A single-cell model of PIP3 dynamics using chemical dimerization.
MacNamara et al. Bioorg Med Chem, 2015
Prospective derivation of a living organoid biobank of colorectal cancer patients.
van et al. Cell, 2015
BioPreDyn-bench: a suite of benchmark problems for dynamic modelling in systems biology.
Villaverde et al. Bmc Syst Biol, 2015
Cooperative development of logical modelling standards and tools with CoLoMoTo.
Naldi et al. Bioinformatics, 2015
Phosphoproteomic analyses reveal novel cross-modulation mechanisms between two signaling pathways in yeast.
Vaga et al. Mol Syst Biol, 2014
Dynamic transcription factor activity and networks during ErbB2 breast oncogenesis and targeted therapy.
Weiss et al. Integr Biol (Camb), 2014
A community computational challenge to predict the activity of pairs of compounds.
Bansal et al. Nat Biotechnol, 2014
Fast randomization of large genomic datasets while preserving alteration counts.
Gobbi et al. Bioinformatics, 2014
Signaling networks in MS: a systems-based approach to developing new pharmacological therapies.
Kotelnikova et al. Mult Scler, 2014
A model integration approach linking signalling and gene-regulatory logic with kinetic metabolic models.
Ryll et al. Biosystems, 2014
A community effort to assess and improve drug sensitivity prediction algorithms.
Costello et al. Nat Biotechnol, 2014
A rapidly reversible chemical dimerizer system to study lipid signaling in living cells.
Feng et al. Angew Chem Int Ed Engl, 2014
MEIGO: an open-source software suite based on metaheuristics for global optimization in systems biology and bioinformatics.
Egea et al. Bmc Bioinformatics, 2014
Network topology and parameter estimation: from experimental design methods to gene regulatory network kinetics using a community based approach.
Meyer et al. Bmc Syst Biol, 2014
PIP₃ induces the recycling of receptor tyrosine kinases.
Laketa et al. Sci Signal, 2014
Network based elucidation of drug response: from modulators to targets.
Iorio et al. Bmc Syst Biol, 2013
SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formalisms and tools.
Chaouiya et al. Bmc Syst Biol, 2013
Path2Models: large-scale generation of computational models from biochemical pathway maps.
Büchel et al. Bmc Syst Biol, 2013
BioServices: a common Python package to access biological Web Services programmatically.
Cokelaer et al. Bioinformatics, 2013
Cyrface: An interface from Cytoscape to R that provides a user interface to R packages.
Gonçalves et al. F1000Res, 2013
Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming.
Guziolowski et al. Bioinformatics, 2013
Machine learning prediction of cancer cell sensitivity to drugs based on genomic and chemical properties.
Menden et al. Plos One, 2013
Phosphoproteomics data classify hematological cancer cell lines according to tumor type and sensitivity to kinase inhibitors.
Casado et al. Genome Biol, 2013
Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models.
Gonçalves et al. Mol Biosyst, 2013
Critical assessment of automated flow cytometry data analysis techniques.
Aghaeepour et al. Nat Methods, 2013