Combined logical and data-driven models for linking signalling pathways to cellular response

Computational modeling with forward and reverse engineering links signaling network and genomic regulatory responses: NF-κB signaling-induced gene expression responses in inflammation

(2010) Shih Peng et al.   BMC BIOINFORMATICS

Obesity, Inflammatory Signaling, and Hepatocellular Carcinoma—An Enlarging Link

(2010) Sara Toffanin et al.   CANCER CELL

The Phosphoinositide 3-Kinase Regulatory Subunit p85  Can Exert Tumor Suppressor Properties through Negative Regulation of Growth Factor Signaling

(2010) C. M. Taniguchi et al.   CANCER RESEARCH

Networks Inferred from Biochemical Data Reveal Profound Differences in Toll-like Receptor and Inflammatory Signaling between Normal and Transformed Hepatocytes

(2010) Leonidas G. Alexopoulos et al.   MOLECULAR & CELLULAR PROTEOMICS

Identifying Drug Effects via Pathway Alterations using an Integer Linear Programming Optimization Formulation on Phosphoproteomic Data

(2009) Alexander Mitsos et al.   PLoS Computational Biology

ON/OFF and Beyond - A Boolean Model of Apoptosis

(2009) Rebekka Schlatter et al.   PLoS Computational Biology

Flexible informatics for linking experimental data to mathematical models via DataRail

(2008) Julio Saez-Rodriguez et al.   BIOINFORMATICS