From LaBRI - Laboratoire Bordelais de Recherche en Informatique

Publications: MaBioVis2011

Publications de l'équipe MaBioVis pour l'année 2011

Années: 2005, 2006, 2007, 2008, 2009, 2010, 2012, 2013

  1. B. Pinaud, D. Jonathan, and G. Melançon. Porgy: Interactive and visual reasoning with graph rewriting systems. In Conf. on Visual Analytics Science and Technology (VAST), 2011 IEEE (Poster Abstract), pages 293-294, 2011.
  2. R. Assar, A. Garcia, and D. J. Sherman. Modeling stochastic switched systems with biorica. In Journées Ouvertes en Biologie, Informatique et Mathématiques JOBIM 2011, pages 297-304, 2011.
  3. T. Martin and P. Durrens. Génolevures: Policy for automated annotation of genome sequences. In JOBIM 2011, 2011.
  4. T. Martin and P. Durrens. Un polymorphisme suspect. In Unithé ou Café, 2011.
  5. O. Andrei, M. Fernandez, H. Kirchner, G. Melançon, O. Namet, and B. Pinaud. Porgy: Strategy-driven interactive transformation of graphs. In R. Echahed, editor, 6th International Workshop on Computing with Terms and Graphs (TERMGRAPH 2011), volume 48, pages 54-68, 2011.
  6. B. Pinaud and P. Kuntz. Gvsr: an on-line guide for choosing a graph visualization software. In U. Brandes and S. Cornelsen, editors, 18th International Symposium on Graph Drawing, volume 6502 of LNCS, pages 400-401. Springer, 2011.
  7. D. Archambault, H. Purchase, and B. Pinaud. Difference map readability for dynamic graphs. In U. Brandes and S. Cornelsen, editors, 18th International Symposium on Graph Drawing, volume 6502 of LNCS, pages 50-61. Springer, 2011.
  8. A. Sarkar, M. Nikolski, and U. Maulik. Spectral clustering on neighborhood kernels with modified symmetry for remote homology detection. In International Conference on Emerging Applications of Information Technology, pages 269-272, 2011.
  9. C. Fairhead, T. Gabaldón, T. Martin, P. Durrens, O. Lespinet, C. Hennequin, M. Bolotin-Fukuhara, and P. Wincker. Comparative genomics of the nakaseomyces clade: Candida glabrata and enew merging pathogens. In Comparative Genomics of Eukaryotic Microorganisms,, 2011.
  10. N. Golenetskaya and D. J. Sherman. Rethinking global analyses and algorithms for comparative genomics in a functional mapreduce style. In SeqBio 2011, 2011.
  11. N. Golenetskaya and D. J. Sherman. Assessing ”last mile” tools for affinity binder databases. In 5th ESF Workshop on Affinity Proteomics: Ligand Binders against the Human Proteome, 2011.
  12. D. J. Sherman, N. Golenetskaya, T. Martin, and P. Durrens. Comparative annotation and scaling-out challenges for paraphyletic strategies. In EMBO Symposium on Comparative Genomics of Eukaryotic Microorganisms: Understanding the Complexity of Diversity, 2011.
  13. D. J. Sherman and N. Golenetskaya. Addressing scaling-out challenges for comparative genomics. In Moscow Conference on Computational Molecular Biology, 2011.
  14. E. Garnaud, S. Maabout, and M. Mosbah. Dépendances fonctionnelles et matérialisation partielle des cubes de données. In Journées francophones sur les Entrepôts de Données et Analyse en ligne (EDA), RNTI (Revue des Nouvelles Technologies de l'Information). Hermann, 2011.
  15. N. Hanusse, S. Maabout, and R. Tofan. Revisiting the partial data cube materialization. In Conference on Advances in Data Bases and Information Systems (ADBIS), number 6909 in LNCS, pages 70-83. Springer, 2011.
  16. N. Hanusse and S. Maabout. A parallel algorithm for computing borders. In International Conference on Information and Knowledge Managment (CIKM), pages 1639-1648. ACM, 2011.
  17. B. Martin, P. Hanna, V.-T. Ta, D.-C. Myriam, and P. Ferraro. Exemplar-based imputation of large missing audio parts using string matching on tonal features. In 12th International Society for Music Information Retrieval Conference, pages 507-512, 2011.
  18. B. Martin, P. Hanna, M. Robine, and P. Ferraro. Towards an indexing method to speed-up music retrieval. In SIGIR 2011, pages 1167-1168, 2011.
  19. B. Martin, P. Hanna, M. Robine, and P. Ferraro. Indexing musical pieces using their major repetition. In ACM/IEEE Joint Conference on Digital Libraries, pages 153-156, 2011.
  20. T. Martin and P. Durrens. Genolevures : automated annotation of yeast genome sequences. In Comparative Genomics of Eukaryotic Microorganisms, 2011.
  21. R. Bourqui, H. Purchase, and F. Jourdan. Domain specific vs generic network visualization: an evaluation with metabolic networks. In Australasian Conference on User Interface, pages 9-18, 2011.
  22. F. Gilbert and D. Auber. Import automatique et interactif de données dans les systèmes de visualisations. In 11ème Conférence Internationale Francophone sur l'Extraction et la Gestion des Connaissances EGC 2011, 2011, 2011.
  23. C. Blanc, M. Delest, J.-M. Fédou, G. Melançon, and F. Queyroi. Évaluer la qualité d'une fragmentation de graphe multi-niveaux. In C. i3, editor, Journées MARAMI 2010, volume 11, page 1. Cépaduès, 2011.
  24. I. Jauberteau, M. Nadal, and J.-L. Jauberteau. Piling-up effects on nanoindentation impressions of metals and coatings investigated by atomic force microscopy : influence on hardness measurements. In J. T. Z. Bartul, editor, Advances in Nanotechnology, pages 303-318. Nova Science Publishers Inc., 2011.
  25. P. Ferraro, M. Robine, J. Allali, P. Hanna, and R. Thomas. Detection of near-duplicate musical documents from a multi-level comparison of tonal information. In Information Extraction from the Internet, pages 129-143. iconcept press, 2011.
  26. R. Uricaru, A. Mancheron, and E. Rivals. Novel definition and algorithm for chaining fragments with proportional overlaps. Journal of Computational Biology, 18(9):1141-1154, 2011.
  27. A. Mancheron, R. Uricaru, and E. Rivals. An alternative approach to multiple genome comparison. Nucleic Acids Research, 39(15), 2011.
  28. A. Enache-Angoulvant, J. Guitard, F. Grenouillet, T. Martin, P. Durrens, C. Fairhead, and C. Hennequin. Rapid discrimination between candida glabrata, candida nivariensis, and candida bracarensis by use of a singleplex pcr. Journal of Clinical Microbiology, 49(9):3375-3379, 2011.
  29. P. Simonetto, D. Archambault, D. Auber, and R. Bourqui. Impred: An improved force-directed algorithm that prevents nodes from crossing edges. Computer Graphics Forum, 30(3), 2011.
  30. A. Lambert, J. Dubois, and R. Bourqui. Pathway preserving representation of metabolic networks. Computer Graphics Forum, 30(3):1021 - 1030, 2011.
  31. P. Durrens, T. Martin, and D. J. Sherman. The génolevures database. Comptes Rendus de l'Académie des Sciences, Série Biologies, 334(8-9):585-589, 2011.
  32. D. Archambault, H. Purchase, and B. Pinaud. Animation, small multiples, and the effect of mental map preservation in dynamic graphs. IEEE Transactions on Visualization and Computer Graphics, 17(4):539-552, 2011.
  33. C. Lemaitre, A. Barré, C. Citti, F. Tardy, F. Thiaucourt, P. Sirand-Pugnet, and P. Thébault. A novel substitution matrix fitted to the compositional bias in mollicutes improves the prediction of homologous relationships. BMC Bioinformatics, 12(1):457, 2011.
  34. D. Waltemath, R. Adams, D. A. Beard, F. T. Bergmann, U. S. Bhalla, R. Britten, V. Chelliah, M. T. Cooling, J. Cooper, E. J. Crampin, A. Garny, S. Hoops, M. Hucka, P. Hunter, E. Klipp, C. Laibe, A. K. Miller, I. Moraru, D. Nickerson, P. Nielsen, M. Nikolski, S. Sahle, H. M. Sauro, H. Schmidt, J. L. Snoep, D. Tolle, O. Wolkenhauer, and N. Le Novère. Minimum information about a simulation experiment (miase). PLoS Computational Biology, 7(4), 2011.
  35. M. Courtot, N. Juty, C. Knüpfer, D. Waltemath, A. Zhukova, A. Dräger, M. Dumontier, A. Finney, M. Golebiewski, J. Hastings, S. Hoops, S. Keating, D. B. Kell, S. Kerrien, J. Lawson, A. Lister, J. Lu, R. Machne, P. Mendes, M. Pocock, N. Rodriguez, A. Villeger, D. J. Wilkinson, S. Wimalaratne, C. Laibe, M. Hucka, and N. Le Novère. Controlled vocabularies and semantics in systems biology. Molecular Systems Biology, 7:543, 2011.
  36. G. Jean and M. Nikolski. Sydig: uncovering synteny in distant genomes. Int. J. of Bioinformatics Research and Applications, pages 43-62, 2011.
  37. A. Sarkar, H. Soueidan, and M. Nikolski. Identification of conserved gene clusters in multiple genomes based on synteny and homology. BMC Bioinformatics, 12, 2011.
  38. M. Courtot, N. Juty, C. Knüpfer, D. Waltemath, A. Zhukova, A. Dräger, M. Dumontier, A. Finney, M. Golebiewski, J. Hastings, S. Hoops, S. Keating, D. B. Kell, S. Kerrien, J. Lawson, A. Lister, J. Lu, R. Machne, P. Mendes, M. Pocock, N. Rodriguez, A. Villeger, D. J. Wilkinson, S. Wimalaratne, C. Laibe, M. Hucka, and N. Le Novère. Controlled vocabularies and semantics in systems biology. Molecular Systems Biology, 7:543, 2011.
  39. H. Ferry-Dumazet, L. Gil, C. Deborde, A. Moing, S. Bernillon, D. Rolin, M. Nikolski, A. De Daruvar, and D. Jacob. Mery-b: a web knowledgebase for the storage, visualization, analysis and annotation of plant nmr metabolomic profiles. BMC Plant Biology, 11:104, 2011.
  40. F. Gilbert, P. Simonetto, F. Zaidi, F. Jourdan, and R. Bourqui. Communities and hierarchical structures in dynamic social networks: analysis and visualization. Social Network Analysis and Mining, 1(2):85-95, 2011.

Années: 2005, 2006, 2007, 2008, 2009, 2010, 2012, 2013

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