Emmanuel Barillot

Valentina Boeva, Tatiana Popova, Kevin Bleakley, Pierre Chiche, Julie Cappo, Gudrun Schleiermacher, Isabelle Janoueix-Lerosey, Olivier Delattre, Emmanuel Barillot: Control-FREEC: a tool for assessing copy number and allelic content using next-generation sequencing data. Bioinformatics 28(3): 423-425 (2012)

Valentina Boeva, Alban Lermine, Camille Barette, Christel Guillouf, Emmanuel Barillot: Nebula - a web-server for advanced ChIP-seq data analysis. Bioinformatics 28(19): 2517-2519 (2012)

Nicolas Servant, Bryan R. Lajoie, Elphège P. Nora, Luca Giorgetti, Chong-Jian Chen, Edith Heard, Job Dekker, Emmanuel Barillot: HiTC: exploration of high-throughput 'C' experiments. Bioinformatics 28(21): 2843-2844 (2012)

Chong-Jian Chen, Nicolas Servant, Joern Toedling, Alexis Sarazin, Antonin Marchais, Evelyne Duvernois-Berthet, Valérie Cognat, Vincent Colot, Olivier Voinnet, Edith Heard, Constance Ciaudo, Emmanuel Barillot: ncPRO-seq: a tool for annotation and profiling of ncRNAs in sRNA-seq data. Bioinformatics 28(23): 3147-3149 (2012)

Loredana Martignetti, Andrei Zinovyev, Emmanuel Barillot: Identification of Shortened 3′ untranslated Regions from Expression Arrays. J. Bioinformatics and Computational Biology 10(2) (2012)

Valentina Boeva, Andrei Zinovyev, Kevin Bleakley, Jean-Philippe Vert, Isabelle Janoueix-Lerosey, Olivier Delattre, Emmanuel Barillot: Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization. Bioinformatics 27(2): 268-269 (2011)

Bruno Zeitouni, Valentina Boeva, Isabelle Janoueix-Lerosey, Sophie Loeillet, Patricia Legoix-né, Alain Nicolas, Olivier Delattre, Emmanuel Barillot: SVDetect: a tool to identify genomic structural variations from paired-end and mate-pair sequencing data. Bioinformatics 26(15): 1895-1896 (2010)

Joern Toedling, Constance Ciaudo, Olivier Voinnet, Edith Heard, Emmanuel Barillot: girafe - an R/Bioconductor package for functional exploration of aligned next-generation sequencing reads. Bioinformatics 26(22): 2902-2903 (2010)

Laurence Calzone, Laurent Tournier, Simon Fourquet, Denis Thieffry, Boris Zhivotovsky, Emmanuel Barillot, Andrei Zinovyev: Mathematical Modelling of Cell-Fate Decision in Response to Death Receptor Engagement. PLoS Computational Biology 6(3) (2010)

Sylvain Blachon, Gautier Stoll, Carito Guziolowski, Andrei Zinovyev, Emmanuel Barillot, Anne Siegel, Ovidiu Radulescu: Method for Relating Inter-patient Gene Copy Numbers Variations with Gene Expression via Gene Influence Networks. AIAI Workshops 2009: 72-87

Guillem Rigaill, Philippe Hupé, Anna Almeida, Philippe La Rosa, Jean-Philippe Meyniel, Charles Decraene, Emmanuel Barillot: ITALICS: an algorithm for normalization and DNA copy number calling for Affymetrix SNP arrays. Bioinformatics 24(6): 768-774 (2008)

Andrei Zinovyev, Eric Viara, Laurence Calzone, Emmanuel Barillot: BiNoM: a Cytoscape plugin for manipulating and analyzing biological networks. Bioinformatics 24(6): 876-877 (2008)

Franck Rapaport, Emmanuel Barillot, Jean-Philippe Vert: Classification of arrayCGH data using fused SVM. ISMB 2008: 375-382

Eugene Novikov, Emmanuel Barillot: Software package for automatic microarray image analysis (MAIA). Bioinformatics 23(5): 639-640 (2007)

Mohamed Elati, Pierre Neuvial, Monique Bolotin-Fukuhara, Emmanuel Barillot, François Radvanyi, Céline Rouveirol: LICORN: learning cooperative regulation networks from gene expression data. Bioinformatics 23(18): 2407-2414 (2007)

Franck Rapaport, Andrei Zinovyev, Marie Dutreix, Emmanuel Barillot, Jean-Philippe Vert: Classification of microarray data using gene networks. BMC Bioinformatics 8 (2007)

Céline Rouveirol, Nicolas Stransky, Philippe Hupé, Philippe La Rosa, Eric Viara, Emmanuel Barillot, François Radvanyi: Computation of recurrent minimal genomic alterations from array-CGH data. Bioinformatics 22(7): 849-856 (2006)

Philippe La Rosa, Eric Viara, Philippe Hupé, Gaëlle Pierron, Stéphane Liva, Pierre Neuvial, Isabel Brito, Séverine Lair, Nicolas Servant, Nicolas Robine, Elodie Manié, Caroline Brennetot, Isabelle Janoueix-Lerosey, Virginie Raynal, Nadège Gruel, Céline Rouveirol, Nicolas Stransky, Marc-Henri Stern, Olivier Delattre, Alain Aurias, François Radvanyi, Emmanuel Barillot: VAMP: Visualization and analysis of array-CGH, transcriptome and other molecular profiles. Bioinformatics 22(17): 2066-2073 (2006)

Pierre Neuvial, Philippe Hupé, Isabel Brito, Stéphane Liva, Elodie Manié, Caroline Brennetot, François Radvanyi, Alain Aurias, Emmanuel Barillot: Spatial normalization of array-CGH data. BMC Bioinformatics 7: 264 (2006)

Eugene Novikov, Emmanuel Barillot: A noise-resistant algorithm for grid finding in microarray image analysis. Mach. Vis. Appl. 17(5): 337-345 (2006)

Adil Elfilali, Séverine Lair, Catia Verbeke, Philippe La Rosa, François Radvanyi, Emmanuel Barillot: ITTACA: a new database for integrated tumor transcriptome array and clinical data analysis. Nucleic Acids Research 34(Database-Issue): 613-616 (2006)

Stéphane Liva, Philippe Hupé, Pierre Neuvial, Isabel Brito, Eric Viara, Philippe La Rosa, Emmanuel Barillot: CAPweb: a bioinformatics CGH array Analysis Platform. Nucleic Acids Research 34(Web-Server-Issue): 477-481 (2006)

Eugene Novikov, Emmanuel Barillot: An algorithm for automatic evaluation of the spot quality in two-color DNA microarray experiments. BMC Bioinformatics 6: 293 (2005)

Eugene Novikov, Emmanuel Barillot: A Robust Algorithm for Ratio Estimation in Two-color Microarray Experiments. J. Bioinformatics and Computational Biology 3(6): 1411-1428 (2005)

Philippe Hupé, Nicolas Stransky, Jean-Paul Thiery, François Radvanyi, Emmanuel Barillot: Analysis of array CGH data: from signal ratio to gain and loss of DNA regions. Bioinformatics 20(18): 3413-3422 (2004)

Sarah Cohen Boulakia, Séverine Lair, Nicolas Stransky, Stéphane Graziani, François Radvanyi, Emmanuel Barillot, Christine Froidevaux: Selecting biomedical data sources according to user preferences. ISMB/ECCB (Supplement of Bioinformatics) 2004: 86-93

Emmanuelle Karsenty, Emmanuel Barillot, Gwenola Tosser-Klopp, Yvette Lahbib-Mansais, Denis Milan, Francois Hatey, Susanna Cirera, Milena Sawera, Claus B. Jørgensen, Bhanu Chowdhary, Merete Fredholm, Klaus Wimmers, Siriluck Ponsuksili, Roberta Davoli, Luca Fontanesi, Silvia Braglia, Paolo Zambonelli, Daniele Bigi, Stefan Neuenschwander, Joël Gellin: The GENETPIG database: a tool for comparative mapping in pig (Sus scrofa). Nucleic Acids Research 31(1): 138-141 (2003)

Delphine Samson, Fabrice Legeai, Emmanuelle Karsenty, Sébastien Reboux, Jean-Baptiste Veyrieras, Jeremy Just, Emmanuel Barillot: GénoPlante-Info (GPI): a collection of databases and bioinformatics resources for plant genomics. Nucleic Acids Research 31(1): 179-182 (2003)

Eric Viara, Guy Vaysseix, Emmanuel Barillot: Distributing CORBA views from an OODBMS. IDEAS 2002: 116-129

Frédéric Achard, Guy Vaysseix, Emmanuel Barillot: XML, bioinformatics and data integration. Bioinformatics 17(1): 115-125 (2001)

Frédéric Tores, Emmanuel Barillot: The art of pedigree drawing: algorithmic aspects. Bioinformatics 17(1): 174-179 (2001)

Claude Discala, Xavier Benigni, Emmanuel Barillot, Guy Vaysseix: DBcat: a catalog of 500 biological databases. Nucleic Acids Research 28(1): 8-9 (2000)

Stuart Pook, Eric Lecolinet, Guy Vaysseix, Emmanuel Barillot: Context and Interaction in Zooable User Interfaces. Advanced Visual Interfaces 2000: 227-231

Emmanuel Barillot, Ulf Leser, Philip Lijnzaad, Christophe Cussat-Blanc, Kim Jungfer, Frédéric Guyon, Guy Vaysseix, Carsten Helgesen, Patricia Rodriguez-Tomé: A proposal for a standard CORBA interface for genome maps. Bioinformatics 15(2): 157-169 (1999)

L. Brun-Samarcq, Sophie Gallina, A. Philippi, F. Demenais, Guy Vaysseix, Emmanuel Barillot: CoPE: a collaborative pedigree drawing environment. Bioinformatics 15(4): 345-346 (1999)

Claude Discala, Marion Ninnin, Frédéric Achard, Emmanuel Barillot, Guy Vaysseix: DBcat: a catalog of biological databases. Nucleic Acids Research 27(1): 10-11 (1999)

Frédéric Achard, Guy Vaysseix, Philippe Dessen, Emmanuel Barillot: Virgil database for rich links (1999 update). Nucleic Acids Research 27(1): 113-114 (1999)

Emmanuel Barillot, Stuart Pook, Frédéric Guyon, Christophe Cussat-Blanc, Eric Viara, Guy Vaysseix: The HuGeMap Database: interconnection and visualization of human genome maps. Nucleic Acids Research 27(1): 119-122 (1999)

Eric Viara, Emmanuel Barillot, Guy Vaysseix: The EyeDB OODBMS. IDEAS 1999: 390-402

Frédéric Achard, Christophe Cussat-Blanc, Eric Viara, Emmanuel Barillot: The new Virgil database: a service of rich links. Bioinformatics 14(4): 342-348 (1998)

Stuart Pook, Guy Vaysseix, Emmanuel Barillot: Zomit: biological data visualization and browsing. Bioinformatics 14(9): 807-814 (1998)

Frédéric Achard, Emmanuel Barillot: Virgil: a database of rich links between GDB and GenBank. Nucleic Acids Research 26(1): 100-101 (1998)

Emmanuel Barillot, Frédéric Guyon, Christophe Cussat-Blanc, Eric Viara, Guy Vaysseix: HuGeMap: a distributed and integrated Human Genome Map database. Nucleic Acids Research 26(1): 106-107 (1998)