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Testing for Differential Expression in Small Sample Microarray Experiments

Gulati, Parul
http://rave.ohiolink.edu/etdc/view?acc_num=osu1262280121

Abstract Details

2010, Doctor of Philosophy, Ohio State University, Public Health.
A typical microarray experiment involves comparing expression levels of thousands of genes across groups or experimental conditions simultaneously. The cost of microarray chips is high and the sample sizes associated with microarray experiments are usually low. This situation creates challenges in processing and analyzing data. In this study two important steps in microarray analysis, filtering and hypothesis testing, were assessed using simulation studies and real data. We propose a filtering approach that filters out non-expressed genes as opposed to other filtering methods which intend to filter out genes that are not differentially expressed before hypothesis testing. We compare the performance of this proposed method to other two commonly used filtering methods. We also develop a novel hypothesis testing procedure which provides better parameter estimates by taking into account the functional relationship between the variances of gene variances and gene expression levels. This relationship was ignored in the methods proposed in the literature for microarray analysis. We compare the proposed testing method with three other existing methods using simulated and spike-in data.
David Jarjoura (Advisor)
Soledad Fernandez (Committee Member)
Lianbo Yu (Committee Member)
Michael Pennell (Committee Member)
Harris Randall (Committee Member)
20 p.
Biostatistics
Filtering; microarray; non-expressed

Recommended Citations

Citations

  • Gulati, P. (2010). Testing for Differential Expression in Small Sample Microarray Experiments [Doctoral dissertation, Ohio State University]. OhioLINK Electronic Theses and Dissertations Center. http://rave.ohiolink.edu/etdc/view?acc_num=osu1262280121

    APA Style (7th edition)

  • Gulati, Parul. Testing for Differential Expression in Small Sample Microarray Experiments. 2010. Ohio State University, Doctoral dissertation. OhioLINK Electronic Theses and Dissertations Center, http://rave.ohiolink.edu/etdc/view?acc_num=osu1262280121.

    MLA Style (8th edition)

  • Gulati, Parul. "Testing for Differential Expression in Small Sample Microarray Experiments." Doctoral dissertation, Ohio State University, 2010. http://rave.ohiolink.edu/etdc/view?acc_num=osu1262280121

    Chicago Manual of Style (17th edition)

osu1262280121
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© 2010, all rights reserved.
This open access ETD is published by The Ohio State University and OhioLINK.