M. S. Bansal, J. G. Burleigh, O. Eulenstein, and A. Wehe, Heuristics for the Gene-Duplication Problem: A ??(n) Speed-Up for the Local Search, Research in Computational Molecular Biology, 11th Annual International Conference Proceedings, volume 4453 of Lecture Notes in Computer Science, pp.238-252, 2007.
DOI : 10.1007/978-3-540-71681-5_17

M. S. Bansal, O. Eulenstein, and A. Wehe, The Gene-Duplication Problem: Near-Linear Time Algorithms for NNI-Based Local Searches, IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol.6, issue.2, pp.221-231, 2009.
DOI : 10.1109/TCBB.2009.7

S. Mukul, O. Bansal, and . Eulenstein, The multiple gene duplication problem revisited, Bioinformatics, vol.24, issue.13, pp.132-138, 2008.

C. Chauve, J. P. Doyon, and N. Elmabrouk, Gene Family Evolution by Duplication, Speciation, and Loss, Journal of Computational Biology, vol.15, issue.8, pp.1043-1062, 2008.
DOI : 10.1089/cmb.2008.0054

URL : http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.131.9993

C. Chauve and N. Elmabrouk, New Perspectives on Gene Family Evolution: Losses in Reconciliation and a Link with Supertrees, Research in Computational Molecular Biology, 13th Annual International Conference Proceedings, pp.46-58, 2009.
DOI : 10.1007/978-3-642-02008-7_4

W. M. Fitch, Homology, Trends in Genetics, vol.16, issue.5, pp.227-231, 2000.
DOI : 10.1016/S0168-9525(00)02005-9

M. Goodman, J. Czelusniak, G. W. Moore, R. A. Herrera, and G. Matsuda, Fitting the Gene Lineage into its Species Lineage, a Parsimony Strategy Illustrated by Cladograms Constructed from Globin Sequences, Systematic Zoology, vol.28, issue.2, pp.132-163, 1979.
DOI : 10.2307/2412519

D. Graur and W. L. , Fundamentals of Molecular Evolution, 1999.

M. D. Hendy and D. Penny, Branch and bound algorithms to determine minimal evolutionary trees, Mathematical Biosciences, vol.59, issue.2, 1982.
DOI : 10.1016/0025-5564(82)90027-X

H. Li, TreeFam: a curated database of phylogenetic trees of animal gene families, Nucleic Acids Research, vol.34, issue.90001, pp.572-580, 2006.
DOI : 10.1093/nar/gkj118

B. Ma, M. Li, and L. Zhang, From Gene Trees to Species Trees, SIAM Journal on Computing, vol.30, issue.3, pp.729-752, 2000.
DOI : 10.1137/S0097539798343362

M. T. Hallett and J. Lagergren, New algorithms for the duplication-loss model, Proceedings of the fourth annual international conference on Computational molecular biology , RECOMB '00, pp.138-146, 2000.
DOI : 10.1145/332306.332359

R. D. Page, GeneTree: comparing gene and species phylogenies using reconciled trees, Bioinformatics, vol.14, issue.9, pp.819-820, 1998.
DOI : 10.1093/bioinformatics/14.9.819

N. D. Patengale, E. J. Gottlieb, and B. M. Moret, Efficiently Computing the Robinson-Foulds Metric, Journal of Computational Biology, vol.14, issue.6, pp.724-735, 2007.
DOI : 10.1089/cmb.2007.R012

D. F. Robinson and L. R. Foulds, Comparison of phylogenetic trees, Mathematical Biosciences, vol.53, issue.1-2, pp.131-147, 1981.
DOI : 10.1016/0025-5564(81)90043-2

J. Ruan, TreeFam: 2008 Update, Nucleic Acids Research, vol.36, issue.Database, pp.735-740, 2008.
DOI : 10.1093/nar/gkm1005

URL : http://doi.org/10.1093/nar/gkm1005

M. Sanderson and M. Mcmahon, Inferring angiosperm phylogeny from EST data with widespread gene duplication, BMC Evolutionary Biology, vol.7, issue.Suppl 1, p.3, 2007.
DOI : 10.1186/1471-2148-7-S1-S3

E. W. Sayers, Database resources of the National Center for Biotechnology Information, Nucleic Acids Research, vol.37, issue.Database, pp.5-15, 2009.
DOI : 10.1093/nar/gkn741

U. Stege, Gene Trees and Species Trees: The Gene-Duplication Problem is Fixed-Parameter Tractable, Proceedings of the 6th International Workshop on Algorithms and Data Structures (WADS'99, pp.166-169, 1999.
DOI : 10.1007/3-540-48447-7_29

A. Wehe, M. S. Bansal, J. Burleigh, and O. Eulenstein, DupTree: a program for large-scale phylogenetic analyses using gene tree parsimony, Bioinformatics, vol.24, issue.13, pp.241540-1541, 2008.
DOI : 10.1093/bioinformatics/btn230

L. Zhang, On a Mirkin-Muchnik-Smith Conjecture for Comparing Molecular Phylogenies, Journal of Computational Biology, vol.4, issue.2, pp.177-187, 1997.
DOI : 10.1089/cmb.1997.4.177