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G. Jin, Nakhleh, L., Snir, S., and Tuller, T., Efficient parsimony-based methods for phylogenetic network reconstruction, Bioinformatics, vol. 23, pp. e123-e128, 2006.
H. J. Park, Jin, G., and Nakhleh, L., Bootstrap-based support of HGT inferred by maximum parsimony, BMC Evolutionary Biology, vol. 10, p. 131, 2010.PDF icon BMCEvolBiol2010.pdf (1.18 MB)
G. Jin, Nakhleh, L., Snir, S., and Tuller, T., A New Linear-time Heuristic Algorithm for Computing the Parsimony Score of Phylogenetic Networks: Theoretical Bounds and Empirical Performance, in Proceedings of the International Symposium on Bioinformatics Research and Applications, 2007, vol. 4463, pp. 61-72.
H. J. Park, Jin, G., and Nakhleh, L., Algorithmic strategies for estimating the amount of reticulation from a collection of gene trees, Proceedings of the 9th Annual International Conference on Computational Systems Biology. pp. 114-123, 2010.PDF icon ParkEtAl-CSB2010.pdf (946.56 KB)
G. Jin, Nakhleh, L., Snir, S., and Tuller, T., Inferring phylogenetic networks by the maximum parsimony criterion: a case study, Molecular Biology and Evolution, vol. 24, pp. 324-337, 2007.
L. Nakhleh, Jin, G., Zhao, F., and Mellor-Crummey, J., Reconstructing phylogenetic networks using maximum parsimony, in Proceedings of the 2005 IEEE Computational Systems Bioinformatics Conference (CSB2005), 2005, pp. 93-102.
G. Jin, Nakhleh, L., and Than, C., Integrating Sequence and Topology for Efficient and Accurate Detection of Horizontal Gene Transfer, in Proceedings of the Sixth RECOMB Comparative Genomics Satellite Workshop, 2008, vol. 5267, pp. 113-127.
G. Jin, Nakhleh, L., Snir, S., and Tuller, T., Maximum likelihood of phylogenetic networks, Bioinformatics, vol. 22, pp. 2604-2611, 2006.
G. Jin, Nakhleh, L., Snir, S., and Tuller, T., Parsimony Score of Phylogenetic Networks: Hardness Results and a Linear-time Heuristic, IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 6, pp. 495-505, 2009.