Ludovic Cottret

18 papers C 2Journal 15Unranked 1
YearRankTypeTitle / Venue / Authors
2022 J jnl
MERRIN: MEtabolic regulation rule INference from time series data.
Bioinform.
Kerian Thuillier, Caroline Baroukh, Alexander Bockmayr, Ludovic Cottret, Loïc Paulevé, Anne Siegel
2021 — conf
Learning Boolean Controls in Regulated Metabolic Networks: A Case-Study.
CMSB
Kerian Thuillier, Caroline Baroukh, Alexander Bockmayr, Ludovic Cottret, Loïc Paulevé, Anne Siegel
2018 J jnl
MetExplore: collaborative edition and exploration of metabolic networks.
Nucleic Acids Res.
Ludovic Cottret, Clément Frainay, Maxime Chazalviel, Floréal Cabanettes, Yoann Gloaguen, Etienne Camenen, Benjamin Merlet, Stéphanie Heux, Jean-Charles Portais, Nathalie Poupin, Florence Vinson, Fabien Jourdan
2018 J jnl
MetExploreViz: web component for interactive metabolic network visualization.
Bioinform.
Maxime Chazalviel, Clément Frainay, Nathalie Poupin, Florence Vinson, Benjamin Merlet, Yoann Gloaguen, Ludovic Cottret, Fabien Jourdan
2015 J jnl
FlexFlux: combining metabolic flux and regulatory network analyses.
BMC Syst. Biol.
Lucas Marmiesse, Rémi Peyraud, Ludovic Cottret
2015 J jnl
TrypanoCyc: a community-led biochemical pathways database for
Nucleic Acids Res.
Sanu Shameer, Flora J. Logan-Klumpler, Florence Vinson, Ludovic Cottret, Benjamin Merlet, Fiona Achcar, Michael Boshart, Matthew Berriman, Rainer Breitling, Frédéric Bringaud, Peter Bütikofer, Amy M. Cattanach, Bridget Bannerman-Chukualim, Darren J. Creek, Kathryn Crouch, Harry P. de Koning, Hubert Denise, Charles Ebikeme, Alan H. Fairlamb, Michael A. J. Ferguson, Michael L. Ginger, Christiane Hertz-Fowler, Eduard J. Kerkhoven, Pascal Mäser, Paul A. M. Michels, Archana Nayak, David W. Nes, Derek P. Nolan, Christian Olsen, Fatima Silva-Franco, Terry K. Smith, Martin C. Taylor, Aloysius G. M. Tielens, Michael D. Urbaniak, Jaap J. van Hellemond, Isabel M. Vincent, Shane R. Wilkinson, Susan Wyllie, Fred R. Opperdoes, Michael P. Barrett, Fabien Jourdan
2014 J jnl
Identification and phylogenetic analyses of VASt, an uncharacterized protein domain associated with lipid-binding domains in Eukaryotes.
BMC Bioinform.
Mehdi Khafif, Ludovic Cottret, Claudine Balagué, Sylvain Raffaele
2014 J jnl
Telling metabolic stories to explore metabolomics data: a case study on the yeast response to cadmium exposure.
Bioinform.
Paulo Vieira Milreu, Cecilia Coimbra Klein, Ludovic Cottret, Vicente Acuña, Etienne Birmelé, Michele Borassi, Christophe Junot, Alberto Marchetti-Spaccamela, Andrea Marino, Leen Stougie, Fabien Jourdan, Pierluigi Crescenzi, Vincent Lacroix, Marie-France Sagot
2012 J jnl
Algorithms and complexity of enumerating minimal precursor sets in genome-wide metabolic networks.
Bioinform.
Vicente Acuña, Paulo Vieira Milreu, Ludovic Cottret, Alberto Marchetti-Spaccamela, Leen Stougie, Marie-France Sagot
2012 C conf
Systrip: A Visual Environment for the Investigation of Time-series Data in the Context of Metabolic Networks.
IV
Jonathan Dubois, Ludovic Cottret, Amine Ghozlane, David Auber, Frédéric Bringaud, Patricia Thébault, Fabien Jourdan, Romain Bourqui
2012 J jnl
Telling stories: Enumerating maximal directed acyclic graphs with a constrained set of sources and targets.
Theor. Comput. Sci.
Vicente Acuña, Etienne Birmelé, Ludovic Cottret, Pierluigi Crescenzi, Fabien Jourdan, Vincent Lacroix, Alberto Marchetti-Spaccamela, Andrea Marino, Paulo Vieira Milreu, Marie-France Sagot, Leen Stougie
2011 J jnl
CycADS: an annotation database system to ease the development and update of BioCyc databases.
Database J. Biol. Databases Curation
Augusto F. Vellozo, Amélie S. Véron, Patrice Baa-Puyoulet, Jaime Huerta-Cepas, Ludovic Cottret, Gérard Febvay, Federica Calevro, Yvan Rahbé, Angela E. Douglas, Toni Gabaldón, Marie-France Sagot, Hubert Charles, Stefano Colella
2010 J jnl
Graph-Based Analysis of the Metabolic Exchanges between Two Co-Resident Intracellular Symbionts,
PLoS Comput. Biol.
Ludovic Cottret, Paulo Vieira Milreu, Vicente Acuña, Alberto Marchetti-Spaccamela, Leen Stougie, Hubert Charles, Marie-France Sagot
2010 J jnl
MetExplore: a web server to link metabolomic experiments and genome-scale metabolic networks.
Nucleic Acids Res.
Ludovic Cottret, David Wildridge, Florence Vinson, Michael P. Barrett, Hubert Charles, Marie-France Sagot, Fabien Jourdan
2009 J jnl
Deciphering the connectivity structure of biological networks using MixNet.
BMC Bioinform.
Franck Picard, Vincent Miele, Jean-Jacques Daudin, Ludovic Cottret, Stéphane Robin
2008 J jnl
An Introduction to Metabolic Networks and Their Structural Analysis.
IEEE ACM Trans. Comput. Biol. Bioinform.
Vincent Lacroix, Ludovic Cottret, Patricia Thébault, Marie-France Sagot
2008 C conf
Enumerating Precursor Sets of Target Metabolites in a Metabolic Network.
WABI
Ludovic Cottret, Paulo Vieira Milreu, Vicente Acuña, Alberto Marchetti-Spaccamela, Fábio Viduani Martinez, Marie-France Sagot, Leen Stougie
2007 J jnl
Metabolic network visualization eliminating node redundance and preserving metabolic pathways.
BMC Syst. Biol.
Romain Bourqui, Ludovic Cottret, Vincent Lacroix, David Auber, Patrick Mary, Marie-France Sagot, Fabien Jourdan