A trend pattern assessment approach to microarray gene expression profiling data analysis

Authors

Kahai Cao, University of Nebraska at Omaha
Qiuming Zhu, University of Nebraska at OmahaFollow
Javeed Iqbal, University of Nebraska Medical Center
John W.C. Chan, University of Nebraska Medical Center

Document Type

Article

Publication Date

9-2007

Publication Title

Pattern Recognition Letters

Volume

28

Issue

12

First Page

1472

Last Page

1482

Abstract

We study the problem of how to assess the reliability of a statistical measurement on data set containing unknown quantity of noises, inconsistencies, and outliers. A practical approach that analyzes the dynamical patterns (trends) of the statistical measurements through a sequential extreme-boundary-points (EBP) weed-out process is explored. We categorize the weed-out trend patterns (WOTP) and examine their relation to the reliability of the measurement. The approach is applied to the processes of extracting genes that are predictive to BCL2 translocations and to clinical survival outcomes of diffuse large B-cell lymphoma (DLBCL) from DNA Microarray gene expression profiling data sets. Fisher’s Discriminate Criterion (FDC) is used as a statistical measurement in the processes. It is found that the weed-out trend analysis (WOTA) approach is effective for qualitatively assessing the statistics-based measurements in the experimentations conducted.

Comments

The final published version of this article can be found at: doi:10.1016/j.patrec.2007.03.006.

© 2007. This manuscript version is made available under the CC-BY-NC-ND 4.0 licensehttp://creativecommons.org/licenses/by-nc-nd/4.0/

Recommended Citation

Cao, Kahai; Zhu, Qiuming; Iqbal, Javeed; and Chan, John W.C., "A trend pattern assessment approach to microarray gene expression profiling data analysis" (2007). Computer Science Faculty Publications. 32.
https://digitalcommons.unomaha.edu/compscifacpub/32