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Genomic of integrated systems
Recent publications
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Giraud, C., Bernard, C.S, Calderon, V, Yang, L, Filloux, A, Molin, S, Fichant, G, Bordi, C and de Bentzmann, S. (2011). The PprA-PprB two-component system activates CupE, the first non-archetypal Pseudomonas aeruginosa chaperone-usher pathway system assembling fimbriae. Environ Microbiol, 13, 666-683. |
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Clouet-d'Orval, B., Rinaldi, D, Quentin, Y and Carpousis, A.J. (2010). Euryarchaeal beta-CASP proteins with homology to bacterial RNase J Have 5'- to 3'-exoribonuclease activity.J BiolChem, 285, 17574-17583. |
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O'Donohue, M., Choesmel, V, Faubladier, M, Fichant, G and Gleizes, P. (2010).Functional dichotomy of ribosomal proteins during the synthesis of mammalian 40S ribosomal subunits.J Cell Biol, 190, 853-866. |
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Boyer F, Fichant G, Berthod J, Vandenbrouck Y, Attree I. (2009) Dissecting the bacterial type VI secretion system by a genome wide in silico analysis: what can be learnt from available microbial genomic resources? BMC Genomics. 2009 Mar 12;10(1):104. [Epub ahead of print] |
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Aerts, S., Vilain, S., Hu, S., Tranchevent, L.-C., Barriot, R., Yan, J., Moreau, Y., Hassan, B., Quan, X.-J. (2009) Integrating Computational Biology and Forward Genetics in Drosophila, PLoS Genetics, Vol. 5, No. 1, e1000351 |
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Tranchevent*, L.-C., Barriot*, R., Shi, Y., Van Loo, P., De Moor, B., Aerts, S., Moreau, Y. (2008) Endeavour update: a web resource for gene prioritization in multiple species. Nucleic Acids Research WebServer Issue, Vol. 36, No. suppl_2, W377-384 (* joint first author) |
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De Preter*, K., Barriot*, R., Speleman, F., Vandesompele, J., Moreau, Y. (2008) Positional gene enrichment analysis of gene sets for high resolution identification of overrepresented chromosomal regions. Nucleic Acids Research 36(7):e43 |
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Mortier-Barriere I, Velten M, Dupaigne P, Mirouze N, Pietrement O, McGovern S, Fichant G, Martin B, Noirot P, Le Cam E, Polard P, Claverys JP. (2007) A key presynaptic role in transformation for a widespread bacterial protein: DprA conveys incoming ssDNA to RecA. Cell. 130(5), 824-36. |
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Fremez R, Faraut T, Fichant G, Gouzy J, Quentin Y. (2007) Phylogenetic exploration of bacterial genomic rearrangements. Bioinformatics. 23(9), 1172-4. |
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Louarn JM, Quentin Y. (2007) FtsK controls metastable recombination provoked by an extra Ter site in the Escherichia coli chromosome terminus. Mol Microbiol. 64(1), 207-19. |
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Knutsen E, Johnsborg O, Quentin Y, Claverys JP, Havarstein LS. (2006) BOX elements modulate gene expression in Streptococcus pneumoniae: impact on the fine-tuning of competence development. J Bacteriol. 188(23), 8307-12. |
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Martin, B., Quentin, Y., Fichant, G. and Claverys, J.-P. (2006) Independent evolution of competence regulatory cascades in streptococci ?. Trends Microbiol. 14(8), 339-45. |
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Fichant, G., Basse, M.-J., and Quentin, Y. (2006) ABCdb: an online resource for ABC transporter repertories from sequenced archaeal and bacterial genomes. FEMS Microbiol Lett . 256(2), 333-9. |
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Capponi, C., Fichant, G., Quentin, Y. and Denis, F. (2005) Classification of domains with boosted Blast. In proceedings of International Symposium on Applied Stochastic Models and Data Analysis. |
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Chabalier, J., Capponi, C., Quentin, Y., and Fichant, G. (2005) ISYMOD: a knowledge warehouse for the identification, assembly and analysis of bacterial integrated systems. Bioinformatics, 21(7), 1246-1256, [Epub ahead of print 2004 Nov 5]. |
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Joseph, P., Fichant, G., Quentin, Y., and Denizot, F. (2002) Regulatory relationship of two-component and ABC transport systems and clustering of their genes in the Bacillus/Clostridium group, suggest a functional link between them. J. Mol. Microbiol . Biotechnol. 4 , 503-513 . |
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Quentin, Y., Chabalier, J. and Fichant, G. (2002) Strategies
for the identification, the assembly and the classification of integrated
biological systems in completely sequenced genomes. Computers and Chemistry, 26, 447-457. |
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Capponi, C., Chabalier, J., Quentin, Y. and Fichant, G. (2001)
A Knowledge Base for Integrated Biological Systems. IEEE Intelligent Systems,
16(6), 52-60. |
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Quentin, Y., Fichant, G. and Denizot, F. (1999).
Inventory, assembly and analysis of Bacillus subtilis ABC transport systems.
J. Mol. Biol. 287, 467-484. |
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