Biblio

Export 108 results:
Author Keyword Title Type [ Year(Asc)]
2007
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.
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.
I. A. Kanj, Nakhleh, L., Than, C., and Xia, G., Seeing the trees and their branches in the network is hard, in Proceedings of the Tenth Italian Conference on Theoretical Computer Science (ICTCS), 2007, pp. 82-93.
2006
G. Jin, Nakhleh, L., Snir, S., and Tuller, T., Efficient parsimony-based methods for phylogenetic network reconstruction, Bioinformatics, vol. 23, pp. e123-e128, 2006.
D. Ruths, Nakhleh, L., Iyengar, M. S., Reddy, S. A. G., and Ram, P. T., Graph-theoretic Hypothesis Generation in Biological Signaling Networks, Journal of Computational Biology, vol. 13, pp. 1546-1557, 2006.
C. Than, Ruths, D., Innan, H., and Nakhleh, L., Identifiability issues in phylogeny-based detection of horizontal gene transfer, in Proceedings of the Fourth RECOMB Comparative Genomics Satellite Workshop, 2006, vol. 4205, pp. 215-219.
T. Shigaki, Rees, I., Nakhleh, L., and Hirschi, K., Identification of Three Distinct Phylogenetic Groups of CAX Cation/Proton Antiporters, Journal of Molecular Evolution, vol. 63, pp. 815-825, 2006.
G. Jin, Nakhleh, L., Snir, S., and Tuller, T., Maximum likelihood of phylogenetic networks, Bioinformatics, vol. 22, pp. 2604-2611, 2006.
Y. Dotsenko, Coarfa, C., Nakhleh, L., Mellor-Crummey, J., and Roshan, U., PRec-I-DCM3: A Parallel Framework for Fast and Accurate Large Scale Phylogeny Reconstruction, International Journal on Bioinformatics Research and Applications, vol. 2, pp. 407-419, 2006.
D. Ruths and Nakhleh, L., RECOMP: A Parsimony-based Method for Detecting Recombination, in Proceedings of the Fourth Asia-Pacific Bioinformatics Conference, 2006, pp. 59-68.
I. Kanj, Nakhleh, L., and Xia, G., Reconstructing Evolution of Natural Languages: Complexity and Parameterized Algorithms, in Proceedings of the 12th Annual International Computing and Combinatorics Conference (COCOON 2006), 2006, vol. 4112, pp. 299-308.
D. Ruths and Nakhleh, L., Techniques for Assessing Phylogenetic Branch Support: A Performance Study, in Proceedings of the Fourth Asia-Pacific Bioinformatics Conference, 2006, pp. 187-196.
2005
L. Nakhleh, Warnow, T., Ringe, D., and Evans, S. N., A Comparison of Phylogenetic Reconstruction Methods on an IE Dataset, Transactions of the Philological Society, vol. 3, pp. 171-192, 2005.
Z. Du, Stamatakis, A., Lin, F., Roshan, U., and Nakhleh, L., Parallel divide-and-conquer phylogeny reconstruction by maximum likelihood, in Proceedings of the 2005 International Conference on High Performance Computing and Communications, 2005, vol. 2, pp. 346-350.
L. Nakhleh, Ringe, D., and Warnow, T., Perfect Phylogenetic Networks: A New Methodology for Reconstructing the Evolutionary History of Natural Languages, LANGUAGE, Journal of the Linguistic Society of America, vol. 81, pp. 382-420, 2005.
L. Nakhleh and Wang, L. S., Phylogenetic Networks: Properties and Relationship to Trees and Clusters, LNCS Transactions on Computational Systems Biology, II, vol. 3680, pp. 82-99, 2005.
L. Nakhleh and Wang, L. S., Phylogenetic networks, trees, and clusters, in Proceedings of the 2005 International Workshop on Bioinformatics Research and Applications (IWBRA 05), 2005, vol. 3515, pp. 919-926.
C. Coarfa, Dotsenko, Y., Mellor-Crummey, J., Nakhleh, L., and Roshan, U., PRec-I-DCM3: A Parallel Framework for Fast and Accurate Large Scale Phylogeny Reconstruction, in Proceedigns of the First IEEE Workshop on High Performance Computing in Medicine and Biology, 2005, vol. 2, pp. 346-350.
D. Ruths and Nakhleh, L., Recombination and phylogeny: effects and detection, International Journal on Bioinformatics Research and Applications, vol. 1, pp. 202-212, 2005.
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.
L. Nakhleh, Warnow, T., Linder, C. R., and John, S. K., Reconstructing reticulate evolution in species–theory and practice, in Journal of Computational Biology, 2005, vol. 12(6-7), pp. 796-811.
L. Nakhleh, Ruths, D., and Wang, L. S., RIATA-HGT: A Fast and accurate heuristic for reconstrucing horizontal gene transfer, in Proceedings of the Eleventh International Computing and Combinatorics Conference (COCOON 05), 2005, vol. 3595, pp. 84-93.

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