Mathematique Informatique et Genome

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[1] Chiapello, H. and Louis, A. (2010). Bio-informatique - Principes d'utilisation des outils. chapter Banques et bases de données en biologie., 11-42. QUAE editions.
[2] De Hillerin, S., Fromion, V., Scorletti, G., Duc, G. and Godoy, E. (Aug., 2010). An enhanced information structure for linear parameter-varying design: Application to Reichert's missile benchmark control. In Proc. of AIAA Guidance, Navigation, and Control Conference, Toronto, Canada.
[3] Devillers, H., Chiapello, H., Schbath, S. and El Karoui, M. (2010). Assessing the robustness of complete bacterial genome segmentations. In RECOMB-CG 2010, (E. Tannier, ed.). Lecture Notes in Bioinformatics. 6398 173-187.
[4] Gibrat, J.-F. and Loux, V. (2010). Bio-informatique - Principes d'utilisation des outils. chapter Introduction à l'annotation fonctionnelle in silico, 179-207. QUAE editions.
[5] Galibert, O., Quintard, L., Rosset, S., Zweigenbaum, P., Nédellec, C., Aubin, S., Gillard, L., Raysz, J.-P., Pois, D., Tannier, X., Deléger, L. and Laurent, D. (may, 2010). Named and specific entity detection in varied data: The qu nfro named entity baseline evaluation. In Proceedings of the Seventh conference on International Language Resources and Evaluation (LREC'10), (N. C. C. Chair), K. Choukri, B. Maegaard, J. Mariani, J. Odijk, S. Piperidis, M. Rosner, and D. Tapias, ed.), Valletta, Malta. European Language Resources Association (ELRA). [ .html ]
[6] Manine, A., Alphonse, E. and Bessières, P. (2010). Extraction of genic interactions with the recursive logical theory of an ontology. In 11th International Conference on Intelligent Text Processing and Computational Linguistics (CICLing'10), pages 549-563, Iasi, Roumania. Lecture Notes in Computer Science 6008, Springer Verlag. ISBN 978-3-642-12115-9.
[7] Meslem, N., Fromion, V., Goelzer, A. and Tournier, L. (2010). Stability analysis for bacterial linear metabolic pathways with monotone control system theory. In ICINCO'10 (3), 22-29.
[8] Nédellec, C., Golik, W., Aubin, S. and Bossy, R. (2010). Building large lexicalized ontologies from text: A use case in automatic indexing of biotechnology patents. In EKAW, 514-523, Lisbon, Portugal. ISBN 978-3-642-16437-8. [ DOI ]
[9] Nédellec, C. (2010), Projet quaero, rapport de propri nit ni industrielle de l b!g (binstitut national de la recherche agronomique. Technical report, INRA, CRJ.
[10] Scorletti, G., Fromion, V., De Hillerin, S., Ganet, M.-M. and Bennani, S. (2010). Critère h infinity pour la commande de lanceurs flexibles. In Actes de la Conférence Internationale Francophone d'Automatique, Nancy, France.
[11] Aguileta, G., Lengelle, J., Marthey, S., Chiapello, H., Rodolphe, F., Gendrault, A., Yockteng, R., Vercken, E., Devier, B., Wincker, P., Dossat, C., Cruaud, C., Couloux, A. and Giraud, T. (2010). Finding candidate genes under positive selection in non-model species: Examples of genes involved in host specialization in pathogens. Molecular Ecology. 19 (2) 292-306.
[12] Beganović, J., Guillot, A., van de Guchte, M., Jouan, A., Gitton, C., Loux, V., Roy, K., Huet, S., Monod, H. and Monnet, V. (Jan, 2010). Characterization of the insoluble proteome of lactococcus lactis by sds-page lc-ms/ms leads to the identification of new markers of adaptation of the bacteria to the mouse digestive tract. Journal of proteome research. 192 . [ DOI | http ]
[13] Collet, G., Andonov, R., Yanev, N. and Gibrat, J.-F. (2010). Local protein threading by mixed integer programming. Discrete Applied Mathematics. 159 (16) 1707-1716.
[14] Chaves, M., Tournier, L. and Gouzé, J.-L. (2010). Comparing Boolean and piecewise affine differential models for genetic networks. Acta Biotheor. 58 217-232.
[15] Falentin, H., Deutsch, S.-M., Jan, G., Loux, V., Thierry, A., Parayre, S., Maillard, M.-B., Dherbécourt, J., Cousin, F. J., Jardin, J., Siguier, P., Couloux, A., Barbe, V., Vacherie, B., Wincker, P., Gibrat, J.-F., Gaillardin, C. and Lortal, S. (Jan, 2010). The complete genome of propionibacterium freudenreichii cirm-bia1, a hardy actinobacterium with food and probiotic applications. PLoS ONE. 5 (7) e11748. [ DOI ]
[16] Mazé, A., Boël, G., Zúñiga, M., Bourand, A., Loux, V., Yebra, M. J., Monedero, V., Correia, K., Jacques, N., Beaufils, S., Poncet, S., Joyet, P., Milohanic, E., Casarégola, S., Auffray, Y., Pérez-Martínez, G., Gibrat, J.-F., Zagorec, M., Francke, C., Hartke, A. and Deutscher, J. (May, 2010). Complete genome sequence of the probiotic lactobacillus casei strain bl23. J Bacteriol. 192 (10) 2647-8. [ DOI ]
[17] Monnet, C., Loux, V., Gibrat, J.-F., Spinnler, E., Barbe, V., Vacherie, B., Gavory, F., Gourbeyre, E., Siguier, P., Chandler, M., Elleuch, R., Irlinger, F. and Vallaeys, T. (2010). The arthrobacter arilaitensis Re117 genome sequence reveals its genetic adaptation to the surface of cheese. PLoS ONE. 5 (11) e15489. [ DOI | http ]
[18] Mariadassou, M., Robin, S. and Vacher, C. (2010). Uncovering latent structure in valued graphs : a variational approach. Annals of Applied Statistics. 4 (2) 715-742.
[19] Reynaud-Bouret, P. and Schbath, S. (2010). Adaptive estimation for Hawkes' processes; Application to genome analysis. Annals of Statistics. 38 (5) 2781-2822. [ DOI | http ]
[20] Zimmermann, K. and Gibrat, J.-F. (2010). Amino acid "little big bang" : Representing amino acid substitution matrices as dot products of euclidian vectors. BMC Bioinformatics. 11 (4) 11 p.

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