Effect of the absolute statistic on gene-sampling gene-set analysis methods
Cited 0 times inCited 0 times in
- Effect of the absolute statistic on gene-sampling gene-set analysis methods
- Nam, Dougu
- Gene-set analysis, absolute statistic, microarray analysis, false-positive control, genome-wide association study
- Issue Date
- SAGE PUBLICATIONS LTD
- STATISTICAL METHODS IN MEDICAL RESEARCH, v.26, no.3, pp.1248 - 1260
- Gene-set enrichment analysis and its modified versions have commonly been used for identifying altered functions or pathways in disease from microarray data. In particular, the simple gene-sampling gene-set analysis methods have been heavily used for datasets with only a few sample replicates. The biggest problem with this approach is the highly inflated false-positive rate. In this paper, the effect of absolute gene statistic on gene-sampling gene-set analysis methods is systematically investigated. Thus far, the absolute gene statistic has merely been regarded as a supplementary method for capturing the bidirectional changes in each gene set. Here, it is shown that incorporating the absolute gene statistic in gene-sampling gene-set analysis substantially reduces the false-positive rate and improves the overall discriminatory ability. Its effect was investigated by power, false-positive rate, and receiver operating curve for a number of simulated and real datasets. The performances of gene-set analysis methods in one-tailed (genome-wide association study) and two-tailed (gene expression data) tests were also compared and discussed.
- ; Go to Link
Appears in Collections:
- SLS_Journal Papers
can give you direct access to the published full text of this article. (UNISTARs only)
Show full item record
Items in DSpace are protected by copyright, with all rights reserved, unless otherwise indicated.