Modelling Signalling Networks from Perturbation Data
Posted 05 Jan 2018
bioRxiv DOI: 10.1101/243600 (published DOI: 10.1093/bioinformatics/bty473)
Posted 05 Jan 2018
Intracellular signalling is realized by complex signalling networks which are almost impossible to understand without network models, especially if feedbacks are involved. Modular Response Analysis (MRA) is a convenient modelling method to study signalling networks in various contexts. We developed a derivative of MRA that is suited to model signalling networks from incomplete perturbation schemes and multi-perturbation data. We applied the method to study the effect of SHP2, a protein that has been implicated in resistance to targeted therapy in colon cancer, using data from a knock out and parental colon cancer cell line. We find that SHP2 is required for MAPK signalling, whereas AKT signalling only partially depends on SHP2. An R-package is available at https://github.com/MathurinD/STASNet
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