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- Title
Effects of filtering by Present call on analysis of microarray experiments.
- Authors
McClintick, Jeanette N; Edenberg, Howard J
- Abstract
Affymetrix GeneChips are widely used for expression profiling of tens of thousands of genes. The large number of comparisons can lead to false positives. Various methods have been used to reduce false positives, but they have rarely been compared or quantitatively evaluated. Here we describe and evaluate a simple method that uses the detection (Present/Absent) call generated by the Affymetrix microarray suite version 5 software (MAS5) to remove data that is not reliably detected before further analysis, and compare this with filtering by expression level. We explore the effects of various thresholds for removing data in experiments of different size (from 3 to 10 arrays per treatment), as well as their relative power to detect significant differences in expression.
- Publication
BMC bioinformatics, 2006, Vol 7, p49
- ISSN
1471-2105
- Publication type
Journal Article
- DOI
10.1186/1471-2105-7-49