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Approximation Hardness of the Cross-Species Conserved Active Modules Detection Problem

Thomas Hume , Hayssam Soueidan , Macha Nikolski , Guillaume Blin
41st International Conference on Current Trends in Theory and Practice of Computer Science (SOFSEM'15), Jan 2015, Pec pod Sněžkou, Czech Republic. pp. 242-253
Conference papers hal-01056406v1

ProteomeBinders: planning a European resource of affinity reagents for analysis of the human proteome

Michael J. Taussing , Oda Stoevesandt , Carl a K Borrebaeck , Andrew R Bradbury , Dolores Cahill , et al.
Nature Methods, 2007, 4, pp.13-17. ⟨10.1038/nmeth0107-13⟩
Journal articles hal-00306585v1

An introduction to metabolic networks and their structural analysis.

Vincent Lacroix , Ludovic Cottret , Patricia Thebault , Marie-France Sagot
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2008, 5 (4), pp.594-617. ⟨10.1109/TCBB.2008.79⟩
Journal articles hal-00355497v1

Microbiomes and Holobionts

Derek Skillings , Katarzyna B Hooks
Reference Module in Earth Systems and Environmental Sciences, 2018
Book sections hal-01893113v1
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DypFISH: Dynamic Patterned FISH to Interrogate RNA and Protein Spatial and Temporal Subcellular Distribution

Anca Savulescu , Robyn Brackin , Emmanuel Bouilhol , Benjamin Dartigues , Jonathan H Warrell , et al.
Preprints, Working Papers, ... hal-02409081v1

Further Steps in TANGO: improved taxonomic assignment in metagenomics

Macha Nikolski , Daniel Alonso-Alemany , Aurélien Barré , Stefano Beretta , Paola Bonizzoni , et al.
Bioinformatics, 2013, pp.10.1093/bioinformatics/btt256. ⟨10.1093/bioinformatics/btt256⟩
Journal articles hal-00848263v1

MolliGen 3.0, evolution of a database dedicated to the comparative genomics of mollicutes

Aurélien Barré , Claire Lemaitre , Patricia Thebault , Antoine de Daruvar , Alain Blanchard , et al.
Congress of the International Organization for Mycoplasmology ; 2010/07/11-16 ; Chianciano Terme (ITA). IOM congress 2010., 2010, Italy
Conference papers hal-00649151v1

Argininosuccinate synthase 1 (ASS1): A marker of unclassified hepatocellular adenoma and high bleeding risk

E Henriet , Aa Hammoud , Jw Dupuy , B Dartigues , Z Ezzoukry , et al.
Hepatology, 2017, ⟨10.1002/hep.29336⟩
Journal articles hal-01550711v1
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YOC, A new strategy for pairwise alignment of collinear genomes

Raluca Uricaru , Célia Michotey , Hélène Chiapello , Eric Rivals
BMC Bioinformatics, 2015, 16 (1), pp.16:111. ⟨10.1186/s12859-015-0530-3⟩
Journal articles lirmm-01170968v1

CBIB/MaBioVis : noeud Bordelais de GRISBI

Tiphaine Martin
BIOinformatique à GRAnde échelLE - BIOGRALE 2008, Christophe CARON and Olivier COLLIN and Antoine de DARUVAR and Gael EVEN and Hugues LEROY and Tiphaine MARTIN and Claudine MEDIGUE and Frédéric PLEWNIAK and Bruno SPATARO and Christophe BLANCHET, Nov 2008, Lyon, France
Conference papers inria-00614465v1
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A community effort to create standards for evaluating tumor subclonal reconstruction

Adriana Salcedo , Maxime Tarabichi , Shadrielle Melijah G. Espiritu , Amit Deshwar , Matei David , et al.
Nature Biotechnology, 2020, 38 (1), pp.97-107. ⟨10.1038/s41587-019-0364-z⟩
Journal articles hal-02438695v1
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Towards an open grapevine information system

Anne-Françoise Adam-Blondon , Michael Alaux , Cyril Pommier , D Cantu , Z-M Cheng , et al.
Horticulture research, 2016, 3, pp.16056. ⟨10.1038/hortres.2016.56⟩
Journal articles hal-01404714v1

Molecular typing of wine yeast strains Saccharomyces uvarum using microsatellite markers

Isabelle Masneuf-Pomarède , C. Lejeune , Pascal Durrens , M. Lollier , Michel Aigle , et al.
Systematic and Applied Microbiology, 2007, 30, pp.75-82. ⟨10.1016/j.syapm.2006.02.006⟩
Journal articles istex hal-00306666v1

Insights into genome plasticity of the wine-making bacterium Oenococcus oeni strain ATCC BAA-1163 by decryption of its whole genome.

Elisabeth Bon , Cosette Granvalet , Fabienne Remize , Diliana Dimova , Patrick Lucas , et al.
9th Symposium on Lactic Acid Bacteria, Sep 2008, Egmond aan Zee, Netherlands. pp.A047
Conference papers inria-00340073v1
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MeRy-B: a web knowledgebase for the storage, visualization, analysis and annotation of plant NMR metabolomic profiles.

Hélène Ferry-Dumazet , Laurent Gil , Catherine Deborde , Annick Moing , Stéphane Bernillon , et al.
BMC Plant Biology, 2011, 11, pp.104. ⟨10.1186/1471-2229-11-104⟩
Journal articles hal-00645944v1
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A fast and cost-effective approach to develop and map EST-SSR markers: oak as a case study.

Jérôme J. Durand , Catherine Bodénès , Emilie Chancerel , Jean-Marc Frigerio , Giovanni Vendramin , et al.
BMC Genomics, 2010, 11 (570), pp.570. ⟨10.1186/1471-2164-11-570⟩
Journal articles hal-00645935v1
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Interrogating RNA and protein spatial subcellular distribution in smFISH data with DypFISH

Anca Savulescu , Robyn Brackin , Emmanuel Bouilhol , Benjamin Dartigues , Jonathan Warrell , et al.
Cell Reports Methods, 2021, 1 (5), pp.100068. ⟨10.1016/j.crmeth.2021.100068⟩
Journal articles hal-03349483v1
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Genome-wide detection of sRNA targets with rNAV

Jonathan Dubois , Amine Ghozlane , Patricia Thebault , Isabelle Dutour , Romain Bourqui
Symposium on Biological Data Visualization, Oct 2013, Atlanta, United States. pp.81 - 88
Conference papers hal-00935443v1
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Développement de méthodes bioinformatiques dédiées à la prédiction et l'analyse des réseaux métaboliques et des ARN non codants

Amine Ghozlane
Informatique [cs]. Université Sciences et Technologies - Bordeaux I, 2012. Français. ⟨NNT : ⟩
Theses tel-01086134v1
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From Genomic to Functional models

Macha Nikolski
Computer Science [cs]. Université Sciences et Technologies - Bordeaux I, 2009
Habilitation à diriger des recherches tel-01086142v1
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Visualization of time-series data in the context of metabolic networks with Systrip Software

Jonathan Dubois , Ludovic Cottret , Amine Ghozlane , David Auber , Frédéric Bringaud , et al.
Journées Ouvertes Biologie Informatique Mathématiques (JOBIM 2013), Jul 2013, France
Conference papers hal-00838725v1

A visualization approach to analyse bacterial sRNA-mediated regulatory networks

Jonathan Dubois , Amine Ghozlane , Patricia Thébault , Isabelle Dutour , Romain Bourqui
Journées Ouvertes Biologie Informatique Mathématiques (JOBIM 2013), Jul 2013, France. pp.Poster
Conference papers hal-00838731v1
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Mise en place d'un gestionnaire de données léger, pluridisciplinaire et national pour les données scientifiques

David Benaben , C. Biscarat , Yonny Cardenas , Helene Cordier , Pierre Gay , et al.
Rencontres Scientifiques des Utilisateurs de Calcul Intensif, de Cloud Et de Stockage (Journées SUCCES 2013), Nov 2013, Paris, France
Conference papers hal-00927505v1
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Minimum Information About a Simulation Experiment (MIASE)

Dagmar Waltemath , Richard Adams , Daniel A. Beard , Frank T. Bergmann , Upinder S. Bhalla , et al.
PLoS Computational Biology, 2011, 7 (4), pp.e1001122. ⟨10.1371/journal.pcbi.1001122⟩
Journal articles hal-00772491v1

Finishing bacterial genome assemblies with Mix

Hayssam Soueidan , Florence Maurier , Alexis Groppi , Pascal Sirand-Pugnet , Florence Tardy , et al.
BMC Bioinformatics, 2013, pp.doi:10.1186/1471-2105-14-S15-S16
Journal articles hal-00879163v1

RENABI GRISBI Infrastructure Distribuée pour la Bioinformatique

Christophe Blanchet , Clément Gauthey , Christophe C. Caron , Olivier Collin , Stephane Delmotte , et al.
JOBIM 2011 - Journées Ouvertes Biologie Informatique Mathématique, Jun 2011, Paris, France
Conference papers hal-00640007v1


Camille Tumiotto , Pantxika Bellecave , Patricia Recordon-Pinson , Alexi Groppi , Macha Nikolski , et al.
AIDS Research and Human Retroviruses, 2018, ⟨10.1089/AID.2017.0298⟩
Journal articles hal-01727265v1
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FluoSim: simulator of single molecule dynamics for fluorescence live-cell and super-resolution imaging of membrane proteins

Matthieu Lagardère , Ingrid Chamma , Emmanuel Bouilhol , Macha Nikolski , Olivier Thoumine
Scientific Reports, 2020, 10, ⟨10.1038/s41598-020-75814-y⟩
Journal articles hal-03010357v1

Oenococcus oeni genome plasticity is associated with fitness

Elisabeth Bon , Arnaud Delaherche , Eric Bilhere , Antoine de Daruvar , Aline Lonvaud-Funel , et al.
Applied and Environmental Microbiology, 2009, 75 (7), pp.2079-90
Journal articles inria-00392015v1

Oenococcus oeni genome plasticity associated with adaptation to wine, an extreme ecological niche

Elisabeth Bon , Arnaud Delaherche , Eric Bilhere , Cécile Miot-Sertier , Pascal Durrens , et al.
JOBIM-10èmes Journées Ouvertes en Biologie, Informatique et Mathématiques, Jun 2009, Nantes, France. pp.121-122
Conference papers inria-00392020v1