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Please use this identifier to cite or link to this item: http://hdl.handle.net/1942/9006

Title: An Investigation on Performance of Significance Analysis of Microarray (SAM) for the Comparisons of Several Treatments with one Control in the Presence of Small-variance Genes
Authors: LIN, Dan
Ion, R.
Goehlmann, H.W.H.
De Bondt, A.
Perera, T.
Geerts, T.
Van den Wyngaert, I.
Bijnens, L.
Issue Date: 2008
Citation: 5th International Conference on Multiple Comparison Procedures. p. 801-823.
Series/Report: BIOMETRICAL JOURNAL, 50(5) Spec. iss.
Abstract: One of multiple testing problems in drug finding experiments is the comparison of several treatments with one control. In this paper we discuss a particular situation of such an experiment, i.e., a microarray setting, where the many-to-one comparisons need to be addressed for thousands of genes simultaneously. For a gene-specific analysis, Dunnett's single step procedure is considered within gene tests, while the FDR controlling procedures such as Significance Analysis of Microarrays (SAM) and Benjamini and Hochberg (BH) False Discovery Rate (FDR) adjustment are applied to control the error rate across genes. The method is applied to a microarray experiment with four treatment groups (three microarrays in each group) and 16,998 genes. Simulation studies are conducted to investigate the performance of the SAM method and the BH-FDR procedure with regard to controlling the FDR, and to investigate the effect of small-variance genes on the FDR in the SAM procedure.
Notes: [Lin, D.; Shkedy, Z.; Burzykowski, T.] Hasselt Univ, Ctr Stat, B-3590 Diepenbeek, Belgium. [Ion, R.; Goehlmann, H. W. H.; De Bondt, A.; Perera, T.; Geerts, T.; Van den Wyngaert, I.; Bijnens, L.] Johnson & Johnson Pharmaceut Res & Dev, B-2340 Beerse, Belgium.
URI: http://hdl.handle.net/1942/9006
DOI: 10.1002/bimj.200710467
ISI #: 000260698100017
ISSN: 0323-3847
Category: C1
Type: Proceedings Paper
Validation: ecoom, 2009
Appears in Collections: Research publications

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