Eric Bonnet - researchr alias

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Viewing Publication 1 - 13 from 13

2025

GNNenrich: a novel method for pathway enrichment analysis based on graph neural networkMallek Mziou-Sallami, Pierrick Roger, Arnaud Gloaguen, Claire Dandine-Roulland, Thierry Jiogho Ngaho, Solène Brohard, Kévin Muret, Florian Sandron, Eric Bonnet, Jean-Francois Deleuze, Edith Le Floch, Vincent Meyer. bioinformatics, 41(8), 2025. [doi]

2020

RA-map: building a state-of-the-art interactive knowledge base for rheumatoid arthritisVidisha Singh, George D. Kalliolias, Marek Ostaszewski, Maëva Veyssiere, Eleftherios Pilalis, Piotr Gawron, Alexander Mazein, Eric Bonnet, Elisabeth Petit-Teixeira, Anna Niarakis. biodb, 2020, 2020. [doi]

2019

Conceptual and computational framework for logical modelling of biological networks deregulated in diseasesArnau Montagud, Pauline Traynard, Loredana Martignetti, Eric Bonnet, Emmanuel Barillot, Andrei Zinovyev, Laurence Calzone. bib, 20(4):1238-1249, 2019. [doi]

2016

Calculating Biological Module Enrichment or Depletion and Visualizing Data on Large-scale Molecular Maps with ACSNMineR and RNaviCell PackagesPaul Deveau, Emmanuel Barillot, Valentina Boeva, Andrei Yu. Zinovyev, Eric Bonnet. rjour, 8(2):293, 2016. [doi]

2015

NaviCell Web Service for network-based data visualizationEric Bonnet, Eric Viara, Inna Kuperstein, Laurence Calzone, David P. A. Cohen, Emmanuel Barillot, Andrei Zinovyev. nar, 43(Webserver-Issue), 2015. [doi]

Integrative Multi-omics Module Network Inference with Lemon-TreeEric Bonnet, Laurence Calzone, Tom Michoel. ploscb, 11(2), 2015. [doi]

2013

BiNoM 2.0, a Cytoscape plugin for accessing and analyzing pathways using standard systems biology formatsEric Bonnet, Laurence Calzone, Daniel Rovera, Gautier Stoll, Emmanuel Barillot, Andrei Zinovyev. bmcsb, 7:18, 2013. [doi]

OCSANA: optimal combinations of interventions from network analysisPaola Vera-Licona, Eric Bonnet, Emmanuel Barillot, Andrei Zinovyev. bioinformatics, 29(12):1571-1573, 2013. [doi]

2010

Prediction of a gene regulatory network linked to prostate cancer from gene expression, microRNA and clinical dataEric Bonnet, Tom Michoel, Yves Van de Peer. bioinformatics, 26(18), 2010. [doi]

TAPIR, a web server for the prediction of plant microRNA targets, including target mimicsEric Bonnet, Ying He, Kenny Billiau, Yves Van de Peer. bioinformatics, 26(12):1566-1568, 2010. [doi]

2007

Validating module network learning algorithms using simulated dataTom Michoel, Steven Maere, Eric Bonnet, Anagha Joshi, Yvan Saeys, Tim Van den Bulcke, Koenraad Van Leemput, Piet van Remortel, Martin Kuiper, Kathleen Marchal, Yves Van de Peer. bmcbi, 8(S-2), 2007. [doi]

2006

Scalable hardware accelerator for comparing DNA and protein sequencesPhilippe Faes, Bram Minnaert, Mark Christiaens, Eric Bonnet, Yvan Saeys, Dirk Stroobandt, Yves Van de Peer. infoscale 2006: 33 [doi]

2004

Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequencesEric Bonnet, Jan Wuyts, Pierre Rouzé, Yves Van de Peer. bioinformatics, 20(17):2911-2917, 2004. [doi]

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