David Vallenet - researchr alias

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Viewing Publication 1 - 15 from 15

2022

A roadmap for the functional annotation of protein families: a community perspectiveValérie de Crécy-Lagard, Rocio Amorin de Hegedus, Cecilia N. Arighi, Jill Babor, Alex Bateman, Ian Blaby, Crysten Blaby-Haas, Alan Bridge, Stephen K. Burley, Stacey Cleveland, Lucy J. Colwell, Ana Conesa, Christian Dallago, Antoine Danchin, Anita de Waard, Adam Deutschbauer, Raquel Dias, Yousong Ding, Gang Fang, Iddo Friedberg, John Gerlt, Joshua Goldford, Mark Gorelik, Benjamin M. Gyori, Christopher Henry, Geoffrey Hutinet, Marshall Jaroch, Peter D. Karp, Liudmyla Kondratova, Zhiyong Lu, Aron Marchler-Bauer, Maria Jesus Martin, Claire D. McWhite, Gaurav D. Moghe, Paul Monaghan, Anne Morgat, Christopher J. Mungall, Darren A. Natale, William C. Nelson, Seán O'Donoghue, Christine A. Orengo, Katherine H. O'Toole, Predrag Radivojac, Colbie Reed, Richard J. Roberts, Dmitri Rodionov, Irina A. Rodionova, Jeffrey DePons, Lana Saleh, Gloria M. Sheynkman, Françoise Thibaud-Nissen, Paul D. Thomas, Peter Uetz, David Vallenet, Erica Watson Carter, Peter Weigele, Valerie Wood, Elisha M. Wood-Charlson, Jin Xu. biodb, 2022(2022), 2022. [doi]

2021

Correction: PPanGGOLiN: Depicting microbial diversity via a partitioned pangenome graphGuillaume Gautreau, Adelme Bazin, Mathieu Gachet, Rémi Planel, Laura Burlot, Mathieu Dubois, Amandine Perrin, Claudine Médigue, Alexandra Calteau, Stéphane Cruveiller, Catherine Matias, Christophe Ambroise, Eduardo P. C. Rocha, David Vallenet. ploscb, 17(12), 2021. [doi]

2020

2019

MicroScope - an integrated resource for community expertise of gene functions and comparative analysis of microbial genomic and metabolic dataClaudine Médigue, Alexandra Calteau, Stéphane Cruveiller, Mathieu Gachet, Guillaume Gautreau, Adrien Josso, Aurélie Lajus, Jordan Langlois, Hugo Pereira, Rémi Planel, David Roche, Johan Rollin, Zoé Rouy, David Vallenet. bib, 20(4):1071-1084, 2019. [doi]

2018

GROOLS: reactive graph reasoning for genome annotation through biological processesJonathan Mercier, Adrien Josso, Claudine Médigue, David Vallenet. bmcbi, 19(1), 2018. [doi]

2017

MicroScope in 2017: an expanding and evolving integrated resource for community expertise of microbial genomesDavid Vallenet, Alexandra Calteau, Stéphane Cruveiller, Mathieu Gachet, Aurélie Lajus, Adrien Josso, Jonathan Mercier, Alexandre Renaux, Johan Rollin, Zoé Rouy, David Roche, Claude Scarpelli, Claudine Médigue. nar, 45(Database-Issue), 2017. [doi]

2015

GROOLS: Reactive Graph Reasoning for Genome AnnotationJonathan Mercier, David Vallenet. ruleml 2015: [doi]

A new network representation of the metabolism to detect chemical transformation modulesMaria Sorokina, Claudine Médigue, David Vallenet. bmcbi, 16:385, 2015. [doi]

2013

MicroScope - an integrated microbial resource for the curation and comparative analysis of genomic and metabolic dataDavid Vallenet, Eugeni Belda, Alexandra Calteau, Stéphane Cruveiller, Stefan Engelen, Aurélie Lajus, François Le Fèvre, Cyrille Longin, Damien Mornico, David Roche, Zoé Rouy, Gregory Salvignol, Claude Scarpelli, Adam Alexander Thil Smith, Marion Weiman, Claudine Médigue. nar, 41(Database-Issue):636-647, 2013. [doi]

2012

The CanOE Strategy: Integrating Genomic and Metabolic Contexts across Multiple Prokaryote Genomes to Find Candidate Genes for Orphan EnzymesAdam Alexander Thil Smith, Eugeni Belda, Alain Viari, Claudine Médigue, David Vallenet. ploscb, 8(5), 2012. [doi]

2009

MicroScope: a platform for microbial genome annotation and comparative genomicsDavid Vallenet, Stefan Engelen, Damien Mornico, Stéphane Cruveiller, Ludovic Fleury, Aurélie Lajus, Zoé Rouy, David Roche, Gregory Salvignol, Claude Scarpelli, Claudine Médigue. biodb, 2009, 2009. [doi]

2008

Iterative reconstruction of a global metabolic model of Acinetobacter baylyi ADP1 using high-throughput growth phenotype and gene essentiality dataMaxime Durot, François Le Fèvre, Véronique de Berardinis, Annett Kreimeyer, David Vallenet, Cyril Combe, Serge Smidtas, Marcel Salanoubat, Jean Weissenbach, Vincent Schächter. bmcsb, 2:85, 2008. [doi]

2005

MICheck: a web tool for fast checking of syntactic annotations of bacterial genomesStéphane Cruveiller, Jérôme Le Saux, David Vallenet, Aurélie Lajus, Stéphanie Bocs, Claudine Médigue. nar, 33(Web-Server-Issue):471-479, 2005. [doi]

2003

AMIGene: Annotation of MIcrobial GenesStéphanie Bocs, Stéphane Cruveiller, David Vallenet, Grégory Nuel, Claudine Médigue. nar, 31(13):3723-3726, 2003.

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