10 citations · 12 across the 6 of their papers we have counts for
6 papers
A Bilevel Integer Programming Approach for the Synchronous Attractor Control Problem
Kyungduk Moon, Kangbok Lee, Loïc Paulevé
Boolean networks are dynamical models of disease development in which the activation levels of genes are represented by binary variables. Given a Boolean network, controls represen…
Prediction of source nutrients for microorganisms using metabolic networks
Olivia Bulka, Chabname Ghassemi Nedjad, Loïc Paulevé +2
Metagenomics has lowered the barrier to microbial discovery--enabling the identification of novel microbes without isolation--but cultures remain imperative for the deep study of m…
Phenotype control and elimination of variables in Boolean networks
Elisa Tonello, Loïc Paulevé
We investigate how elimination of variables can affect the asymptotic dynamics and phenotype control of Boolean networks. In particular, we look at the impact on minimal trap space…
Attractor identification in asynchronous Boolean dynamics with network reduction
Elisa Tonello, Loïc Paulevé
Identification of attractors, that is, stable states and sustained oscillations, is an important step in the analysis of Boolean models and exploration of potential variants. We de…
Marker and source-marker reprogramming of Most Permissive Boolean networks and ensembles with BoNesis
Loïc Paulevé
Boolean networks (BNs) are discrete dynamical systems with applications to the modeling of cellular behaviors. In this paper, we demonstrate how the software BoNesis can be employe…
BioSimulators: a central registry of simulation engines and services for recommending specific tools
Bilal Shaikh, Lucian P. Smith, Dan Vasilescu +68
Computational models have great potential to accelerate bioscience, bioengineering, and medicine. However, it remains challenging to reproduce and reuse simulations, in part, becau…