Bayesian phylogenetics has recently been proposed as a powerful method for inferring
molecular phylogenies, and it has been reported that the mammalian and some plant …

Transposable elements (TEs) are abundant in mammalian genomes and have potentially
contributed to their hosts' evolution by providing novel regulatory or coding sequences. We …

Although the phylogenetic relationships of major lineages of primate species are relatively
well established, the times of divergence of these lineages as estimated by molecular data …

Instead of the immunoglobulin-type antigen receptors of jawed vertebrates, jawless fish have
variable lymphocyte receptors (VLRs), which consist of leucine-rich repeat (LRR) modules. …

The variable lymphocyte receptors (VLRs) of jawless vertebrates such as lamprey and
hagfish are composed of highly diverse modular leucine-rich repeats. Each lymphocyte …

In this paper, we present a systematic and conceptual overview of methods for inferring
gene regulatory networks from observational gene expression data. Further, we discuss two …

Motivation: Recently, many univariate and several multivariate approaches have been suggested
for testing differential expression of gene sets between different phenotypes. However, …

Identification of differentially expressed pathways from expression data is an important
problem because it allows us to gain insights into the functional working mechanism of cells …

In this paper we discuss the dualism of gene networks and their role in systems biology. We
argue that gene networks (1) can serve as a conceptual framework, forming a fundamental …

Noncoding DNA in the human–mouse orthologous intergenic regions contains ‘islands' of
conserved sequences, the functions of which remain largely unknown. We hypothesized that …