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Best matches for Coppée J[au]:

SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data. Varet H et al. PLoS One. (2016)

A role for SIRT2-dependent histone H3K18 deacetylation in bacterial infection. Eskandarian HA et al. Science. (2013)

On the origin of leprosy. Monot M et al. Science. (2005)

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Items: 1 to 50 of 102


Transcriptional profiling of a laboratory and clinical Mycobacterium tuberculosis strain suggests respiratory poisoning upon exposure to delamanid.

Van den Bossche A, Varet H, Sury A, Sismeiro O, Legendre R, Coppee JY, Mathys V, Ceyssens PJ.

Tuberculosis (Edinb). 2019 Jul;117:18-23. doi: 10.1016/ Epub 2019 May 15.


checkMyIndex: a web-based R/Shiny interface for choosing compatible sequencing indexes.

Varet H, Coppée JY.

Bioinformatics. 2019 Mar 1;35(5):901-902. doi: 10.1093/bioinformatics/bty706.


Enteric bacteria boost defences against oxidative stress in Entamoeba histolytica.

Varet H, Shaulov Y, Sismeiro O, Trebicz-Geffen M, Legendre R, Coppée JY, Ankri S, Guillen N.

Sci Rep. 2018 Jun 13;8(1):9042. doi: 10.1038/s41598-018-27086-w.


Enzymatic synthesis of random sequences of RNA and RNA analogues by DNA polymerase theta mutants for the generation of aptamer libraries.

Randrianjatovo-Gbalou I, Rosario S, Sismeiro O, Varet H, Legendre R, Coppée JY, Huteau V, Pochet S, Delarue M.

Nucleic Acids Res. 2018 Jul 6;46(12):6271-6284. doi: 10.1093/nar/gky413.


Expansion of the SOS regulon of Vibrio cholerae through extensive transcriptome analysis and experimental validation.

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.

BMC Genomics. 2018 May 21;19(1):373. doi: 10.1186/s12864-018-4716-8.


Role of Hydrophobins in Aspergillus fumigatus.

Valsecchi I, Dupres V, Stephen-Victor E, Guijarro JI, Gibbons J, Beau R, Bayry J, Coppee JY, Lafont F, Latgé JP, Beauvais A.

J Fungi (Basel). 2017 Dec 24;4(1). pii: E2. doi: 10.3390/jof4010002.


An ApiAP2 member regulates expression of clonally variant genes of the human malaria parasite Plasmodium falciparum.

Martins RM, Macpherson CR, Claes A, Scheidig-Benatar C, Sakamoto H, Yam XY, Preiser P, Goel S, Wahlgren M, Sismeiro O, Coppée JY, Scherf A.

Sci Rep. 2017 Oct 25;7(1):14042. doi: 10.1038/s41598-017-12578-y.


Rae1/YacP, a new endoribonuclease involved in ribosome-dependent mRNA decay in Bacillus subtilis.

Leroy M, Piton J, Gilet L, Pellegrini O, Proux C, Coppée JY, Figaro S, Condon C.

EMBO J. 2017 May 2;36(9):1167-1181. doi: 10.15252/embj.201796540. Epub 2017 Mar 31.


The Legionella pneumophila genome evolved to accommodate multiple regulatory mechanisms controlled by the CsrA-system.

Sahr T, Rusniok C, Impens F, Oliva G, Sismeiro O, Coppée JY, Buchrieser C.

PLoS Genet. 2017 Feb 17;13(2):e1006629. doi: 10.1371/journal.pgen.1006629. eCollection 2017 Feb.


Comparison of biofilm formation and motility processes in arsenic-resistant Thiomonas spp. strains revealed divergent response to arsenite.

Farasin J, Koechler S, Varet H, Deschamps J, Dillies MA, Proux C, Erhardt M, Huber A, Jagla B, Briandet R, Coppée JY, Arsène-Ploetze F.

Microb Biotechnol. 2017 Jul;10(4):789-803. doi: 10.1111/1751-7915.12556. Epub 2017 Feb 7.


Genome-Wide Transcriptional Start Site Mapping and sRNA Identification in the Pathogen Leptospira interrogans.

Zhukova A, Fernandes LG, Hugon P, Pappas CJ, Sismeiro O, Coppée JY, Becavin C, Malabat C, Eshghi A, Zhang JJ, Yang FX, Picardeau M.

Front Cell Infect Microbiol. 2017 Jan 19;7:10. doi: 10.3389/fcimb.2017.00010. eCollection 2017.


Extensive transcriptome analysis correlates the plasticity of Entamoeba histolytica pathogenesis to rapid phenotype changes depending on the environment.

Weber C, Koutero M, Dillies MA, Varet H, Lopez-Camarillo C, Coppée JY, Hon CC, Guillén N.

Sci Rep. 2016 Oct 21;6:35852. doi: 10.1038/srep35852.


Intron retention-dependent gene regulation in Cryptococcus neoformans.

Gonzalez-Hilarion S, Paulet D, Lee KT, Hon CC, Lechat P, Mogensen E, Moyrand F, Proux C, Barboux R, Bussotti G, Hwang J, Coppée JY, Bahn YS, Janbon G.

Sci Rep. 2016 Aug 31;6:32252. doi: 10.1038/srep32252.


GH16 and GH81 family β-(1,3)-glucanases in Aspergillus fumigatus are essential for conidial cell wall morphogenesis.

Mouyna I, Aimanianda V, Hartl L, Prevost MC, Sismeiro O, Dillies MA, Jagla B, Legendre R, Coppee JY, Latgé JP.

Cell Microbiol. 2016 Sep;18(9):1285-93. doi: 10.1111/cmi.12630. Epub 2016 Jul 12.


SARTools: A DESeq2- and EdgeR-Based R Pipeline for Comprehensive Differential Analysis of RNA-Seq Data.

Varet H, Brillet-Guéguen L, Coppée JY, Dillies MA.

PLoS One. 2016 Jun 9;11(6):e0157022. doi: 10.1371/journal.pone.0157022. eCollection 2016.


Comparative analysis of viral RNA signatures on different RIG-I-like receptors.

Sanchez David RY, Combredet C, Sismeiro O, Dillies MA, Jagla B, Coppée JY, Mura M, Guerbois Galla M, Despres P, Tangy F, Komarova AV.

Elife. 2016 Mar 24;5:e11275. doi: 10.7554/eLife.11275.


Role of the BAHD1 Chromatin-Repressive Complex in Placental Development and Regulation of Steroid Metabolism.

Lakisic G, Lebreton A, Pourpre R, Wendling O, Libertini E, Radford EJ, Le Guillou M, Champy MF, Wattenhofer-Donzé M, Soubigou G, Ait-Si-Ali S, Feunteun J, Sorg T, Coppée JY, Ferguson-Smith AC, Cossart P, Bierne H.

PLoS Genet. 2016 Mar 3;12(3):e1005898. doi: 10.1371/journal.pgen.1005898. eCollection 2016 Mar.


RNase J depletion leads to massive changes in mRNA abundance in Helicobacter pylori.

Redko Y, Galtier E, Arnion H, Darfeuille F, Sismeiro O, Coppée JY, Médigue C, Weiman M, Cruveiller S, De Reuse H.

RNA Biol. 2016;13(2):243-53. doi: 10.1080/15476286.2015.1132141.


Overexpression of the Heterochromatinization Factor BAHD1 in HEK293 Cells Differentially Reshapes the DNA Methylome on Autosomes and X Chromosome.

Libertini E, Lebreton A, Lakisic G, Dillies MA, Beck S, Coppée JY, Cossart P, Bierne H.

Front Genet. 2015 Dec 1;6:339. doi: 10.3389/fgene.2015.00339. eCollection 2015.


Normal and Cystic Fibrosis Human Bronchial Epithelial Cells Infected with Pseudomonas aeruginosa Exhibit Distinct Gene Activation Patterns.

Balloy V, Varet H, Dillies MA, Proux C, Jagla B, Coppée JY, Tabary O, Corvol H, Chignard M, Guillot L.

PLoS One. 2015 Oct 20;10(10):e0140979. doi: 10.1371/journal.pone.0140979. eCollection 2015.


Adaptation in Toxic Environments: Arsenic Genomic Islands in the Bacterial Genus Thiomonas.

Freel KC, Krueger MC, Farasin J, Brochier-Armanet C, Barbe V, Andrès J, Cholley PE, Dillies MA, Jagla B, Koechler S, Leva Y, Magdelenat G, Plewniak F, Proux C, Coppée JY, Bertin PN, Heipieper HJ, Arsène-Ploetze F.

PLoS One. 2015 Sep 30;10(9):e0139011. doi: 10.1371/journal.pone.0139011. eCollection 2015.


The PfAlba1 RNA-binding protein is an important regulator of translational timing in Plasmodium falciparum blood stages.

Vembar SS, Macpherson CR, Sismeiro O, Coppée JY, Scherf A.

Genome Biol. 2015 Sep 28;16:212. doi: 10.1186/s13059-015-0771-5.


Small RNA Deep-Sequencing Analyses Reveal a New Regulator of Virulence in Agrobacterium fabrum C58.

Dequivre M, Diel B, Villard C, Sismeiro O, Durot M, Coppée JY, Nesme X, Vial L, Hommais F.

Mol Plant Microbe Interact. 2015 May;28(5):580-9. doi: 10.1094/MPMI-12-14-0380-FI.


Repressor activity of the RpoS/σS-dependent RNA polymerase requires DNA binding.

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.

Nucleic Acids Res. 2015 Feb 18;43(3):1456-68. doi: 10.1093/nar/gku1379. Epub 2015 Jan 10.


Differences in gene transcriptomic pattern of Plasmodium falciparum in children with cerebral malaria and asymptomatic carriers.

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.

PLoS One. 2014 Dec 5;9(12):e114401. doi: 10.1371/journal.pone.0114401. eCollection 2014.


Expanding the RpoS/σS-network by RNA sequencing and identification of σS-controlled small RNAs in Salmonella.

Lévi-Meyrueis C, Monteil V, Sismeiro O, Dillies MA, Monot M, Jagla B, Coppée JY, Dupuy B, Norel F.

PLoS One. 2014 May 8;9(5):e96918. doi: 10.1371/journal.pone.0096918. eCollection 2014.


Analysis of the genome and transcriptome of Cryptococcus neoformans var. grubii reveals complex RNA expression and microevolution leading to virulence attenuation.

Janbon G, Ormerod KL, Paulet D, Byrnes EJ 3rd, Yadav V, Chatterjee G, Mullapudi N, Hon CC, Billmyre RB, Brunel F, Bahn YS, Chen W, Chen Y, Chow EW, Coppée JY, Floyd-Averette A, Gaillardin C, Gerik KJ, Goldberg J, Gonzalez-Hilarion S, Gujja S, Hamlin JL, Hsueh YP, Ianiri G, Jones S, Kodira CD, Kozubowski L, Lam W, Marra M, Mesner LD, Mieczkowski PA, Moyrand F, Nielsen K, Proux C, Rossignol T, Schein JE, Sun S, Wollschlaeger C, Wood IA, Zeng Q, Neuvéglise C, Newlon CS, Perfect JR, Lodge JK, Idnurm A, Stajich JE, Kronstad JW, Sanyal K, Heitman J, Fraser JA, Cuomo CA, Dietrich FS.

PLoS Genet. 2014 Apr 17;10(4):e1004261. doi: 10.1371/journal.pgen.1004261. eCollection 2014 Apr.


Identified members of the Streptomyces lividans AdpA regulon involved in differentiation and secondary metabolism.

Guyet A, Benaroudj N, Proux C, Gominet M, Coppée JY, Mazodier P.

BMC Microbiol. 2014 Apr 3;14:81. doi: 10.1186/1471-2180-14-81.


A putative regulatory genetic locus modulates virulence in the pathogen Leptospira interrogans.

Eshghi A, Becam J, Lambert A, Sismeiro O, Dillies MA, Jagla B, Wunder EA Jr, Ko AI, Coppee JY, Goarant C, Picardeau M.

Infect Immun. 2014 Jun;82(6):2542-52. doi: 10.1128/IAI.01803-14. Epub 2014 Mar 31.


Extracellular adenosine triphosphate affects the response of human macrophages infected with Mycobacterium tuberculosis.

Dubois-Colas N, Petit-Jentreau L, Barreiro LB, Durand S, Soubigou G, Lecointe C, Klibi J, Rezaï K, Lokiec F, Coppée JY, Gicquel B, Tailleux L.

J Infect Dis. 2014 Sep 1;210(5):824-33. doi: 10.1093/infdis/jiu135. Epub 2014 Mar 5.


Strand-specific RNA-Seq reveals widespread and developmentally regulated transcription of natural antisense transcripts in Plasmodium falciparum.

Siegel TN, Hon CC, Zhang Q, Lopez-Rubio JJ, Scheidig-Benatar C, Martins RM, Sismeiro O, Coppée JY, Scherf A.

BMC Genomics. 2014 Feb 22;15:150. doi: 10.1186/1471-2164-15-150.


Identification of the virulence landscape essential for Entamoeba histolytica invasion of the human colon.

Thibeaux R, Weber C, Hon CC, Dillies MA, Avé P, Coppée JY, Labruyère E, Guillén N.

PLoS Pathog. 2013;9(12):e1003824. doi: 10.1371/journal.ppat.1003824. Epub 2013 Dec 19.


Induction of the Cpx envelope stress pathway contributes to Escherichia coli tolerance to antimicrobial peptides.

Audrain B, Ferrières L, Zairi A, Soubigou G, Dobson C, Coppée JY, Beloin C, Ghigo JM.

Appl Environ Microbiol. 2013 Dec;79(24):7770-9. doi: 10.1128/AEM.02593-13. Epub 2013 Oct 4.


Identification and characterization of the genetic changes responsible for the characteristic smooth-to-rough morphotype alterations of clinically persistent Mycobacterium abscessus.

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.

Mol Microbiol. 2013 Nov;90(3):612-29. doi: 10.1111/mmi.12387. Epub 2013 Sep 17.


A role for SIRT2-dependent histone H3K18 deacetylation in bacterial infection.

Eskandarian HA, Impens F, Nahori MA, Soubigou G, Coppée JY, Cossart P, Hamon MA.

Science. 2013 Aug 2;341(6145):1238858. doi: 10.1126/science.1238858.


Massive activation of archaeal defense genes during viral infection.

Quax TE, Voet M, Sismeiro O, Dillies MA, Jagla B, Coppée JY, Sezonov G, Forterre P, van der Oost J, Lavigne R, Prangishvili D.

J Virol. 2013 Aug;87(15):8419-28. doi: 10.1128/JVI.01020-13. Epub 2013 May 22.


Genome-wide identification of regulatory RNAs in the human pathogen Clostridium difficile.

Soutourina OA, Monot M, Boudry P, Saujet L, Pichon C, Sismeiro O, Semenova E, Severinov K, Le Bouguenec C, Coppée JY, Dupuy B, Martin-Verstraete I.

PLoS Genet. 2013 May;9(5):e1003493. doi: 10.1371/journal.pgen.1003493. Epub 2013 May 9.


Identification of RNA partners of viral proteins in infected cells.

Komarova AV, Combredet C, Sismeiro O, Dillies MA, Jagla B, Sanchez David RY, Vabret N, Coppée JY, Vidalain PO, Tangy F.

RNA Biol. 2013 Jun;10(6):944-56. doi: 10.4161/rna.24453. Epub 2013 Apr 1.


Life in an arsenic-containing gold mine: genome and physiology of the autotrophic arsenite-oxidizing bacterium rhizobium sp. NT-26.

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.

Genome Biol Evol. 2013;5(5):934-53. doi: 10.1093/gbe/evt061.


Starvation, together with the SOS response, mediates high biofilm-specific tolerance to the fluoroquinolone ofloxacin.

Bernier SP, Lebeaux D, DeFrancesco AS, Valomon A, Soubigou G, Coppée JY, Ghigo JM, Beloin C.

PLoS Genet. 2013;9(1):e1003144. doi: 10.1371/journal.pgen.1003144. Epub 2013 Jan 3.


Distinct transcriptional signatures of bone marrow-derived C57BL/6 and DBA/2 dendritic leucocytes hosting live Leishmania amazonensis amastigotes.

Giraud E, Lecoeur H, Soubigou G, Coppée JY, Milon G, Prina E, Lang T.

PLoS Negl Trop Dis. 2012;6(12):e1980. doi: 10.1371/journal.pntd.0001980. Epub 2012 Dec 13.


Quantification of stochastic noise of splicing and polyadenylation in Entamoeba histolytica.

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.

Nucleic Acids Res. 2013 Feb 1;41(3):1936-52. doi: 10.1093/nar/gks1271. Epub 2012 Dec 20.


Dicer-2- and Piwi-mediated RNA interference in Rift Valley fever virus-infected mosquito cells.

Léger P, Lara E, Jagla B, Sismeiro O, Mansuroglu Z, Coppée JY, Bonnefoy E, Bouloy M.

J Virol. 2013 Feb;87(3):1631-48. doi: 10.1128/JVI.02795-12. Epub 2012 Nov 21.


RNA sequencing revealed novel actors of the acquisition of drug resistance in Candida albicans.

Dhamgaye S, Bernard M, Lelandais G, Sismeiro O, Lemoine S, Coppée JY, Le Crom S, Prasad R, Devaux F.

BMC Genomics. 2012 Aug 16;13:396.


Deep sequencing defines the transcriptional map of L. pneumophila and identifies growth phase-dependent regulated ncRNAs implicated in virulence.

Sahr T, Rusniok C, Dervins-Ravault D, Sismeiro O, Coppee JY, Buchrieser C.

RNA Biol. 2012 Apr;9(4):503-19. doi: 10.4161/rna.20270. Epub 2012 Apr 1.


Human cryptochrome-1 confers light independent biological activity in transgenic Drosophila correlated with flavin radical stability.

Vieira J, Jones AR, Danon A, Sakuma M, Hoang N, Robles D, Tait S, Heyes DJ, Picot M, Yoshii T, Helfrich-Förster C, Soubigou G, Coppee JY, Klarsfeld A, Rouyer F, Scrutton NS, Ahmad M.

PLoS One. 2012;7(3):e31867. doi: 10.1371/journal.pone.0031867. Epub 2012 Mar 12.


Endoplasmic reticulum stress-sensing mechanism is activated in Entamoeba histolytica upon treatment with nitric oxide.

Santi-Rocca J, Smith S, Weber C, Pineda E, Hon CC, Saavedra E, Olivos-García A, Rousseau S, Dillies MA, Coppée JY, Guillén N.

PLoS One. 2012;7(2):e31777. doi: 10.1371/journal.pone.0031777. Epub 2012 Feb 24.


Myf5 haploinsufficiency reveals distinct cell fate potentials for adult skeletal muscle stem cells.

Gayraud-Morel B, Chrétien F, Jory A, Sambasivan R, Negroni E, Flamant P, Soubigou G, Coppée JY, Di Santo J, Cumano A, Mouly V, Tajbakhsh S.

J Cell Sci. 2012 Apr 1;125(Pt 7):1738-49. doi: 10.1242/jcs.097006. Epub 2012 Feb 24. Erratum in: J Cell Sci. 2012 Dec 15;125(Pt 24):6198.


Naive and primed murine pluripotent stem cells have distinct miRNA expression profiles.

Jouneau A, Ciaudo C, Sismeiro O, Brochard V, Jouneau L, Vandormael-Pournin S, Coppée JY, Zhou Q, Heard E, Antoniewski C, Cohen-Tannoudji M.

RNA. 2012 Feb;18(2):253-64. doi: 10.1261/rna.028878.111. Epub 2011 Dec 27.


Extending KNIME for next-generation sequencing data analysis.

Jagla B, Wiswedel B, Coppée JY.

Bioinformatics. 2011 Oct 15;27(20):2907-9. doi: 10.1093/bioinformatics/btr478. Epub 2011 Aug 27.


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