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"How to"

Systems biology is mostly a process through which biological question are properly addressed so that the data that are generated will be able to fuel the « virtuous circle », and notable the modeling phase. It is of paramount importance that scientists willing to engage into such a process do so at the earliest possible time point during their projects.


You will find below a couple of references that we hope you might find useful BEFORE embarking on a new project. Please note that some of those references might also be helpful for more advanced colleagues, and help them formalizing the process. Such references might be especially helpful for young students willing to engage into systems level projects.



Noble WS (2009) A Quick Guide to Organizing Computational Biology Projects. PLoS Comput Biol 5(7): e1000424. doi:10.1371/journal.pcbi.1000424

Article available here

Osborne JM, Bernabeu MO, Bruna M, Calderhead B, Cooper J, et al. (2014) Ten Simple Rules for Effective Computational Research. PLoS Comput Biol 10(3): e1003506. doi:10.1371/journal.pcbi.1003506

Article available here


- Bree B. Aldridge, John M. Burke, Douglas A. Lauffenburger and Peter K. Sorger (2006). Physicochemical modelling of cell signalling pathways. Nature Cell Biology 8, 1195-1203.

- Clemens Kreutz and Jens Timmer (2009). Systems biology: experimental design. FEBS Journal 276, 923–942.

- Denis Noble (2008). Claude Bernard, the first systems biologist, and the future of physiology. Exp Physiol 93.1 pp 16–26 16

- Jean-Pierre Boissel, Benjamin Ribba, Emmanuel Grenier, Guillemette Chapuisat and Marie-Aimée Dronne (2008). Modelling methodology in physiopathology. Progress in Biophysics and Molecular Biology 97, 28–39