Detecting periodic genes from irregularly sampled gene expressions: a comparison study. Academic Article

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.

authors

• Dougherty, Edward
• Serpedin, Erchin

published proceedings

• EURASIP J Bioinform Syst Biol

author list (cited authors)

• Zhao, W., Agyepong, K., Serpedin, E., & Dougherty, E. R.

citation count

• 20

complete list of authors

• Zhao, Wentao||Agyepong, Kwadwo||Serpedin, Erchin||Dougherty, Edward R

publication date

• July 2008

publisher

• Springer Nature  Publisher

published in

• EURASIP Journal on Bioinformatics and Systems Biology  Journal

keywords

• 31 Biological Sciences
• 3102 Bioinformatics And Computational Biology
• Genetics

PubMed Central ID

• 18584052

Digital Object Identifier (DOI)

• 10.1155/2008/769293

start page

• 769293

end page

• 8

volume

• 2008

issue

• 1

URL

• http://dx.doi.org/10.1155/2008/769293