Parametric spectral analysis of malaria gene expression time series data

Abstract

Spectral analysis of DNA microarray gene expressions time series data is important for understanding the regulation of gene expression and gene function of the Plasmodium falciparum in the intraerythrocytic developmental cycle. In this paper, we propose a new strategy to analyze the cell cycle regulation of gene expression profiles based on the combination of singular spectrum analysis (SSA) and autoregressive (AR) spectral estimation. Using the SSA, we extract the dominant trend of data and reduce the effect of noise. Based on the AR analysis, high resolution spectra can be produced. Experiment results show that our method can extract more genes and the information can be useful for new drug design. © Springer-Verlag Berlin Heidelberg 2006.