NormaCurve: a SuperCurve-based method that simultaneously quantifies and normalizes reverse phase protein array data.

Motivation: Reverse phase protein array (RPPA) is a powerful dot-blot technology that allows studying protein expression levels as well as post-translational modifications in a large number of samples simultaneously. Yet, correct interpretation of RPPA data has remained a major challenge for its broad-scale application and its translation into clinical research. Satisfying quantification tools are available to assess a relative protein expression level from a serial dilution curve.

Can a cocktail designed for phenotyping pharmacokinetics and metabolism enzymes in human be used efficiently in rat?

We recently designed the CIME cocktail consisting of 10 drugs to assess the activity of the major human CYPs (CYP1A2, CYP2C8, CYP2C9, CYP2C19, CYP2D6 and CYP3A), a phase II enzyme (UGT1A1/6/9), two drug transporters (P-gp and OATP1B1) and a component of the renal function ( Videau et al. 2010 ). The present work aimed at studying the usefulness of the CIME cocktail in the rat.

Validation of biological models with temporal logic and Timed Hybrid Petri Nets.

The Hybrid Functional Petri Nets (HFPN) formalism has shown its convenience for modelling biological systems. This class of models has been fruitfully applied in biology but the remarkable expressiveness of HFPN often leads to incomplete validations. In this paper, we propose a logical framework for Timed Hybrid Petri Nets (THPN), a sub-class of HFPN.

Modeling and simulation with Hybrid Functional Petri Nets of the role of interleukin-6 in human early haematopoiesis.

The regulation of human haematopoiesis is a complex biological system with numerous interdependent processes. In vivo Haematopoietic Stem Cells (HSCs) self-renew so as to maintain a constant pool of these cells. It would be very interesting to maintain these cells in vitro, in view of their therapeutical importance.