Research Repository

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Local negative circuits and cyclic attractors in Boolean networks with at most five components (2019)
Journal Article
Tonello, E., Farcot, E., & Chaouiya, C. (2019). Local negative circuits and cyclic attractors in Boolean networks with at most five components. SIAM Journal on Applied Dynamical Systems, 18(1), 68-79. doi:10.1137/18m1173988

We consider the following question on the relationship between the asymptotic behaviors of asynchronous dynamics of Boolean networks and their regulatory structures: Does the presence of a cyclic attractor imply the existence of a local negative circ... Read More

The logic of the floral transition: reverse-engineering the switch controlling the identity of lateral organs (2017)
Journal Article
Dinh, J., Farcot, E., & Hodgman, C. (in press). The logic of the floral transition: reverse-engineering the switch controlling the identity of lateral organs. PLoS Computational Biology, 13(9), doi:10.1371/journal.pcbi.1005744. ISSN 1553-734X

Much laboratory work has been carried out to determine the gene regulatory network (GRN) that results in plant cells becoming flowers instead of leaves. However, this also involves the spatial distribution of different cell types, and poses the quest... Read More

A stochastic multicellular model identifies biological watermarks from disorders in self-organized patterns of phyllotaxis (2016)
Journal Article
Refahi, Y., Brunoud, G., Farcot, E., Jean-Marie, A., Pulkkinen, M., Vernoux, T., & Godin, C. (2016). A stochastic multicellular model identifies biological watermarks from disorders in self-organized patterns of phyllotaxis. eLife, 5, doi:10.7554/eLife.14093. ISSN 2050-084X

Exploration of developmental mechanisms classically relies on analysis of pattern regularities. Whether disorders induced by biological noise may carry information on building principles of developmental systems is an important debated question. Here... Read More

A modular analysis of the Auxin signalling network (2015)
Journal Article
Farcot, E., Lavedrine, C., & Vernoux, T. (2015). A modular analysis of the Auxin signalling network. PLoS ONE, 10(3), doi:10.1371/journal.pone.0122231. ISSN 1932-6203

Auxin is essential for plant development from embryogenesis onwards. Auxin acts in large part through regulation of transcription. The proteins acting in the signalling pathway regulating transcription downstream of auxin have been identified as well... Read More