High-throughput technologies for DNA sequencing and for analyses of transcriptomes,
proteomes and metabolomes have provided the foundations for deciphering the structure …

Small-molecule inhibitors of PARP are thought to mediate their antitumor effects as catalytic
inhibitors that block repair of DNA single-strand breaks (SSB). However, the mechanism of …

The detailed structure of molecular networks, including their dependence on conditions and
time, are now routinely assayed by various experimental techniques. Visualization is a vital …

Abstract Systems Biology has taken advantage of computational tools and high-throughput
experimental data to model several biological processes. These include signaling, gene …

The 'precision medicine (systems medicine)'concept promises to achieve a shift to future
healthcare systems with a more proactive and predictive approach to medicine, where the …

Motivation We present an overview of the Kappa platform, an integrated suite of analysis
and visualization techniques for building and interactively exploring rule-based models. The …

Intracellular signalling systems are highly complex. This complexity makes handling,
analysis and visualisation of available knowledge a major challenge in current signalling …

Abstract Purpose: Ecteinascidin 743 (Et743; trabectedin, Yondelis) has recently been
approved in Europe for the treatment of soft tissue sarcomas and is undergoing clinical trials …

Rule-based modeling provides a means to represent cell signaling systems in a way that
captures site-specific details of molecular interactions. For rule-based models to be more …

We introduce the Dynamic Influence Network (DIN), a novel visual analytics technique for
representing and analyzing rule-based models of protein-protein interaction networks. Rule …