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Journal articles56 documents

  • Noémie Mazaré, Marc Oudart, Julien Moulard, Giselle Cheung, Romain Tortuyaux, et al.. Local Translation in Perisynaptic Astrocytic Processes Is Specific and Changes after Fear Conditioning. Cell Reports, Elsevier Inc, 2020, 32, ⟨10.1016/j.celrep.2020.108076⟩. ⟨hal-03013688⟩
  • Aurélien Bataille, Pierre Galichon, Nadjim Chelghoum, Badreddine Mohand Oumoussa, Marie-Julia Ziliotis, et al.. Increased Fatty Acid Oxidation in Differentiated Proximal Tubular Cells Surviving a Reversible Episode of Acute Kidney Injury. Cellular Physiology and Biochemistry, Karger, 2018, 47 (4), pp.1338 - 1351. ⟨10.1159/000490819⟩. ⟨hal-02565135⟩
  • Médine Benchouaia, Hugues Ripoche, Mariam Sissoko, Antonin Thiebaut, Jawad Merhej, et al.. Comparative Transcriptomics Highlights New Features of the Iron Starvation Response in the Human Pathogen Candida glabrata. Frontiers in Microbiology, Frontiers Media, 2018, 9, pp.2689. ⟨10.3389/fmicb.2018.02689⟩. ⟨hal-01944268⟩
  • Arnaud Meng, Erwan Corre, Ian Probert, Andres Gutierrez-Rodriguez, Raffaele Siano, et al.. Analysis of the genomic basis of functional diversity in dinoflagellates using a transcriptome-based sequence similarity network.. Molecular Ecology, Wiley, 2018, 27 (10), pp.2365-2380. ⟨10.1111/mec.14579⟩. ⟨hal-02879300⟩
  • Arnaud Meng, Camille Marchet, Erwan Corre, Pierre Peterlongo, Adriana Alberti, et al.. A de novo approach to disentangle partner identity and function in holobiont systems. Microbiome, BioMed Central, 2018, pp.1-35. ⟨10.1101/221424⟩. ⟨hal-01643153v2⟩
  • Nika Abdollahi, Alexandre Albani, Eric Anthony, Agnes Baud, Mélissa Cardon, et al.. Meet-U: educating through research immersion. PLoS Computational Biology, Public Library of Science, 2018, 14 (3), pp.1-10. ⟨10.1371/journal.pcbi.1005992⟩. ⟨hal-01722019⟩
  • Stéphanie Chasseigneaux, Yasmine Moraca, Véronique Cochois-Guégan, Anne-Cécile Boulay, Alice Gilbert, et al.. Isolation and differential transcriptome of vascular smooth muscle cells and mid-capillary pericytes from the rat brain. Scientific Reports, Nature Publishing Group, 2018, 8, pp.12272. ⟨10.1038/s41598-018-30739-5⟩. ⟨hal-01868957⟩
  • Anne-Cécile Boulay, Alice Gilbert, Vanessa Oliveira Moreira, Corinne Blugeon, Sandrine Perrin, et al.. Connexin 43 Controls the Astrocyte Immunoregulatory Phenotype.. Brain Sciences, MDPI, 2018, 8 (4), ⟨10.3390/brainsci8040050⟩. ⟨hal-02879306⟩
  • Delphine Dardalhon-Cuménal, Jérôme Deraze, Camille Dupont, Valérie Ribeiro, Anne Coleno-Costes, et al.. Cyclin G and the Polycomb Repressive complexes PRC1 and PR-DUB cooperate for developmental stability. PLoS Genetics, Public Library of Science, 2018, 14(7) (e1007498), ⟨10.1371/journal.pgen.1007498⟩. ⟨hal-01921636⟩
  • Ivanova Christa, Ramoni Jonas, Thiziri Aouam, Frischmann Alexa, Bernhard Seiboth, et al.. Genome sequencing and transcriptome analysis of Trichoderma reesei QM9978 strain reveals a distal chromosome translocation to be responsible for loss of vib1 expression and loss of cellulase induction. Biotechnology for Biofuels, BioMed Central, 2017, 10, pp.209. ⟨10.1186/s13068-017-0897-7⟩. ⟨hal-01592860⟩
  • Hugo Botebol, Gaëlle Lelandais, Christophe Six, Emmanuel Lesuisse, Arnaud Meng, et al.. Acclimation of a low iron adapted Ostreococcus strain to iron limitation through cell biomass lowering. Scientific Reports, Nature Publishing Group, 2017, 7 (1), pp.327. ⟨10.1038/s41598-017-00216-6⟩. ⟨hal-01502140⟩
  • Anne-Cécile Boulay, Bruno Saubaméa, Nicolas Adam, Stéphanie Chasseigneaux, Noémie Mazaré, et al.. Translation in astrocyte distal processes sets molecular heterogeneity at the gliovascular interface. Cell Discovery, 2017, 3, pp.17005. ⟨10.1038/celldisc.2017.5⟩. ⟨hal-01545319⟩
  • Sandrine Perrin, Cyril Firmo, Sophie Lemoine, Stephane Le Crom, Laurent Jourdren. Aozan: an automated post-sequencing data-processing pipeline. Bioinformatics, 2017, pp.2212-2213. ⟨10.1093/bioinformatics/btx154⟩. ⟨hal-01545317⟩
  • Jawad Merhej, Antonin Thiebaut, Corinne Blugeon, Juliette Pouch, Mohammed El Amine Ali Chaouche, et al.. A Network of Paralogous Stress Response Transcription Factors in the Human Pathogen Candida glabrata. Frontiers in Microbiology, Frontiers Media, 2016, 7, pp.645. ⟨10.3389/fmicb.2016.00645⟩. ⟨hal-01323791⟩
  • Alexander Lichius, Frédérique Bidard, Franziska Buchholz, Stéphane Le Crom, Joel Martin, et al.. Genome sequencing of the Trichoderma reesei QM9136 mutant identifies a truncation of the transcriptional regulator XYR1 as the cause for its cellulase-negative phenotype. BMC Genomics, BioMed Central, 2015, 16 (1), pp.326. ⟨10.1186/s12864-015-1526-0⟩. ⟨hal-01149671⟩
  • Dante Poggi-Parodi, Frédérique Bidard, Aurélie Pirayre, Thomas Portnoy, Corinne Blugeon, et al.. Kinetic transcriptome analysis reveals an essentially intact induction system in a cellulase hyper-producer Trichoderma reesei strain. Biotechnology for Biofuels, BioMed Central, 2014, 7, pp.173. ⟨10.1186/s13068-014-0173-z⟩. ⟨hal-01112360⟩
  • Jawad Merhej, Amandine Frigo, Stéphane Le Crom, Jean-Michel Camadro, Frédéric Devaux, et al.. bPeaks: a bioinformatics tool to detect transcription factor binding sites from ChIPseq data in yeasts and other organisms with small genomes. Yeast, Wiley, 2014, 31 (10), pp.375-91. ⟨10.1002/yea.3031⟩. ⟨hal-01132624⟩
  • L. Moumne, K. Brami-Cherrier, S. Betuing, S. Le Crom, J. Girault, et al.. B16 Mitogen And Stress-activated Kinase-1 Deficiency And Transcriptional Dysregulation In Huntington’s Disease. Journal of Neurology, Neurosurgery and Psychiatry, BMJ Publishing Group, 2014, 85 (1), pp.A14. ⟨10.1136/jnnp-2014-309032.44⟩. ⟨hal-01541325⟩
  • Jawad Merhej, G. Lelandais, A. Frigo, S. Le Crom, J. -M. Camadro, et al.. bPeaks - a solution to perform ChIP-seq peak detection in yeast: application to the analyses of the evolution of the YAP family of stress response transcription factors in Candida glabrata. Yeast, Wiley, 2013, 30 (1), pp.186. ⟨hal-01528428⟩
  • Alaguraj Veluchamy, Xin Lin, Florian Maumus, Maximo Rivarola, Jaysheel Bhavsar, et al.. Insights into the role of DNA methylation in diatoms by genome-wide profiling in Phaeodactylum tricornutum. Nature Communications, Nature Publishing Group, 2013, 4, pp.2091. ⟨10.1038/ncomms3091⟩. ⟨hal-01545322⟩
  • Lea Atanasova, Stéphane Le Crom, Sabine Gruber, Fanny Coulpier, Verena Seidl-Seiboth, et al.. Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism.. BMC Genomics, BioMed Central, 2013, 14 (1), pp.121. ⟨10.1186/1471-2164-14-121⟩. ⟨inserm-00799174⟩
  • Laurent Jourdren, Maria Bernard, Marie-Agnès Dillies, Stéphane Le Crom. Eoulsan: a cloud computing-based framework facilitating high throughput sequencing analyses.. Bioinformatics, Oxford University Press (OUP), 2012, 28 (11), pp.1542-3. ⟨10.1093/bioinformatics/bts165⟩. ⟨hal-02879328⟩
  • Lara Moumne, Karen Brami-Cherrier, Sandrine Betuing, Elodie Martin, Stephane Le Crom, et al.. Mitogen and Stress-activated Kinase-1 deficiency and transcriptional dysregulation in Huntington's Disease. Human Gene Therapy, Mary Ann Liebert, 2012, 23 (10), pp.A72-A73. ⟨hal-01541335⟩
  • Sanjiveeni Dhamgaye, Maria Bernard, Gaëlle Lelandais, Odile Sismeiro, Sophie Lemoine, et al.. RNA sequencing revealed novel actors of the acquisition of drug resistance in Candida albicans.. BMC Genomics, BioMed Central, 2012, 13 (1), pp.396. ⟨10.1186/1471-2164-13-396⟩. ⟨inserm-00733893⟩
  • Marie-Agnès Dillies, Andrea Rau, Julie Aubert, Christelle Hennequet-Antier, Marine Jeanmougin, et al.. A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis. Briefings in Bioinformatics, Oxford University Press (OUP), 2012, 14 (6), pp.671-683. ⟨10.1093/bib/bbs046⟩. ⟨hal-00782486⟩
  • Anne Coleno-Costes, Suk Min Jang, Augustin Vanssay, Julien Rougeot, Tahar Bouceba, et al.. New Partners in Regulation of Gene Expression: The Enhancer of Trithorax and Polycomb Corto Interacts with Methylated Ribosomal Protein L12 Via Its Chromodomain. PLoS Genetics, Public Library of Science, 2012, 8 (10), pp.e1003006. ⟨10.1371/journal.pgen.1003006⟩. ⟨hal-01537175⟩
  • Corinne Blugeon, Stéphane Le Crom, Laurence Richard, Jean-Michel Vallat, Patrick Charnay, et al.. Dok4 is involved in Schwann cell myelination and axonal interaction in vitro.. Glia, Wiley, 2011, 59 (3), pp.351-62. ⟨10.1002/glia.21106⟩. ⟨hal-02879339⟩
  • Christian Kubicek, Alfredo Herrera-Estrella, Verena Seidl-Seiboth, Diego Martinez, Irina Druzhinina, et al.. Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma.. Genome Biology, BioMed Central, 2011, 12 (4), pp.R40. ⟨10.1186/gb-2011-12-4-r40⟩. ⟨hal-02879334⟩
  • Thomas Portnoy, Antoine Margeot, Verena Seidl-Seiboth, Stéphane Le Crom, Fadhel Ben Chaabane, et al.. Differential regulation of the cellulase transcription factors XYR1, ACE2, and ACE1 in Trichoderma reesei strains producing high and low levels of cellulase.. Eukaryotic Cell, American Society for Microbiology, 2011, 10 (2), pp.262-71. ⟨10.1128/EC.00208-10⟩. ⟨hal-02879336⟩
  • Thomas Portnoy, Antoine Margeot, Rita Linke, Lea Atanasova, Erzsébet Fekete, et al.. The CRE1 carbon catabolite repressor of the fungus Trichoderma reesei: a master regulator of carbon assimilation.. BMC Genomics, BioMed Central, 2011, 12 (1), pp.269. ⟨10.1186/1471-2164-12-269⟩. ⟨inserm-00663944⟩
  • Laurent Jourdren, Aurelie Duclos, Christian Brion, Thomas Portnoy, Hugues Mathis, et al.. Teolenn: an efficient and customizable workflow to design high-quality probes for microarray experiments.. Nucleic Acids Research, Oxford University Press, 2010, 38 (10), pp.e117. ⟨10.1093/nar/gkq110⟩. ⟨hal-02879340⟩
  • Stéphane Le Crom, Wendy Schackwitz, Len Pennacchio, Jon Magnuson, David Culley, et al.. Tracking the roots of cellulase hyperproduction by the fungus Trichoderma reesei using massively parallel DNA sequencing.. Proceedings of the National Academy of Sciences of the United States of America , National Academy of Sciences, 2009, 106 (38), pp.16151-6. ⟨10.1073/pnas.0905848106⟩. ⟨hal-02879345⟩
  • Fanny Coulpier, Stéphane Le Crom, Géraldine Maro, Jan Manent, Marco Giovannini, et al.. Novel features of boundary cap cells revealed by the analysis of newly identified molecular markers.. Glia, Wiley, 2009, 57 (13), pp.1450-7. ⟨10.1002/glia.20862⟩. ⟨hal-02879350⟩
  • Guillaume Sapriel, Michelle Quinet, Marc Heijde, Laurent Jourdren, Véronique Tanty, et al.. Genome-wide transcriptome analyses of silicon metabolism in Phaeodactylum tricornutum reveal the multilevel regulation of silicic acid transporters.. PLoS ONE, Public Library of Science, 2009, 4 (10), pp.e7458. ⟨10.1371/journal.pone.0007458⟩. ⟨hal-02879344⟩
  • Sophie Lemoine, Florence Combes, Stéphane Le Crom. An evaluation of custom microarray applications: the oligonucleotide design challenge.. Nucleic Acids Research, Oxford University Press, 2009, 37 (6), pp.1726-39. ⟨10.1093/nar/gkp053⟩. ⟨hal-02879348⟩
  • G. Golfier, Sophie Lemoine, A van Miltenberg, A Bendjoudi, J. Rossier, et al.. Selection of oligonucleotides for whole-genome microarrays with semi-automatic update.. Bioinformatics, Oxford University Press (OUP), 2009, 25 (1), pp.128-9. ⟨10.1093/bioinformatics/btn573⟩. ⟨hal-02879352⟩
  • Y. Saint-Georges, M. Garcia, T. Delaveau, Stéphane Le Crom, S. Lemoine, et al.. Yeast mitochondrial biogenesis : a role for the PUF RNA binding protein Puf3p in mRNA localization. PLoS ONE, Public Library of Science, 2008, pp.3(6) e2293. ⟨hal-00333137⟩
  • Patrick Pla, Marie-Rose Hirsch, Stéphane Le Crom, Simone Reiprich, Vincent Harley, et al.. Identification of Phox2b-regulated genes by expression profiling of cranial motoneuron precursors.. Neural Development, BioMed Central, 2008, 3, pp.14. ⟨10.1186/1749-8104-3-14⟩. ⟨hal-02879353⟩
  • Yann Saint-Georges, Mathilde Garcia, Thierry Delaveau, Laurent Jourdren, Stephane Le Crom, et al.. Yeast Mitochondrial Biogenesis: A Role for the PUF RNA-Binding Protein Puf3p in mRNA Localization. PLoS ONE, Public Library of Science, 2008, 3 (6), pp.e2293. ⟨10.1371/journal.pone.0002293⟩. ⟨hal-02098526⟩
  • V. Fardeau, G. Lelandais, A. Oldfield, H. Salin, S. Lemoine, et al.. The central role of PDR1 in the foundation of yeast drug resistance.. Journal of Biological Chemistry, American Society for Biochemistry and Molecular Biology, 2007, 282, pp.5063-5074. ⟨hal-00173044⟩
  • Yunhua Chang, Päivi Ostling, Malin Akerfelt, Diane Trouillet, Murielle Rallu, et al.. Role of heat-shock factor 2 in cerebral cortex formation and as a regulatorof p35 expression. Genes and Development, Cold Spring Harbor Laboratory Press, 2006, 20 (7), pp.836-847. ⟨10.1101/gad.366906⟩. ⟨hal-02930812⟩
  • Y. Chang, P. Ostling, M. Akerfelt, D. Trouillet, M. Rallu, et al.. Role of heat-shock factor 2 in cerebral cortex formation and as a regulator of p35 expression.. Genes and Development, Cold Spring Harbor Laboratory Press, 2006, 20, pp.836-847. ⟨hal-00091305⟩
  • Sophie Lemoine, Florence Combes, Nicolas Servant, Stéphane Le Crom. Goulphar: rapid access and expertise for standard two-color microarray normalization methods.. BMC Bioinformatics, BioMed Central, 2006, 7, pp.467. ⟨10.1186/1471-2105-7-467⟩. ⟨inserm-00122139⟩
  • Laurent Jourdren, Stéphane Le Crom. Doelan: a solution for quality control monitoring of microarray production.. Bioinformatics, Oxford University Press (OUP), 2005, 21 (22), pp.4194-5. ⟨10.1093/bioinformatics/bti686⟩. ⟨hal-02879358⟩
  • Stéphane Le Crom, Kim S Sugamori, Anita Sidhu, Hyman B Niznik, Philippe Vernier. Delineation of the conserved functional properties of D1A, D1B and D1C dopamine receptor subtypes in vertebrates.. Biology of the Cell, Wiley, 2004, 96 (5), pp.383-94. ⟨10.1016/j.biolcel.2004.03.002⟩. ⟨hal-00121753⟩
  • Gaëlle Lelandais, Stéphane Le Crom, Frédéric Devaux, Stéphane Vialette, George M. Church, et al.. yMGV: a cross-species expression data mining tool. Nucleic Acids Research, Oxford University Press, 2004, 32 (1), pp.D323-D325. ⟨hal-00619620⟩
  • Stéphane Le Crom, Marika Kapsimali, Pierre-Olivier Barôme, Philippe Vernier. Dopamine receptors for every species: gene duplications and functional diversification in Craniates.. J Struct Funct Genomics, 2003, 3 (1-4), pp.161-76. ⟨10.1023/A:1022686622752⟩. ⟨hal-00122153⟩
  • Sophie Callier, Marina Snapyan, Stéphane Le Crom, Delphine Prou, Jean-Didier Vincent, et al.. Evolution and cell biology of dopamine receptors in vertebrates.. Biology of the Cell, Wiley, 2003, 95 (7), pp.489-502. ⟨10.1016/S0248-4900(03)00089-3⟩. ⟨hal-00122156⟩
  • Stéphane Le Crom, Delphine Prou, Philippe Vernier. Autocrine activation of adenosine A1 receptors blocks D1A but not D1B dopamine receptor desensitization.. Journal of Neurochemistry, Wiley, 2002, 82 (6), pp.1549-52. ⟨10.1046/j.1471-4159.2002.01115.x⟩. ⟨hal-00122159⟩
  • Stéphane Le Crom, Frédéric Devaux, Claude Jacq, Philippe Marc. yMGV: helping biologists with yeast microarray data mining.. Nucleic Acids Research, Oxford University Press, 2002, 30 (1), pp.76-9. ⟨10.1093/nar/30.1.76⟩. ⟨hal-02879364⟩
  • Stéphane Le Crom, Frédéric Devaux, Philippe Marc, Xiaoting Zhang, W Scott Moye-Rowley, et al.. New insights into the pleiotropic drug resistance network from genome-wide characterization of the YRR1 transcription factor regulation system.. Molecular and Cellular Biology, American Society for Microbiology, 2002, 22 (8), pp.2642-9. ⟨10.1128/mcb.22.8.2642-2649.2002⟩. ⟨hal-02879362⟩
  • Zdena Palková, Frédéric Devaux, Markéta Icicová, Lucie Mináriková, Stéphane Le Crom, et al.. Ammonia pulses and metabolic oscillations guide yeast colony development.. Molecular Biology of the Cell, American Society for Cell Biology, 2002, 13 (11), pp.3901-14. ⟨10.1091/mbc.e01-12-0149⟩. ⟨hal-02879360⟩
  • Delphine Prou, W. J. Gu, Stéphane Le Crom, Jean-Didier Vincent, J. Salamero, et al.. Intracellular retention of the two isoforms of the D(2) dopamine receptor promotes endoplasmic reticulum disruption.. Journal of Cell Science, Company of Biologists, 2001, 114 (Pt 19), pp.3517-27. ⟨hal-00122165⟩
  • Stéphane Le Crom, Marika Kapsimali, Jean-Dider Vincent, Philippe Vernier. Emotions cerveau et dopamine : les leçons de l'histoire.. Revue du Palais de la Decouverte, 2000, 282, pp.74-85. ⟨hal-00122796⟩
  • Marika Kapsimali, Helene Dumond, Stéphane Le Crom, Sophie Coudouel, J. D. Vincent, et al.. Evolution and development of dopaminergic neurotransmitter systems in vertebrates.[Evolution et développment des systèmes de neurotransmission dopaminergiques chez les vertébrés].. Journal- Societe de Biologie, Paris : Société de biologie, 2000, 194 (2), pp.87-93. ⟨hal-00122175⟩
  • S. Ginés, J. Hillion, M. Torvinen, Stéphane Le Crom, V. Casadó, et al.. Dopamine D1 and adenosine A1 receptors form functionally interacting heteromeric complexes.. Proceedings of the National Academy of Sciences of the United States of America , National Academy of Sciences, 2000, 97 (15), pp.8606-11. ⟨10.1073/pnas.150241097⟩. ⟨hal-00122183⟩

Conference papers3 documents

  • Arnaud Meng, Erwan Corre, Pierre Peterlongo, Camille Marchet, Adriana Alberti, et al.. A transcriptomic approach to study marine plankton holobionts . International Conference on Holobionts, Apr 2017, Paris, France. ⟨hal-01575069⟩
  • Andrea Sartirana, Laurent Jourdren, Paulo Mora de Freitas, David Chamont, Philippe Busson, et al.. Eoulsan : analyse du séquençage à haut débit dans le cloud et sur la grille. Journées SUCCES 2013, Nov 2013, Paris, France. ⟨hal-00927507⟩
  • Julie Aubert, Marie-Agnes Dillies, Andrea Rau, Christelle Hennequet-Antier, Marine Jeanmougin, et al.. Comprehensive evaluation of normalization methods for High-throughput rnaSequencing Data analysis. 4 Workshop of StatSeq COST Action TD0801, Apr 2012, Vérone, Italy. ⟨hal-01661260⟩

Poster communications1 document

  • Dante Poggi-Parodi, Aurelie Pirayre, Thomas Portnoy, Hugues Mathis, Thiziri Aouam, et al.. The cellulase induction system in Trichoderma reesei strains remains well conserved despite several generations of random mutagenesis and screening. 16th European Congress on Biotechnology, Jul 2014, Edinburgh, United Kingdom. 31 (S), pp.S216, 2014, ⟨10.1016/j.nbt.2014.05.1006⟩. ⟨hal-01536636⟩

Book sections3 documents

  • Gaelle Lelandais, Stéphane Le Crom. Cross-Species Comparison Using Expression Data.. Introduction to Systems Biology, Humana Press, 2007, ⟨10.1007/978-1-59745-531-2⟩. ⟨hal-02900010⟩
  • Stéphane Le Crom, Marika Kapsimali, Pierre-Olivier Barôme, Philippe Vernier. Dopamine receptors for every species : Gene duplications and functional diversification in Craniates.. Genome Evolution: Gene and Genome Duplications and the Origin of Novel Gene Functions, Springer Netherlands, 2003, ⟨10.1007/978-94-010-0263-9⟩. ⟨hal-02900002⟩
  • Marika Kapsimali, Stéphane Le Crom, Philippe Vernier. A natural history of vertebrate dopamine receptors.. Anita Sidhu, Marc Laruelle, Philippe Vernier. Dopamine Receptors and Transporters, Marcel Dekker Inc, pp.1-45, 2003. ⟨hal-00122816⟩

Theses1 document

  • Stéphane Le Crom. Analyse comparée des récepteurs D1 de la dopamine chez les vertébrés : Définition des caractères fonctionnels spécifiques de chacun des sous-types du récepteur D1. Biologie cellulaire. Université Paris Sud - Paris XI, 2000. Français. ⟨tel-00009188⟩