Analyzing enrichment algorithms for redundancy treatment of Gene Ontology terms based on a methylation profile for colorectal cancer
In high-throughput studies of diseases, exploring Gene Ontology (GO) annotations for diseaserelated genes has become a widespread practice to get first insights into the functional mechanisms of the diseases. Currently, many algorithms have been developed to find GO terms significantly enriched with disease-related genes, but most of them cannot handle the redundancy that results from the dependencies of GO terms. Two commonly algorithms developed for reducing redundancy are Parent-Child union (PCU) and elim. In this paper, using one methylation profile for colorectal cancer, we showed that these two commonly used algorithms tend to produce results that do not account for some biologically interesting cases. Thus, these two algorithms should be improved to get terms that are more statistically and biologically meaningful.
gene ontology enrichment analysis redundancy treatment Parent-Child union elim
Jing Wang Xianxiao Zhou Jing Zhu Zheng Guo
Bioinformatics Centre,School of Life Science and Technology, University of Electronic Science and Technology of China,Chengdu, China
国际会议
The 5th International Congress on Mathematical Biology(第五届国际生物数学大会 ICMB 2011)
南京
英文
1545-1549
2011-06-01（万方平台首次上网日期，不代表论文的发表时间）