J. M. Chan, Topology of viral evolution, Proceedings of the National Academy of Sciences, vol.110, issue.46, pp.18566-18571, 2013.
DOI : 10.1073/pnas.1313480110

P. Cordue, S. Linz, and C. Semple, Phylogenetic Networks that Display a Tree Twice, Bulletin of Mathematical Biology, vol.7, issue.10, pp.2664-2679, 2014.
DOI : 10.1007/s11538-014-0032-x

P. Gambette, Locating a Tree in a Phylogenetic Network in Quadratic Time, Proc. of RECOMB'2015, pp.96-107, 2015.
DOI : 10.1007/978-3-319-16706-0_12

URL : https://hal.archives-ouvertes.fr/hal-01116231

D. Gusfield, ReCombinatorics: The Algorithmics of Ancestral Recombination Graphs and Explicit Phylogenetic Networks, 2014.

D. H. Huson, R. Rupp, and C. Scornavacca, Phylogenetic Networks, 2010.
DOI : 10.1017/CBO9780511974076

URL : https://hal.archives-ouvertes.fr/lirmm-00309694

L. Van-iersel, C. Semple, and M. Steel, Locating a tree in a phylogenetic network, Information Processing Letters, vol.110, issue.23, pp.1037-1043, 2010.
DOI : 10.1016/j.ipl.2010.07.027

I. A. Kanj, L. Nakhleh, C. Than, and G. Xia, SEEING THE TREES AND THEIR BRANCHES IN THE NETWORK IS HARD, Theoretical Computer Science, pp.153-164, 2008.
DOI : 10.1142/9789812770998_0011

L. Nakhleh, Computational approaches to species phylogeny inference and gene tree reconciliation, Trends in Ecology & Evolution, vol.28, issue.12, pp.719-728, 2013.
DOI : 10.1016/j.tree.2013.09.004

T. J. Treangen and E. P. Rocha, Horizontal Transfer, Not Duplication, Drives the Expansion of Protein Families in Prokaryotes, PLoS Genetics, vol.13, issue.1, p.1001284, 2011.
DOI : 10.1371/journal.pgen.1001284.s007

URL : https://hal.archives-ouvertes.fr/pasteur-00578535

L. Wang, K. Zhang, and L. Zhang, Perfect phylogenetic networks with recombination, Proceedings of the 2001 ACM symposium on Applied computing , SAC '01, pp.69-78, 2001.
DOI : 10.1145/372202.372271