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Robust test method for time-course microarray experiments.

Publication ,  Journal Article
Sohn, I; Owzar, K; George, SL; Kim, S; Jung, S-H
Published in: BMC Bioinformatics
July 22, 2010

BACKGROUND: In a time-course microarray experiment, the expression level for each gene is observed across a number of time-points in order to characterize the temporal trajectories of the gene-expression profiles. For many of these experiments, the scientific aim is the identification of genes for which the trajectories depend on an experimental or phenotypic factor. There is an extensive recent body of literature on statistical methodology for addressing this analytical problem. Most of the existing methods are based on estimating the time-course trajectories using parametric or non-parametric mean regression methods. The sensitivity of these regression methods to outliers, an issue that is well documented in the statistical literature, should be of concern when analyzing microarray data. RESULTS: In this paper, we propose a robust testing method for identifying genes whose expression time profiles depend on a factor. Furthermore, we propose a multiple testing procedure to adjust for multiplicity. CONCLUSIONS: Through an extensive simulation study, we will illustrate the performance of our method. Finally, we will report the results from applying our method to a case study and discussing potential extensions.

Duke Scholars

Published In

BMC Bioinformatics

DOI

EISSN

1471-2105

Publication Date

July 22, 2010

Volume

11

Start / End Page

391

Location

England

Related Subject Headings

  • Young Adult
  • Time Factors
  • Regression Analysis
  • Oligonucleotide Array Sequence Analysis
  • Middle Aged
  • Humans
  • Gene Expression Profiling
  • Computer Simulation
  • Caenorhabditis elegans
  • Bioinformatics
 

Citation

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MLA
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Sohn, I., Owzar, K., George, S. L., Kim, S., & Jung, S.-H. (2010). Robust test method for time-course microarray experiments. BMC Bioinformatics, 11, 391. https://doi.org/10.1186/1471-2105-11-391
Sohn, Insuk, Kouros Owzar, Stephen L. George, Sujong Kim, and Sin-Ho Jung. “Robust test method for time-course microarray experiments.BMC Bioinformatics 11 (July 22, 2010): 391. https://doi.org/10.1186/1471-2105-11-391.
Sohn I, Owzar K, George SL, Kim S, Jung S-H. Robust test method for time-course microarray experiments. BMC Bioinformatics. 2010 Jul 22;11:391.
Sohn, Insuk, et al. “Robust test method for time-course microarray experiments.BMC Bioinformatics, vol. 11, July 2010, p. 391. Pubmed, doi:10.1186/1471-2105-11-391.
Sohn I, Owzar K, George SL, Kim S, Jung S-H. Robust test method for time-course microarray experiments. BMC Bioinformatics. 2010 Jul 22;11:391.
Journal cover image

Published In

BMC Bioinformatics

DOI

EISSN

1471-2105

Publication Date

July 22, 2010

Volume

11

Start / End Page

391

Location

England

Related Subject Headings

  • Young Adult
  • Time Factors
  • Regression Analysis
  • Oligonucleotide Array Sequence Analysis
  • Middle Aged
  • Humans
  • Gene Expression Profiling
  • Computer Simulation
  • Caenorhabditis elegans
  • Bioinformatics