MOTIVATION Microarray experiments are now routinely used to collect large-scale time series data, for example to monitor gene expression during the cell cycle. Statistical analysis of this data poses many challenges, one being that it is hard to identify correctly the subset of genes with a clear periodic signature. This has lead to a controversial argument with regard to the suitability of bot...

In this work we describe a set of analytical and statistical methods enabling the identification of genes which spike expression within narrow time-windows of Plasmodium falciparum Intraerythrocytic Developmental Cycle. Moreover we assign a functional group to each gene by using SVM algorithm and discuss about possible biological role. General Terms Algorithms, Measurement.

In this article we propose two practical types of designs for large time-course, dual-channel microarray experiments. One type consists of several interwoven loops, and the other type combines reference and loop designs. By representing the experiment as a graph, where the timepoints are nodes and the arrays are edges, we demonstrate how the time contrasts between any two timepoints can be esti...

Identifying differentially expressed (DE) genes across conditions or treatments is a typical problem in microarray experiments. In time course microarray experiments (under two or more conditions/treatments), it is sometimes of interest to identify two classes of DE genes: those with no time-condition interactions (called parallel DE genes, or PDE), and those with time-condition interactions (n...

MOTIVATION Interaction among time series can be explored in many ways. All the approach has the usual problem of low power and high dimensional model. Here we attempted to build a causality network among a set of time series. The causality has been established by Granger causality, and then constructing the pathway has been implemented by finding the Minimal Spanning Tree within each connected ...

In this paper we present a functional Bayesian method for detecting genes which are temporally differentially expressed between several conditions. We identify the nature of differential expression (e.g., gene is differentially expressed between the first and the second sample but is not differentially expressed between the second and the third) and subsequently we estimate gene expression temp...

Recently, we demonstrated chromosome instability (CIN) in human cleavage stage embryogenesis following in vitro fertilization (IVF). CIN not necessarily undermines normal human development (i.e. when remaining normal diploid blastomeres develop the embryo proper), however it can spark a spectrum of conditions, including loss of conception, genetic disease and genetic variation development. To s...