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MIA Paris

Publications de Julie Aubert

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ACL

Articles dans des revues internationales ou nationales avec comité de lecture répertoriées dans les bases de données

[2012, article | www]M.-A. Dillies, A. Rau, J. Aubert, C. Hennequet-Antier, M. Jeanmougin, N. Servant, C. Keime, G. Marot, D. Castel, J. Estelle, G. Guernec, B. Jagla, L. Jouneau, D. Laloe, C. Le Gall, B. Schaeffer, S. Le Crom, M. Guedj, and F. Jaffrezic, "A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis," Briefings in Bioinformatics, 2012.

[2012, article]M. Dalmasso, J. Aubert, V. Briard-Bion, V. Chuat, S.-M. Deutsch, S. Even, H. Falentin, G. Jan, J. Jardin, M.-B. Maillard, M. Parayre, M. Piot, J. Tanskanen, and A. Thierry, "A temporal -omic study of Propionibacterium freudenreichii CIRM-BIA1T adaptation strategies in conditions mimicking cheese ripening in the cold.," PLoS ONE, vol. 7, iss. 1, p. 29083, 2012.

[2012, article]M. Dalmasso, J. Aubert, S. Even, H. Falentin, M.-B. Maillard, M. Parayre, V. Loux, J. Tanskanen, and A. Thierry, "Propionibacterium freudenreichii accumulates intracellular glycogen and trehalose in conditions mimicking cheese ripening in the cold.," Applied and Environmental Microbiology, p. i, 2012.

[2012, article]A. Hébert, M.-P. Forquin-Gomez, A. Roux, J. Aubert, C. Junot, J.-F. Heilier, S. Landaud, P. Bonnarme, and J.-M. Beckerich, "Study of Yarrowia lipolytica reveals new insights into sulfur metabolism in yeasts," Applied and Environmental Microbiology, p. i, 2012.

[2011, article | www]M. Forquin, A. Hébert, A. Roux, J. Aubert, C. Proux, J. Heilier, S. Landaud, C. Junot, P. Bonnarme, and I. Martin-Verstraete, "Global regulation in response to sulfur availability in the cheese-related bacterium, Brevibacterium aurantiacum," Applied and Environmental Microbiology, vol. doi:10.1128/AEM.01708-10, 2011.

[2011, article | www]G. Chaouat, N. Rodde, M. Petitbarat, R. Bulla, M. Rahmati, S. Dubanchet, S. Zourbas, I. Bataillon, N. Coqué, B. Hennuy, J. Martal, C. Munaut, J. Aubert, V. Sérazin, T. Steffen, J. Jensenius, J. Foidart, O. Sandra, F. Tedesco, and N. Lédée, "An insight into normal and pathological pregnancies using large-scale microarrays: lessons from microarrays," Journal of Reproductive Immunology, vol. 89, iss. 2, pp. 163-72, 2011.

[2011, article | pdf]N. Lédée, C. Munaut, J. Aubert, V. Sérazin, M. Rahmati, G. Chaouat, O. Sandra, and J.-M. Foidart, "Specific and extensive endometrial deregulation is present before conception in IVF/ICSI repeated implantation failures (IF) or recurrent miscarriages," The Journal of Pathology, 2011.

[2011, article | pdf]A. Hébert, M.-P. Forquin-Gomez, A. Roux, J. Aubert, C. Junot, V. Loux, J.-F. Heilier, P. Bonnarme, J.-M. Beckerich, and S. Landaud, "Exploration of sulfur metabolism in the yeast Kluyveromyces lactis," Applied Microbiology and Biotechnology, vol. 91, pp. 1409-1423, 2011.

[2009, article | www]N. Mansouri-Attia, J. Aubert, P. Teinaud, C. Giraud-Delville, G. Tagouhti, L. Galio, R. E. Everts, S. Degrelle, C. Richard, I. Hue, X. Yang, C. Tian, H. A. Lewin, J.-P. Renard, and O. Sandra, "Gene expression profiles of bovine caruncular and intercaruncular endometrium at implantation," Physiological Genomics, vol. 39, pp. 14-27, 2009.

[2009, article | www]F. Faucon, E. Rebours, C. Bevilacqua, J.-C. Helbling, J. Aubert, S. Makhzami, S. Dhorne-Pollet, S. Robin, and P. Martin, "Terminal differentiation of goat mammary tissue during pregnancy requires the expression of genes involved in immune functions," Physiological Genomics, vol. 40, pp. 61-82, 2009.

[2009, article | www]N. Lédée, J. Aubert, B. Hennuy, C. Munaut, V. Sérazin, S. Petitbarat, S. Dubanchet, G. Chaouat, and O. Sandra, "The preconceptional endometrial environment affects both implantation and gestation in human," Journal of Reproductive Immunology, p. 119, 2009.

[2009, article | www]N. Mansouri-Attia, O. Sandra, J. Aubert, S. Degrelle, R. E. Everts, C. Giraud-Delville, Y. Heyman, L. Galio, I. Hue, X. Yang, C. X. Tian, H. A. Lewin, and J.-P. and Renard, "Endometrium as an early sensor of in vitro embryo manipulation technologies," PNAS, 2009.

[2008, article | www]M.-L. Martin-Magniette, J. Aubert, A. Bar-Hen, S. Elftieh, F. Magniette, J.-P. Renou, and J.-J. Daudin, "Normalization for triple-target microarray experiments," BMC BIOINFORMATICS, vol. 9, iss. 216, 2008.

[2008, article | www]T. Mary-Huard, J. Aubert, N. Mansouri-Attia, O. Sandra, and J.-J. Daudin, "Statistical methodology for the analysis of dye-switch microarray experiments," BMC Bioinformatics, vol. 9, iss. 98, 2008.

[2007, article | www]I. Frey, I. Rubio-Aliaga, A. Siewert, D. Sailer, A. Drobyshev, J. Beckers, M. Hrabe de Angelis, J. Aubert, A. Bar-Hen, O. Fiehn, H. Eichinger, and H. Daniel, "Profiling at mRNA, protein and metabolite level reveals alterations in renal amino acid handling and glutathione metabolism in kidney tissue of Pept2± mice," Physiological Genomics, vol. 28, iss. 3, pp. 301-310, 2007.

[2007, article | pdf]E. Aït Yahya-Graison, J. Aubert, L. Dauphinot, I. Rivals, M. Prieur, G. Golfier, J. Rossier, L. Personnaz, N. Créau, S. Robin, J. Delabar, and M.-C. Potier, "Classification of variations of HSA21 gene expression in Down syndrome lymphoblastoid cell lines: impact on disease phenotype," Amer. J. Human Genet., vol. 81, iss. 3, pp. 475-491, 2007.

[2005, article | www]M.-L. Martin-Magniette, J. Aubert, E. Cabannes, and J.-J. Daudin, "Answer to the comments of K. Dobbin, J. Shih and R. Simon on the paper `Evaluation of the gene-specific dye-bias in cDNA microarray experiments'," Bioinformatics, vol. 21, iss. 14, pp. 3065-3065, 2005.

[2005, article | www]M.-L. Martin-Magniette, J. Aubert, E. Cabannes, and J.-J. Daudin, "Evaluation of the gene-specific dye bias in cDNA microarray experiments," Bioinformatics, vol. 21, iss. 9, pp. 1995-2000, 2005.

[2004, article | www]J. Aubert, A. Bar-Hen, J.-J. Daudin, and S. Robin, "Determination of the differentially expressed genes in microarray experiments using local FDR," BMC BIOINFORMATICS, vol. 5, iss. 125, 2004.

ACT

Communications avec actes dans un congrès international ou national

[2008, inproceedings | pdf]O. Sandra, J. Mansouri N.and Aubert, P. Reinard, C. Giraud-Delville, L. Galio, S. Degrelle, I. Hue, Y. Heyman, R. Everts, C. Richard, D. Krauss, J. Yang, H. A. Lewin, and J. P. Renard, "Impact of the conceptus on the endometrial transcriptome at implantation in cattle," in Proc. 15emes Rencontres autour des recherches sur les ruminants, Paris, 2008, pp. 431-434.

[2008, inproceedings | pdf]J. Aubert, M. Martin-Magniette, A. Elftieh S. Bar-Hen, J. Renou, and J. Daudin, "Lowess extension to normalize three dyes cDNA microarray experiments." 2008.

AFF

Communications par affiche dans un congrès international ou national

[2011, inproceedings]J. Aubert and J.-D. Daudin, "On the use of the negative binomial regression model for comparing differential expression or abundance with NGS data." 2011.

[2007, inproceedings | www]J. J. Daudin, J. Aubert, N. Mansouri, G. Chaouat, O. Sandra, and N. Coqué, "Statistical analysis for identifying differentially expressed genes in microarrays data, an overview." 2007.

AP

Autres publications

[2008, techreport | www]F. Picard, M.-L. Martin-Magniette, S. Gagnot, V. Brunaud, J. Aubert, V. Gendrel, S. Robin, M. Caboche, A. Lecharny, and V. Colot, "MixThres: mixture models to define a hybridization threshold in DNA microarray experiments," SSB, 20, 2008.