Detecting Periodic Genes from Irregularly Sampled Gene Expressions: A Comparison Study. (23rd June 2008)

• Record Type: Journal Article
• Authors: Zhao, Wentao; Agyepong, Kwadwo; Serpedin, Erchin; Dougherty, Edward R.
• Other Names: Garcia-Frias Javier Academic Editor.
• Is Part Of: EURASIP journal on bioinformatics and systems biology. Volume 2008(2008)
• Publication Date: 2008-06-23
• Subjects: Bioinformatics -- Periodicals; Systems biology -- Periodicals; Systems Biology; Signal Processing, Computer-Assisted; Bio-informatique; Biologie systémique; Bioinformatics; Systems biology; Systems Biology; Bioinformatics; Electronic journals; Periodical; Fulltext; Internet Resources; Periodicals; Periodicals; 570.285
• DOI: 10.1155/2008/769293
• Languages: English
• ISSNs: 1687-4145

Abstract

Abstract : Time series microarray measurements of gene expressions have been exploited to discover genes involved in cell cycles. Due to experimental constraints, most microarray observations are obtained through irregular sampling. In this paper three popular spectral analysis schemes, namely, Lomb-Scargle, Capon and missing-data amplitude and phase estimation (MAPES), are compared in terms of their ability and efficiency to recover periodically expressed genes. Based on in silico experiments for microarray measurements of Saccharomyces cerevisiae, Lomb-Scargle is found to be the most efficacious scheme. 149 genes are then identified to be periodically expressed in the Drosophila melanogaster data set.