Title: Study of microarray time series data based on Forward-Backward Linear Prediction and Singular Value Decomposition

Authors: Miew Keen Choong, David Levy, Hong Yan

Addresses: School of Electrical and Information Engineering, The University of Sydney, NSW 2006, Australia. ' School of Electrical and Information Engineering, The University of Sydney, NSW 2006, Australia. ' Department of Electronic Engineering, City University of Hong Kong, Kowloon, Hong Kong; School of Electrical and Information Engineering, The University of Sydney, NSW 2006, Australia

Abstract: We propose a method to analyse the periodicities of gene expression profiles based on the spectral domain approach. Our spectral reconstruction method outperforms three other recently proposed methods, which do not require any prior knowledge. It is proven that an alternative method for studying cell-cycle regulation is possible even where very little prior knowledge is available. We also investigate the potential of combining signals with similar frequency components to form an overdetermined system of equations, and use least squares solution to estimate the spectral frequency. Results show that this new method is able to estimate the peak frequency more accurately.

Keywords: microarray data analysis; spectral estimation; autoregressive model; bioinformatics; data mining; time series data; periodicities; gene expression profiles; spectral domain; cell cycle regulation.

DOI: 10.1504/IJDMB.2009.024848

International Journal of Data Mining and Bioinformatics, 2009 Vol.3 No.2, pp.145 - 159

Published online: 01 May 2009 *

Full-text access for editors Full-text access for subscribers Purchase this article Comment on this article