Publications

Topics :
Discrete mathematics and algorithmics
Computer science for biology
Computer science for natural
language and text processing
Visualization

Journal articles

• [J6] 2012: Philippe Gambette and Alain Guénoche
  Bootstrap Clustering for Graph Partitioning,
  to appear in RAIRO-Operations Research [DOI].
• [J5] 2012: Philippe Gambette, Vincent Berry and Christophe Paul
  Quartets and unrooted phylogenetic networks,
  to appear in JBCB (Journal of Bioinformatics and Computational Biology) [DOI].
• [J4] 2012: Philippe Gambette and Katharina Huber
  On Encodings of Phylogenetic Networks of Bounded Level,
  to appear in JMB (Journal of Mathematical Biology) [DOI].
• [J3] 2010: Christophe Crespelle and Philippe Gambette,
  Unrestricted and Complete Breadth-First Search of Trapezoid Graphs in O(n) Time,
  IPL (Information Processing Letters), 110, p. 497-502 [DOI].
• [J2] 2009: Daniel Huson, Regula Rupp, Vincent Berry, Philippe Gambette and Christophe Paul,
  Computing Galled Networks from Real Data,
  Bioinformatics 25(12) ISMB/ECCB'09 (Proceedings of the 17^th Annual Conference on Intelligent Systems for Molecular Biology & 8^th European Conference on Computational Biology), p. i85-i93 [DOI].
• [J1] 2008: Philippe Gambette and Daniel H. Huson,
  Improved Layout of Phylogenetic Networks,
  TCBB (IEEE/ACM Transactions on Computational Biology and Bioinformatics), 5(3), p. 472-479 [DOI]. (⇒ Erdős nb 3)

Conferences

• [C5] 2010: Delphine Amstutz and Philippe Gambette,
  Utilisation de la visualisation en nuage arboré pour l'analyse littéraire (Using the tree cloud visualization for literature analysis),
  JADT'10 (Proceedings of the 10^th International Conference on statistical analysis of textual data), Statistical Analysis of Textual Data, p. 227-238 [URL] (supplementary material).
• [C4] 2009: Christophe Crespelle and Philippe Gambette,
  Efficient Neighbourhood Encoding for Interval Graphs and Permutation Graphs and O(n) Breadth-First Search,
  IWOCA'09 (Proceedings of the 20^th International Workshop on Combinatorial Algorithms), LNCS 5874, p. 146-157 [DOI].
• [C3] 2009: Philippe Gambette, Vincent Berry and Christophe Paul,
  The Structure of Level-k Phylogenetic Networks,
  CPM'09 (Proceedings of the 20^th Annual Symposium on Combinatorial Pattern Matching), LNCS 5577, p. 289-300 [DOI].
• [C2] 2009: Philippe Gambette and Jean Véronis,
  Visualising a Text with a Tree Cloud,
  IFCS'09 (Proceedings of the International Federation of Classification Societies 2009 Conference), Studies in Classification, Data Analysis, and Knowledge Organization 40, p. 561-570 (supplementary material) [DOI].
• [C1] 2007: Philippe Gambette and Stéphane Vialette,
  On Restrictions of Balanced 2-Interval Graphs,
  WG'07 (Proceedings of the 33^rd International Workshop on Graph-Theoretic Concepts in Computer Science), LNCS 4769, p. 55-65 [DOI].

Dissertations

• [D4] 2010 : Méthodes combinatoires de reconstruction de réseaux phylogénétiques (in French, Combinatorial Methods for Phylogenetic Network Reconstruction, summary in English)
  PhD Thesis supervised by Vincent Berry and Christophe Paul at LIRMM. (⇒ grand-grand-grand-grand-grand-grand-grand-grand-grand-son of Lagrange).
• [D3] 2006: Les graphes 2-intervallaires (in French, 2-Interval Graphs)
  Master Thesis supervised by Michel Habib at LIAFA.
• [D2] 2005: La représentation des réseaux phylogénétiques (in French, Representation of Phylogenetic Networks)
  Maîtrise Thesis supervised by Daniel Huson at ZBIT, Tübingen University.
• [D1] 2004: Quelques propriétés topologiques des arbres de duplication (in French, Some Topological Properties of Duplication Trees)
  Bachelor Thesis supervised by Olivier Gascuel and Denis Bertrand at LIRMM.

Technical Reports

• 2011: Two modularity-based graph clustering algorithms (11p, with Laurent Tichit et Alain Guénoche, submitted).
• 2011: Bootstrap Clustering for Graph Partitioning (13p, with Alain Guénoche, submitted).
• 2011: Quartets and unrooted phylogenetic networks (25p, with Vincent Berry and Christophe Paul, submitted).
• 2009: A Note on Minimum Flip Consensus and Maximum Compatible Subset (2p, complement to [C4]).
• 2008: An Obstruction Approach to Reconstruct Phylogenies and Level-k Networks from Triplets (22p, with Vincent Berry and Christophe Paul).
• 2007: Graphes 2-intervallaires, variantes et restrictions (67p, in French, 2-Interval Graphs, Variants and Restrictions, with Michel Habib and Stéphane Vialette).