• 2022
  Damien Mornico, Chung-Chau Hon, Mikael Koutero, Christian Weber, Jean-Yves Coppée, C Graham Clark, Marie-Agnes Dillies and Nancy Guillén, RNA Sequencing Reveals Widespread Transcription of Natural Antisense RNAs in Entamoeba Species, Microorganisms.
• 2021
  Tatfi M, Perthame E, Hillion KH, Dillies MA, Menager H, Hermine O, Suarez F, , Gene expression analysis in EBV-infected ataxia-telangiectasia cell lines by RNA-sequencing reveals protein synthesis defect and immune abnormalities., Orphanet J Rare Dis 2021 06; 16(1): 288.
• 2021
  Baillet N, Reynard S, Perthame E, Hortion J, Journeaux A, Mateo M, Carnec X, Schaeffer J, Picard C, Barrot L, Barron S, Vallve A, Duthey A, Jacquot F, Boehringer C, Jouvion G, Pietrosemoli N, Legendre R, Dillies MA, Allan R, Legras-Lachuer C, Carbonnelle C, Raoul H, Baize S, , Systemic viral spreading and defective host responses are associated with fatal Lassa fever in macaques., Commun Biol 2021 Jan; 4(1): 27.
• 2020
  Mornico D, Hon CC, Koutero M, Weber C, Coppee JY, Dillies MA, Guillen N, , Genomic determinants for initiation and length of natural antisense transcripts in Entamoeba histolytica., Sci Rep 2020 11; 10(1): 20190.
• 2019
  Mateo M, Reynard S, Carnec X, Journeaux A, Baillet N, Schaeffer J, Picard C, Legras-Lachuer C, Allan R, Perthame E, Hillion KH, Pietrosemoli N, Dillies MA, Barrot L, Vallve A, Barron S, Fellmann L, Gaillard JC, Armengaud J, Carbonnelle C, Raoul H, Tangy F, Baize S, , Vaccines inducing immunity to Lassa virus glycoprotein and nucleoprotein protect macaques after a single shot., Sci Transl Med 2019 10; 11(512): .
• 2019
  Angin M, Volant S, Passaes C, Lecuroux C, Monceaux V, Dillies MA, Valle-Casuso JC, Pancino G, Vaslin B, Le Grand R, Weiss L, Goujard C, Meyer L, Boufassa F, Müller-Trutwin M, Lambotte O, Sáez-Cirión A, , Metabolic plasticity of HIV-specific CD8+ T cells is associated with enhanced antiviral potential and natural control of HIV-1 infection., Nat Metab 2019 07; 1(7): 704-716.
• 2018
  Krin E, Pierlé SA, Sismeiro O, Jagla B, Dillies MA, Varet H, Irazoki O, Campoy S, Rouy Z, Cruveiller S, Médigue C, Coppée JY, Mazel D, Expansion of the SOS regulon of Vibrio cholerae through extensive transcriptome analysis and experimental validation, BMC Genomics 2018 May;19(1):373.
• 2017
  Julien Farasin, Sandrine Koechler, Hugo Varet, Julien Deschamps, Marie-Agnès Dillies, Caroline Proux, Mathieu Erhardt, Aline Huber, Bernd Jagla, Romain Briandet, Jean-Yves Coppée, Florence Arsène-Ploetze, Comparison of biofilm formation and motility processes in arsenic-resistant Thiomonas spp. strains revealed divergent response to arsenite, Microb Biotechnol. 2017 Feb 7. doi: 10.1111/1751-7915.12556.
• 2016
  Christian Weber, Mikael Koutero, Marie-Agnes Dillies, Hugo Varet, Cesar Lopez-Camarillo, Jean Yves Coppée, Chung-Chau Hon, Nancy Guillén, Extensive transcriptome analysis correlates the plasticity of Entamoeba histolytica pathogenesis to rapid phenotype changes depending on the environment, Sci Rep. 2016 Oct 21;6:35852. doi: 10.1038/srep35852..
• 2016
  Hourdel V, Volant S, O'Brien DP, Chenal A, Chamot-Rooke J, Dillies MA, Brier S, MEMHDX: an interactive tool to expedite the statistical validation and visualization of large HDX-MS datasets., Bioinformatics 2016 Nov; 32(22): 3413-3419.
• 2016
  Mouyna I, Aimanianda V, Hartl L, Prevost MC, Sismeiro O, Dillies MA, Jagla B, Legendre R, Coppée JY, Latgé JP, GH16 and GH81 family β-(1,3)-glucanases in Aspergillus fumigatus are essential for conidial cell wall morphogenesis, Cell Microbiol. 2016 Jun 15. doi: 10.1111/cmi.12630.
• 2016
  Hugo Varet, Loraine Brillet-Guéguen, Jean-Yves Coppée, Marie-Agnès Dillies, SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data, PLoS One. 2016 Jun 9;11(6):e0157022. doi: 10.1371/journal.pone.0157022. eCollection 2016.
• 2015
  Balloy V, Varet H, Dillies MA, Proux C, Jagla B, Coppée JY, Tabary O, Corvol H, Chignard M, Guillot L, Normal and Cystic Fibrosis Human Bronchial Epithelial Cells Infected with Pseudomonas aeruginosa Exhibit Distinct Gene Activation Patterns, PLoS ONE 2015;10(10):e0140979.
• 2015
  Lévi-Meyrueis C, Monteil V, Sismeiro O, Dillies MA, Kolb A, Monot M, Dupuy B, Duarte SS, Jagla B, Coppée JY, Beraud M, Norel F, Repressor activity of the RpoS/σS-dependent RNA polymerase requires DNA binding, Nucleic Acids Res. 2015 Feb;43(3):1456-68.
• 2014
  Almelli T, Nuel G, Bischoff E, Aubouy A, Elati M, Wang CW, Dillies MA, Coppée JY, Ayissi GN, Basco LK, Rogier C, Ndam NT, Deloron P, Tahar R, Differences in gene transcriptomic pattern of Plasmodium falciparum in children with cerebral malaria and asymptomatic carriers, PLoS ONE 2014;9(12):e114401.
• 2014
  Lévi-Meyrueis C, Monteil V, Sismeiro O, Dillies MA, Monot M, Jagla B, Coppée JY, Dupuy B, Norel F, Expanding the RpoS/σS-network by RNA sequencing and identification of σS-controlled small RNAs in Salmonella, PLoS ONE 2014;9(5):e96918.
• 2014
  Eshghi A, Becam J, Lambert A, Sismeiro O, Dillies MA, Jagla B, Wunder EA, Ko AI, Coppee JY, Goarant C, Picardeau M, A putative regulatory genetic locus modulates virulence in the pathogen Leptospira interrogans, Infect. Immun. 2014 Jun;82(6):2542-52.
• 2013
  Thibeaux R, Weber C, Hon CC, Dillies MA, Avé P, Coppée JY, Labruyère E, Guillén N, Identification of the virulence landscape essential for Entamoeba histolytica invasion of the human colon, PLoS Pathog. 2013;9(12):e1003824.
• 2013
  Pawlik A, Garnier G, Orgeur M, Tong P, Lohan A, Le Chevalier F, Sapriel G, Roux AL, Conlon K, Honoré N, Dillies MA, Ma L, Bouchier C, Coppée JY, Gaillard JL, Gordon SV, Loftus B, Brosch R, Herrmann JL, Identification and characterization of the genetic changes responsible for the characteristic smooth-to-rough morphotype alterations of clinically persistent Mycobacterium abscessus, Mol. Microbiol. 2013 Nov;90(3):612-29.
• 2013
  Quax TE, Voet M, Sismeiro O, Dillies MA, Jagla B, Coppée JY, Sezonov G, Forterre P, van der Oost J, Lavigne R, Prangishvili D, Massive activation of archaeal defense genes during viral infection, J. Virol. 2013 Aug;87(15):8419-28.
• 2013
  Komarova AV, Combredet C, Sismeiro O, Dillies MA, Jagla B, Sanchez David RY, Vabret N, Coppée JY, Vidalain PO, Tangy F, Identification of RNA partners of viral proteins in infected cells., RNA Biol 2013 Jun; 10(6): 944-56.
• 2013
  Hon CC, Weber C, Sismeiro O, Proux C, Koutero M, Deloger M, Das S, Agrahari M, Dillies MA, Jagla B, Coppee JY, Bhattacharya A, Guillen N, Quantification of stochastic noise of splicing and polyadenylation in Entamoeba histolytica, Nucleic Acids Res. 2013 Feb;41(3):1936-52.
• 2013
  Andres J, Arsène-Ploetze F, Barbe V, Brochier-Armanet C, Cleiss-Arnold J, Coppée JY, Dillies MA, Geist L, Joublin A, Koechler S, Lassalle F, Marchal M, Médigue C, Muller D, Nesme X, Plewniak F, Proux C, Ramírez-Bahena MH, Schenowitz C, Sismeiro O, Vallenet D, Santini JM, Bertin PN, Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium rhizobium sp. NT-26, Genome Biol Evol 2013;5(5):934-53.
• 2012
  Jourdren L, Bernard M, Dillies MA, Le Crom S, Eoulsan: a cloud computing-based framework facilitating high throughput sequencing analyses, Bioinformatics 2012 Jun;28(11):1542-3.
• 2012
  Santi-Rocca J, Smith S, Weber C, Pineda E, Hon CC, Saavedra E, Olivos-García A, Rousseau S, Dillies MA, Coppée JY, Guillén N, Endoplasmic reticulum stress-sensing mechanism is activated in Entamoeba histolytica upon treatment with nitric oxide, PLoS ONE 2012;7(2):e31777.
• 2010
  Cleiss-Arnold J, Koechler S, Proux C, Fardeau ML, Dillies MA, Coppee JY, Arsène-Ploetze F, Bertin PN, Temporal transcriptomic response during arsenic stress in Herminiimonas arsenicoxydans, BMC Genomics 2010;11:709.
• 2010
  Thiberge JM, Boursaux-Eude C, Lehours P, Dillies MA, Creno S, Coppée JY, Rouy Z, Lajus A, Ma L, Burucoa C, Ruskoné-Foumestraux A, Courillon-Mallet A, De Reuse H, Boneca IG, Lamarque D, Mégraud F, Delchier JC, Médigue C, Bouchier C, Labigne A, Raymond J, From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma, BMC Genomics 2010;11:368.
• 2010
  Thiberge JM1, Boursaux-Eude C, Lehours P, Dillies MA, Creno S, Coppée JY, Rouy Z, Lajus A, Ma L, Burucoa C, Ruskoné-Foumestraux A, Courillon-Mallet A, De Reuse H, Boneca IG, Lamarque D, Mégraud F, Delchier JC, Médigue C, Bouchier C, Labigne A, Raymond J., From array-based hybridization of Helicobacter pylori isolates to the complete genome sequence of an isolate associated with MALT lymphoma., BMC Genomics. 2010 Jun 10;11:368. doi: 10.1186/1471-2164-11-368..
• 2010
  Koechler S, Cleiss-Arnold J, Proux C, Sismeiro O, Dillies MA, Goulhen-Chollet F, Hommais F, Lièvremont D, Arsène-Ploetze F, Coppée JY, Bertin PN, Multiple controls affect arsenite oxidase gene expression in Herminiimonas arsenicoxydans, BMC Microbiol. 2010;10:53.
• 2009
  Steenkeste N, Dillies MA, Khim N, Sismeiro O, Chy S, Lim P, Crameri A, Bouchier C, Mercereau-Puijalon O, Beck HP, Imwong M, Dondorp AM, Socheat D, Rogier C, Coppée JY, Ariey F, FlexiChip package: an universal microarray with a dedicated analysis software for high-thoughput SNPs detection linked to anti-malarial drug resistance, Malar. J. 2009;8:229.
• 2009
  van Schaik W, Château A, Dillies MA, Coppée JY, Sonenshein AL, Fouet A, The global regulator CodY regulates toxin gene expression in Bacillus anthracis and is required for full virulence, Infect. Immun. 2009 Oct;77(10):4437-45.
• 2007
  Bruggemann H, Hagman, Sismeiro O, Dillies MA, Heuner K, Steinert M, Gouyette C, Coppee JY and Buchrieser C, Bringing the genome of Legionella pneumophila to life (book chapter), E d. N Cianciotto, ASM press Washington, D.C. .