed.org/display.cgi?uids=18057073}, day = {5}, doi = {10.1093/bib/bbm055}, issn = {1467-5463}, journal = {Brief Bioinform}, keywords = {affymetrix, analysis}, month = {December}, posted-at = {2008-01-04 00:33:28}, priority = {2}, title = {An overview of image-processing methods for Affymetrix GeneChips.}, url = {http://dx.doi.org/10.1093/bib/bbm055}, year = {2007} }

TY - JOUR ID - citeulike:2086225 L3 - citeulike-article-id:2086225 N2 - We present an overview of image-processing methods for Affymetrix GeneChips. All GeneChips are affected to some extent by spatially coherent defects and image processing has a number of potential impacts on the downstream analysis of GeneChip data. Fortunately, there are now a number of robust and accurate algorithms, which identify the most disabling defects. One group of algorithms concentrate on the transformation from the original hybridisation DAT image to the representative CEL file. Another set uses dedicated pattern recognition routines to detect different types of hybridisation defect in replicates. A third type exploits the information provided by public repositories of GeneChips (such as GEO). The use of these algorithms improves the sensitivity of GeneChips, and should be a prerequisite for studies in which there are only few probes per relevant biological signal, such as exon arrays and SNP chips. JF - Brief Bioinform SN - 1467-5463 TI - An overview of image-processing methods for Affymetrix GeneChips. KW - affymetrix KW - analysis AU - Arteaga-Salas, Jose M AU - Zuzan, Harry AU - Langdon, William B AU - Upton, Graham J G AU - Harrison, Andrew P PY - 2007/12/05/ UR - http://dx.doi.org/10.1093/bib/bbm055 ER -