The activity of the cell is often coordinated by the organisation of proteins into regulatory circuits that share a common function. Genome-wide expression profiles might contain important information on these circuits. Current approaches for the analysis of gene expression data include...

We address the problem of data clustering by introducing an unsupervised, parameter-free approach based on maximum likelihood principle. Starting from the observation that data sets belonging to the same cluster share a common information, we construct an expression for the likelihood of any...

Many theoretical models have recently been proposed to understand the structure of cellular systems composed of various types of elements (e.g., proteins, metabolites and genes) and their interactions. However, the cell is a highly dynamic system with thousands of functional elements fluctuating...

A number of microarray studies assume gene expression data to be independent of one another. In this report, we provide evidence of correlation in cDNA microarray gene expression data using classical power spectral analysis and the sophisticated detrended fluctuation analysis (DFA). Such...

Arrays allow simultaneous measurements of the expression levels of thousands of mRNAs. By mining this data one can identify sets of genes with similar profiles. We show that information theoretic methods are capable of modeling and assessing dissimilarities between the dynamics underlying to the...

This letter proposes modeling a large collection of test statistics, such as may arise in microarray data analysis, using a mixture of three normal distributions: one with mean zero, one with nonnegative mean, and one with nonpositive mean. A convenient procedure is established for testing...

The integrative correlation coefficient was developed to facilitate the validation of expression microarray results in public datasets, by identifying genes that are reproducibly measured across studies and even across microarray platforms. In the current study, we develop a number of...

The sustainability of Bt-cotton in China, at least along Yellow River Valley, has been questioned, so this paper examines its effectiveness along Yangtze River Valley, where Bt-cotton is also widely sown, to determine what might be the factors beneath the limited or reduced effectiveness being...

This is a summary of the author’s Ph.D. thesis supervised by Fioravante Patrone and Stefano Bonassi and defended on 25 May 2006 at the Università degli Studi di Genova. The thesis in written in English and a copy is available from the author upon request. This work deals with the discussion...

Alternative methods to animal testing are considered as promising tools to support the prediction of toxicological risks from environmental exposure. Among the alternative testing methods, the cell transformation assay (CTA) appears to be one of the most appropriate approaches to predict the...