Publications de l'équipe MaBioVis pour l'année 2009

Années: 2005, 2006, 2007, 2008, 2010, 2011, 2012, 2013

  1. P. Ferraro, P. Hanna, L. Imbert, and T. Izard. Accelerating query-by-humming on gpu. In 10th International Society for Music Information Retrieval Conference, pages 279-284, 2009.
  2. A. Mancheron, R. Uricaru, and E. Rivals. Ehrlichia ruminantium genome segmentations reveal novel homologous genes. In ISCB Africa ASBCB Joint Conference on Bioinformatics of Infectious Diseases, 2009.
  3. R. Uricaru, C. Michotey, L. Noé, H. Chiapello, and E. Rivals. Improved sensitivity and reliability of anchor based genome alignment. In I. R. Eric Rivals, editor, JOBIM'09 : Journées Ouvertes en Biologie, Informatique et Mathématiques, pages 31-36, 2009.
  4. T. Martin, D. J. Sherman, M. Nikolski, J.-L. Souciet, and P. Durrens. The génolevures website comparative genomic studies on hemiascomycetous yeasts. In Comparative Genomics of Eukaryotic Microorganisms 2009, 2009.
  5. D. Archambault, T. Munzner, and D. Auber. Tuggraph: Path-preserving hierarchies for browsing proximity and paths in graphs. In IEEE Pacific Visualization Symposium, pages 113-121, 2009.
  6. T. Martin, M. Nikolski, D. J. Sherman, J.-L. Souciet, and P. Durrens. The génolevures online database. In Second German/ French/European/ Meeting Yeast and Filamentous Fungi, 2009.
  7. N. Vyahhi, A. Goëffon, D. J. Sherman, and M. Nikolski. Swarming along the evolutionary branches sheds light on genome rearrangement scenarios. In F. Rothlauf, editor, ACM SIGEVO Conference on Genetic and evolutionary computation. ACM, 2009.
  8. R. Assar, H. Soueidan, and D. J. Sherman. Hierarchical study of guyton circulatory model. In I. R. Eric Rivals, editor, Les Journées Ouvertes en Biologie, Informatique et Mathématiques JOBIM 2009. Eric Rivals, Irena Rusu, 2009.
  9. T. Martin, D. J. Sherman, M. Nikolski, J.-L. Souciet, and P. Durrens. Base de données génolevures : génomique comparative des hemiascomycetes. In E. Rivals and I. Rusu, editors, Journée Ouvertes Biologie Informatique Mathématiques, JOBIM 2009, pages 181-182, 2009.
  10. F. El Garniti, C. Miot-Sertier, M. Dols-Lafargue, E. Bon, A. Lonvaud-Funel, and C. Le Marrec. Is30 elements as mediators of strain diversity in oenococcus oeni. In 16th CBL- Club des Bactéries Lactiques Meeting, 2009.
  11. P. Lucas, E. Bon, V. Renouf, M. Dols-Lafargue, C. Le Marrec, and A. Lonvaud-Funel. Oenococcus oeni genomic adaptation to the wine environment. In SGM-Society for General Microbiology Autumn 2009 Meeting, 2009.
  12. E. Bon, C. Miot-Sertier, M. Dols-Lafargue, G. Morel, A. Lonvaud-Funel, and C. Le Marrec. A 24 kb-genomic island contributing to oenococcus oeni adaptation to wine can excise from the chromosome. In 16th CBL-Club des Bactéries Lactiques Meeting, 2009.
  13. E. Bon, A. Delaherche, E. Bilhere, C. Miot-Sertier, P. Durrens, A. De Daruvar, A. Lonvaud-Funel, and C. Le Marrec. Oenococcus oeni genome plasticity associated with adaptation to wine, an extreme ecological niche. In E. Rivals and I. Rusu, editors, JOBIM-10èmes Journées Ouvertes en Biologie, Informatique et Mathématiques, pages 121-122, 2009.
  14. N. Hanusse, S. Maabout, and R. Tofan. Algorithme distribué pour l'extraction des fréquents maximaux. In A. Chaintreau and C. Magnien, editors, Algotel, 2009.
  15. F. Zaidi, A. Sallaberry, and G. Melançon. Revealing hidden community structures and identifying bridges in complex networks: An application to analyzing contents of web pages for browsing. In Proceedings of the 2009 IEEE/WIC/ACM International Conference on Web Intelligence and Intelligent Agent Technology, volume 1, pages 198-205, 2009.
  16. P. Simonetto, P.-Y. Koenig, F. Zaidi, D. Archambault, F. Gilbert, T. T. Phan Quang, M. Mathiaut, A. Lambert, J. Dubois, R. Sicre, M. Brulin, R. Vieux, and G. Melançon. Solving the traffic and flitter challenges with tulip. In IEEE Symposium on Visual Analytics Science and Technology 2009, pages 247-248, 2009.
  17. J. Allali, P. Antoniou, P. Ferraro, C. Iliopoulos, and S. Michalakopoulos. Overlay problems for music and combinatorics. In M. Aramaki, R. Kronland-Martinet, S. Ystad, and K. Jensen, editors, International Conference on Auditory Display, pages 138-143, 2009.
  18. H. Soueidan, G. Sutre, and M. Nikolski. Qualitative transition systems for the abstraction and comparison of transient behavior in parametrized dynamic models. In 21, editor, Computational Methods in Systems Biology (CMSB'09), volume 5688 of Lecture notes in BioInformatics, pages 313-327. Springer Verlag, 2009.
  19. P. Ferraro, P. Hanna, L. Imbert, and T. Izard. Accelerating query-by-humming on gpu. In 10th International Society for Music Information Retrieval Conference, 2009.
  20. P. Simonetto and D. Auber. An heuristic for the construction of intersection graphs. In 13th International Conference on Information Visualisation (IV09), pages 673-678, 2009.
  21. R. Bourqui and D. Auber. Large quasi-tree drawing: A neighborhood based approach. In 13th International Conference on Information Visualisation, pages 653-660, 2009.
  22. R. Bourqui and M. Westenberg. Visualizing temporal dynamics at the genomic and metabolic level. In International Conference on Information Visualisation (IV'09),, pages 317-322, 2009.
  23. R. Bourqui, F. Gilbert, P. Simonetto, F. Zaidi, U. Sharan, and F. Jourdan. Detecting structural changes and command hierarchies in dynamic social networks. In Advances in Social Network Analysis and Data Mining, pages 83-88, 2009.
  24. P. Antoniou, J. Allali, C. Iliopoulos, and P. Ferraro. Validation and decomposition of partially occluded images with holes. In Prague Stringology Conference, pages 129-136, 2009.
  25. N. Hanusse, S. Maabout, and R. Tofan. Matérialisation partielle des cubes de données. In 25èmes journées "Bases de Données Avancées" BDA'09, pages 1-20, 2009.
  26. M. Robine, P. Hanna, T. Rocher, and P. Ferraro. Structured representation of harmony for music retrieval. In International Computer Music Conference (ICMC), 2009.
  27. P. Ferraro, J. Allali, P. Hanna, and M. Robine. Extending alignment algorithm for polyphonic comparison. In International Computer Music Modeling and Retrieval Conference (CMMR), pages 206-209, 2009.
  28. N. Hanusse, S. Maabout, and R. Tofan. Algorithmes pour la sélection de vues à matérialiser avec garantie de performance. In 5ème journées francophones sur les entrepôts de données et l'analyse en ligne (EDA'09), pages 1-15, 2009.
  29. N. Hanusse, S. Maabout, and R. Tofan. A view selection algorithm with performance guarantee. In International Conference on Extending Database Technology, 2009.
  30. G. Melançon and C. Douy. La visualisation d'information au service de la veille concurrentielle, de la fouille d'information et de la supervision de systèmes complexes. In W. Akmouche, editor, La sécurité globale : Réalité, enjeux et perspectives, pages 263-271. SEE (Société des électriciens et des électroniciens), CNRS Editions, 2009.
  31. G. Jean, D. J. Sherman, and M. Nikolski. Mining the semantics of genome super-blocks to infer ancestral architectures. Journal of Computational Biology, 16(9):1267-1284, 2009.
  32. C. Payen, G. Fischer, C. Marck, C. Proux, D. J. Sherman, J.-Y. Coppée, M. Johnston, B. Dujon, and C. Neuvéglise. Unusual composition of a yeast chromosome arm is associated with its delayed replication. Genome Researchearch, 2009.
  33. J.-L. Souciet, B. Dujon, C. Gaillardin, M. Johnston, P. V. Baret, P. Cliften, D. J. Sherman, J. Weissenbach, E. Westhof, P. Wincker, C. Jubin, J. Poulain, V. Barbe, B. Ségurens, F. Artiguenave, V. Anthouard, B. Vacherie, M.-E. Val, R. S. Fulton, P. Minx, R. Wilson, P. Durrens, G. Jean, C. Marck, T. Martin, M. Nikolski, T. Rolland, M.-L. Seret, S. Casaregola, L. Despons, C. Fairhead, G. Fischer, I. Lafontaine, V. Leh, M. Lemaire, J. De Montigny, C. Neuveglise, A. Thierry, I. Blanc-Lenfle, C. Bleykasten, J. Diffels, E. Fritsch, L. Frangeul, A. Goeffon, N. Jauniaux, R. Kachouri-Lafond, C. Payen, S. Potier, L. Pribylova, C. Ozanne, G.-F. Richard, C. Sacerdot, M.-L. Straub, and E. Talla. Comparative genomics of protoploid saccharomycetaceae. Genome Research, 19:1696-1709, 2009.
  34. D. J. Sherman. Minimum information requirements : neither bandits in the attic nor bats in the belfry. New Biotechnology, 25(4):173-4, 2009.
  35. E. Bon, A. Delaherche, E. Bilhere, A. De Daruvar, A. Lonvaud-Funel, and C. Le Marrec. Oenococcus oeni genome plasticity is associated with fitness. Applied and Environmental Microbiology, 75(7):2079-90, 2009.
  36. D. J. Sherman, T. Martin, M. Nikolski, C. Cayla, J.-L. Souciet, and P. Durrens. Genolevures: protein families and synteny among complete hemiascomycetous yeast proteomes and genomes. Nucleic Acids Research, (37), 2009.
  37. S. Pereyre, P. Sirand-Pugnet, L. Beven, A. Charron, H. Renaudin, A. Barré, P. Avenaud, D. Jacob, A. Couloux, V. Barbe, A. De Daruvar, A. Blanchard, and C. Bébéar. Life on arginine for mycoplasma hominis: clues from its minimal genome and comparison with other human urogenital mycoplasmas. PLoS Genetics, 5(10), 2009.
  38. V. Garcia, R. Stevens, L. Gil, L. Gilbert, N. Gest, J. Petit, M. Faurobert, M. Maucourt, C. Deborde, A. Moing, J.-L. Poessel, D. Jacob, J.-P. Bouchet, J.-L. Giraudel, B. Gouble, D. Page, M. Alhagdow, C. Massot, H. Gautier, M. Lemaire-Chamley, A. De Daruvar, D. Rolin, B. Usadel, M. Lahaye, M. Causse, P. Baldet, and C. Rothan. An integrative genomics approach for deciphering the complex interactions between ascorbate metabolism and fruit growth and composition in tomato. Comptes Rendus Biologies, 332(11):1007-21, 2009.
  39. J. Allali, P. Ferraro, P. Hanna, C. Iliopoulos, and M. Robine. Toward a general framework for polyphonic comparison. Fundamenta Informaticae, 97(3):331-346, 2009.
  40. P. Simonetto, D. Auber, and D. Archambault. Fully automatic visualisation of overlapping sets. Computer Graphics Forum, 28(3):967-974, 2009.
  41. R. Bourqui, P. Simonetto, and F. Jourdan. Un algorithme stable de décomposition pour l'analyse des réseaux sociaux dynamiques. REVUE DES NOUVELLES TECHNOLOGIES DE L'INFORMATION, pages 337-348, 2009.
  42. A. Ouangraoua and P. Ferraro. A constrained edit distance algorithm between semi-ordered trees. Theoretical Computer Science, 410(8-10):837-846, 2009.
  43. A. Ouangraoua and P. Ferraro. A new constrained edit distance between quotiented ordered trees. Journal of Discrete Algorithms, 7(1):78-89, 2009.

Années: 2005, 2006, 2007, 2008, 2010, 2011, 2012, 2013

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