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Sample size for FDR-control in microarray data analysis.

Publication ,  Journal Article
Jung, S-H
Published in: Bioinformatics
July 15, 2005

We consider identifying differentially expressing genes between two patient groups using microarray experiment. We propose a sample size calculation method for a specified number of true rejections while controlling the false discovery rate at a desired level. Input parameters for the sample size calculation include the allocation proportion in each group, the number of genes in each array, the number of differentially expressing genes and the effect sizes among the differentially expressing genes. We have a closed-form sample size formula if the projected effect sizes are equal among differentially expressing genes. Otherwise, our method requires a numerical method to solve an equation. Simulation studies are conducted to show that the calculated sample sizes are accurate in practical settings. The proposed method is demonstrated with a real study.

Duke Scholars

Published In

Bioinformatics

DOI

ISSN

1367-4803

Publication Date

July 15, 2005

Volume

21

Issue

14

Start / End Page

3097 / 3104

Location

England

Related Subject Headings

  • Sample Size
  • Oligonucleotide Array Sequence Analysis
  • Models, Statistical
  • Models, Genetic
  • Gene Expression Profiling
  • False Positive Reactions
  • Data Interpretation, Statistical
  • Computer Simulation
  • Bioinformatics
  • Algorithms
 

Citation

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Jung, S.-H. (2005). Sample size for FDR-control in microarray data analysis. Bioinformatics, 21(14), 3097–3104. https://doi.org/10.1093/bioinformatics/bti456
Jung, Sin-Ho. “Sample size for FDR-control in microarray data analysis.Bioinformatics 21, no. 14 (July 15, 2005): 3097–3104. https://doi.org/10.1093/bioinformatics/bti456.
Jung S-H. Sample size for FDR-control in microarray data analysis. Bioinformatics. 2005 Jul 15;21(14):3097–104.
Jung, Sin-Ho. “Sample size for FDR-control in microarray data analysis.Bioinformatics, vol. 21, no. 14, July 2005, pp. 3097–104. Pubmed, doi:10.1093/bioinformatics/bti456.
Jung S-H. Sample size for FDR-control in microarray data analysis. Bioinformatics. 2005 Jul 15;21(14):3097–3104.
Journal cover image

Published In

Bioinformatics

DOI

ISSN

1367-4803

Publication Date

July 15, 2005

Volume

21

Issue

14

Start / End Page

3097 / 3104

Location

England

Related Subject Headings

  • Sample Size
  • Oligonucleotide Array Sequence Analysis
  • Models, Statistical
  • Models, Genetic
  • Gene Expression Profiling
  • False Positive Reactions
  • Data Interpretation, Statistical
  • Computer Simulation
  • Bioinformatics
  • Algorithms