Publications:
A list of publications and public presentations of the Phyl-ARIANE project.
Affiliations: LIRMM ; ISEM ; LBBE
Journals:
ScripTree: scripting phylogenetic graphics.
F. Chevenet, O. Croce, M. Hebrard, R. Christen and V. Berry.
Bioinformatics. march 2010. [Epub ahead of print]. doi:10.1093/bioinformatics/btq086. PMID: 20194627.
(Direct link)
Space of Gene/Species Trees Reconciliations and Parsimonious Models.
J-P. Doyon, C. Chauve, and S. Hamel
Journal of Comp. Biology, October 2009.
(PDF file)
Genomes as documents of evolutionary history.
B. Boussau, V. Daubin.
Tree-1192, 2009, article in press.
(PDF file)
PhyloExplorer: a web server to validate, explore and query phylogenetic trees.
V. Ranwez, F. Delsuc, N. Clairon, S. Pourali, N. Auberval, S. Diser and V. Berry.
BMC Evolutionary Biology, 2009, 9:108.
(PDF file)
Computing Galled Networks from Real Data.
D. Huson, R. Rupp, V. Berry, P. Gambette and C. Paul.
17th Ann. Int. Conf. Intel. Syst. for Mol. Biol. (ISMB), to appear in a special issue of Bioinformatics. Implemented in Dendroscope.
(Direct link)
International conferences:
The Structure of Level-k Phylogenetic Networks.
P. Gambette, V. Berry and C. Paul
20th Ann. Symp. on Combin. Pattern Matching (CPM), to appear in LNCS, Springer.
(PDF file)
From gene trees to species trees through a supertree approach.
C. Scornavacca, V. Berry, V. Ranwez
3rd Int. Conf. on Lang. and Automata Theor. and Applications (LATA), LNCS 5457, to appear.
(PDF file)
Phylogenomic analyses: dealing with incongruence.
N. Galtier, V. Daubin
SMBE 2008.
(Direct link)
Others oral presentations:
Reconstruction combinatoire de réseaux phylogénétiques.
Philippe Gambette
Journées annuelles
de la Société Française de Systématique, Angers, 2009-06-10.
(PDF file)
Space of Gene/Species Trees Reconciliations and Probabilistic Models.
Jean-Philippe Doyon, Sylvie Hamel and Cedric Chauve
Integrative Post-Genomics, Lyon, 2009-11.
(PDF file)
Méthode de construction et de comparaison d'arbres retraçant l'évolution des espèces depuis des données phylogénomiques
Yimin Shen
Stage de master, septembre 2009.
(PDF file)
Posters:
Les dates de divergence améliorent la qualité des superarbres.
Y. Shen, L. Bréhélin, E. J. P. Douzery and V. Berry
11ème congrès de la Société de Recherche Opérationnelle et d'Aide à la Décision (ROADEF), 2010.
(PDF file)
Phylogenomics - Integrated algorithms and visualizations for analyzing the evolution of life (Phylariane).
LIRMM ; ISEM ; LBBE
Présentation aux journées STIC de l'ANR : "Quelle recherche pour les STIC de demain ?", janvier 2010.
(PDF file)
