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» Alternative mapping of probes to genes for Affymetrix chips
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BIOINFORMATICS
2006
120views more  BIOINFORMATICS 2006»
13 years 7 months ago
Comparison of Affymetrix GeneChip expression measures
Motivation: In the Affymetrix GeneChip system, preprocessing occurs before one obtains expression level measurements. Because the number of competing preprocessing methods was lar...
Rafael A. Irizarry, Zhijin Wu, Harris A. Jaffee
BMCBI
2005
82views more  BMCBI 2005»
13 years 7 months ago
Quality assessment of microarrays: Visualization of spatial artifacts and quantitation of regional biases
Background: Quality-control is an important issue in the analysis of gene expression microarrays. One type of problem is regional bias, in which one region of a chip shows artifac...
Mark Reimers, John N. Weinstein
BMCBI
2008
100views more  BMCBI 2008»
13 years 7 months ago
easyExon - A Java-based GUI tool for processing and visualization of Affymetrix exon array data
Background: Alternative RNA splicing greatly increases proteome diversity and thereby contribute to species- or tissue-specific functions. The possibility to study alternative spl...
Ting-Yu Chang, Yin-Yi Li, Chih-Hung Jen, Tsun-Po Y...
BMCBI
2010
153views more  BMCBI 2010»
13 years 7 months ago
Starr: Simple Tiling ARRay analysis of Affymetrix ChIP-chip data
Background: Chromatin immunoprecipitation combined with DNA microarrays (ChIP-chip) is an assay used for investigating DNA-protein-binding or post-translational chromatin/histone ...
Benedikt Zacher, Pei Fen Kuan, Achim Tresch
BMCBI
2006
108views more  BMCBI 2006»
13 years 7 months ago
Probe set algorithms: is there a rational best bet?
Affymetrix microarrays have become a standard experimental platform for studies of mRNA expression profiling. Their success is due, in part, to the multiple oligonucleotide featur...
Jinwook Seo, Eric P. Hoffman