Mathematique Informatique et Genome

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[1] Andonov, R., Collet, G., Gibrat, J.-F., Marin, A., Poirriez, V. and Yanev, N. (2008). Recent advances in solving the protein threading problem. In Grids for Bioinformatics and Computational Biology, (E.-G. Talbi and A. Zomaya, ed.). Wiley-Interscience.
[2] Aguileta, G., Marthey, S., Chiapello, H., Lebrun, M., Rodolphe, F., Fournier, E., Gendrault-Jacquemard, A. and Giraud, T. (2008). Assessing the performance of single-copy genes for recovering robust phylogenies. 57 (4) 613-627. Systematic Biology. [ DOI ]
[3] Bossy, R., Kotoujansky, A., Aubin, S. and Nédellec, C. (2008). Close Integration of ML and NLP Tools in BioAlvis for Semantic Search in Bacteriology. In Proceedings of the Workshop on Semantic Web Applications and Tools for Life Sciences, (A. Burger, P. Paschke, A.and Romano, and A. E. Splendiani, ed.), 1-15, Edinburgh, United Kingdom. on-line proceedings. [ http ]
[4] Flandin, G., Dinh, M., Scorletti, G., Fromion, C., V.and Beugnon, Lemaire, J., Ganet, M.-M., Bérard-Chiappa, C. and Biannic, S., J.-M.and Bennani. (2008). LPV techniques applied to industrial space applications. In Proc. Internatinal ESA Conference on Guidance, Navigation & Control Systems.
[5] Litrico, X. and Fromion, V. (December, 2008). A link between riemann invariants and frequency domain approach for boundary control of open channel flow. In IEEE Conf. on Decision and Control, volume 9, 2093-2098.
[6] Manine, A.-P., Alphonse, E. and Bessières, P. (2008a). Genic interaction extraction by reasoning on an ontology. In Proc. 3rd Intl. Conf. Semantic Mining in Biomedicine, (TUCS, ed.), volume 51, 93-100. [ .pdf ]
[7] Manine, A.-P., Alphonse, E. and Bessières, P. (2008b). Information extraction as an ontology population task and its application to genic interactions. In Proc. 20th IEEE Intl. Conf. Tools with Artificial Intelligence, serie TAI, (I. C. Society, ed.), volume 2008(2), 74-81, Dayton, Ohio, USA. [ http ]
[8] Azé, J., Gentils, L., Toffano-Nioche, C., Loux, V., Gibrat, J.-F., Bessieres, P., Rouveirol, C., Poupon, A. and Froidevaux, C. (2008). Towards a semi-automatic functional annotation tool based on decision tree techniques. BMC proceedings. 2 Suppl 4 S3. [ http ]
[9] Chiapello, H., Gendrault, A., Caron, C., Blum, J., Petit, M.-A. and El Karoui, M. (2008). MOSAIC: an online database dedicated to the comparative genomics of bacterial strains at the intra-species level. BMC Bioinformatics. 9(498) .
[10] Degrelle, S., Hennequet-Antier, C., Chiapello, H., Piot-Kaminski, K., Piumi, F., Robin, S., Renard, J. and Hue, I. (2008). Amplification biases: possible differences among deviating gene expressions. BMC Genomics. 9:46 .
[11] Goelzer, A., Bekkal Brikci, F., Martin-Verstraete, I., Noirot, P., Bessi Nhres, P., Aymerich, S. and Fromion, V. (February, 2008). Reconstruction and analysis of the genetic and metabolic regulatory networks of the central metabolism of bacillus subtilis. BMC Systems Biology. 2:20 . [ DOI | http ]
[12] Giraud, T., Yockteng, R., Marthey, S., Chiapello, H., Jonot, O., Lopez-Villavicencio, M., De Vienne, D., Hood, M., Refregier, G., Gendrault-Jacquemard, A., Wincker, P. and Dossat, C. (2008). Isolation of 60 polymorphic microsatellite loci in est libraries of four sibling species of the phytopathogenic fungal complex microbotryum. Molecular Ecology Resources. 8(2) 387-392. [ DOI ]
[13] Marthey, S., Aguileta, G., Rodolphe, F., Gendrault, A., Giraud, T., Fournier, E., Lopez-Villavicencio, M., Gautier, A., Lebrun, M.-H. and Chiapello, H. (2008). FUNYBASE: a FUNgal phYlogenomic dataBASE. BMC Bioinformatics. 9(456) .
[14] Mercier, R., Petit, M.-A., Schbath, S., Robin, S., El Karoui, M., Boccard, F. and Espeli, O. (2008). The MatP/matS site specific system organizes the Terminus region of the E. coli chromosome into a Macrodomain. Cell. 135(2) 475-485.
[15] Martin, J., Regad, L., Etchebest, C. and Camproux, A. (May, 2008b). Taking advantage of local structure descriptors to analyze interresidue contacts in protein structures and protein complexes. Proteins. 71(3) .
[16] Martin, J., Regad, L., Lecornet, H. and Camproux, A. (2008a). Structural deformation upon protein-protein interaction: a structural alphabet approach. BMC Struct. Biol. 8 12.
[17] Nicolas, P., Mondot, S., Achaz, G., Bouchenot, C., Bernardet, J.-F. and Duchaud, E. (2008). Population structure of the fish-pathogenic bacterium flavobacterium psychrophilum. Appl Environ Microbiol. 74 (12) 3702-3709. [ http ]
[18] Picard, F., Daudin, J.-J., Koskas, M., Schbath, S. and Robin, S. (2008). Assessing the exceptionality of network motifs. J. Comp. Biol. 15:1 1-20. [ http ]
[19] Rodolphe, F., Martin, J. and Della-Chiesa, E. (Mar, 2008). Theoretical description of chromosome architecture after multiple back-crossing. Theor Popul Biol. 73(2) 289-299.
[20] Sam, V., Tai, C., Garnier, J., Gibrat, J., Lee, B. and Munson, P. (2008). Towards an automatic classification of protein structural domains based on structural similarity. BMC Bioinformatics. 9 74. [ http ]
[21] Taly, J.-F., Marin, A. and Gibrat, J.-F. (2008). Can molecular dynamics simulations help in discriminating correct from erroneous protein 3d models? BMC Bioinformatics. 9 6.
[22] Touyar, N., Schbath, S., Cellier, D. and Dauchel, H. (2008). Poisson approximation for the number of repeats in a Markov chain model. J. Appl. Prob. 45(2) 440-455.
[23] Touzain, F., Schbath, S., Debled-Rennesson, I., Aigle, B., Leblond, P. and Kucherov, G. (2008). SIGffRid: a tool to search for σ factor binding sites in bacterial genomes using comparative approach and biologically driven statistics. BMC Bioinformatics. 9:73 1-23. [ http ]
[24] Turenne, N. and Schwer, S.-R. (2008). Temporal representation for gene networks: towards a qualitative temporal data mining. International Journal of Data Mining and Bioinformatics (IJDMB). 2(1) 36-53.

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