An Efficient Functional Analysis Method for Micro-array Data Using Gene Ontology


Dong-wan Hong, Jong-keun Lee, Sung-soo Park, Sang-kyoon Hong, Jee-hee Yoon, Journal of Information Processing Systems Vol. 3, No. 1, pp. 38-42, Feb. 2007


Keywords: Micro-array data, Functional analysis, Gene Ontology, Informative genes.
Fulltext:

Abstract

Microarray data includes tens of thousands of gene expressions simultaneously, so it can be effectively used in identifying the phenotypes of diseases. However, the retrieval of functional information from a large corpus of gene expression data is still a time-consuming task. In this paper, we propose an efficient method for identifying functional categories of differentially expressed genes from a micro-array experiment by using Gene Ontology (GO). Our method is as follows: (1) The expression data set is first filtered to include only genes with mean expression values that differ by at least 3-fold between the two groups. (2) The genes are then ranked based on the t-statistics. The 100 most highly ranked genes are selected as informative genes. (3) The t-value of each informative gene is imposed as a score on the associated GO terms. High-scoring GO terms are then listed with their associated genes and represent the functional category information of the micro-array experiment. A system called HMDA (Hallym Micro-array Data analysis) is implemented on publicly available microarray data sets and validated. Our results were also compared with the original analysis.


Statistics
Show / Hide Statistics

Statistics (Cumulative Counts from November 1st, 2017)
Multiple requests among the same browser session are counted as one view.
If you mouse over a chart, the values of data points will be shown.




Cite this article
[APA Style]
Dong-wan Hong, Jong-keun Lee, Sung-soo Park, Sang-kyoon Hong, & Jee-hee Yoon (2007). An Efficient Functional Analysis Method for Micro-array Data Using Gene Ontology. Journal of Information Processing Systems, 3(1), 38-42. DOI: .

[IEEE Style]
D. Hong, J. Lee, S. Park, S. Hong and J. Yoon, "An Efficient Functional Analysis Method for Micro-array Data Using Gene Ontology," Journal of Information Processing Systems, vol. 3, no. 1, pp. 38-42, 2007. DOI: .

[ACM Style]
Dong-wan Hong, Jong-keun Lee, Sung-soo Park, Sang-kyoon Hong, and Jee-hee Yoon. 2007. An Efficient Functional Analysis Method for Micro-array Data Using Gene Ontology. Journal of Information Processing Systems, 3, 1, (2007), 38-42. DOI: .