A logic-based modeling derived from boolean networks: adding fuzzy logic and edge tuning

Arnaud Poret (1, 2) , Claudio Monteiro Sousa (1, 2) , Jean-Pierre Boissel (1)

1 Novadiscovery [Lyon]
2 LBBE - Laboratoire de Biométrie et Biologie Evolutive - UMR 5558

Quantitative modeling in biology can be difficult due to parameter value scarcity. An alternative is qualitative modeling since it requires few to no parameters. This article presents a qualitative modeling derived from boolean networks where fuzzy logic is used and where edges can be tuned. Fuzzy logic being continuous, its variables can be finely valued while remaining qualitative. To consider that some interactions are slower or weaker than other ones, edge states are computed to modulate in speed and strength the signal they convey. The proposed formalism is illustrated through its implementation on an example network. Simulations show that continuous results are produced, thus allowing fine analysis, and that modulating the signal conveyed by the edges allows their tuning according to knowledge about the interaction they model. The present work is expected to bring enhancements in the ability of qualitative models to simulate biological networks.

Mots clés: qualitative modeling; biological networks; boolean networks; fuzzy logic; logic-based modeling; edge tuning

Domaines: Réseaux moléculaires [q-bio.MN]; Bio-Informatique, Biologie Systémique [q-bio.QM]

Arnaud Poret, Claudio Monteiro Sousa, Jean-Pierre Boissel. A logic-based modeling derived from boolean networks: adding fuzzy logic and edge tuning. 2014. ⟨hal-01018236v3⟩