Publications associated with this project
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Bansal, M. S., J. Dong, and D.Fernandez-Baca. 2008. Aggregating Partially Resolved Trees. Proceedings of the 8th Latin American Theoretical Informatics Symposium, Springer Lecture Notes in Computer Science. In press.
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| Fernandez-Baca, D. and B. 2008. Parametric Analysis of Ungapped Markov Models of Evolution. ACM Transactions on Algorithms. In press. | |||
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Sanderson, M. J., D. Boss, D. Chen, K. A. Cranston, and A. Wehe. The PhyLoTA Browser: processing GenBank for molecular phylogenetics research. [In review]
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Ane, C., O. Eulenstein, R. Piaggio-Talice, and M. J. Sanderson. Groves of phylogenetic trees. Annals of Combinatorics. In press.
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| 2007 | |||
| Chen, D. J. G. Burleigh, and D. Fernandez-Baca. 2007. Spectral Partitioning of Phylogenetic Data Sets Based on Compatibility. Systematic Biology 56: 623-632. | |||
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Bansal, M. S., and O. Eulenstein. 2007. An Omega(n2/log n) speed-up of TBR heuristics for the gene-duplication problem. WABI 2007: 124-135
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Bansal, M. S., J. G. Burleigh, O. Eulenstein, A. Wehe. 2007. Heuristics for the gene-duplication problem: A theta(n) speed-up for the local search. RECOMB 2007: 238-252.
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Sanderson, M. J., C. Ane, O. Eulenstein, D. Fernandez-Baca, J. Kim, M. M. McMahon, and R. Piaggio-Talice. 2007. Fragmentation of large data sets in phylogenetic analyses. Pp. 199-216 in (M. Steel and O. Gascuel, eds.) Reconstructing Evolution: New Mathematical and Computational Advances. Oxford University Press.
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Sanderson, M. J. 2007. Construction and annotation of large phylogenetic trees. Australian Systematic Botany 4:287-301.
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Sanderson, M. J., and M. M. McMahon. 2007. Inferring angiosperm phylogeny from EST data with widespread gene duplication. BMC Evolutionary Biology, 7 (suppl. 1): S3.
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| 2006 | |||
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Chang, W.-H, and O. Eulenstein: Reconciling Gene Trees with Apparent Polytomies. COCOON 2006: 235-244.
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Chen, D., O. Eulenstein, D. Fernandez-Baca, and J. G. Burleigh. 2006. Improved heuristics for minimum-flip supertree construction. Evolutionary Bioinformatics 2:401-410.
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Chen, D., O. Eulenstein, D. Fernandez-Baca, and M. J. Sanderson. 2006. Minimum flip supertrees: complexity and algorithms. IEEE Trans. Comp. Biology & Bioinformatics 3:165-173.
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Burleigh, J. G., A. C. Driskell,, and M. J. Sanderson. 2006. Supertree bootstrapping methods for assessing phylogenetic variation among genes in genome-scale data sets. Syst. Biol. 55:426-440.
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Smythe, A. B., M. J. Sanderson, and S. A. Nadler. 2006. Nematode small subunit phylogeny correlates with alignment. Syst. Biol., 55:972-992.
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McMahon, M. M., and M. J. Sanderson. Phylogenetic supermatrix analysis of GenBank sequences from 2228 papilionoid legumes. Systematic Biology, 55:818-836.
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Sanderson, M. J. 2006. Paloverde: an OpenGL 3-D phylogeny browser. Bioinformatics, 22:1004-1006.
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| 2005 | |||
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Yan, C. H., J. G. Burleigh, and O. Eulenstein. 2005. Identifying optimal incomplete phylogenetic data sets from sequence databases. Molecular Phylogenetics and Evolution 35:528-535.
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Ane, C., and M. J. Sanderson. 2005. Missing the forest for the trees: phylogenetic compression and its implications for inferring complex evolutionary histories. Syst. Biol., 54:146-157.
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| 2004 | |||
| Driskell, AC, C Ané, JG Burleigh, MM McMahon, BC
O'Meara, MJ Sanderson. 2004. Prospects for building the tree of life from large sequence databases.
Science 306:1172-4. |
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| 2003 | |||
| Sanderson, MJ, AC
Driskell, RH Ree, O Eulenstein, S Langley. 2003. Obtaining maximal concatenated phylogenetic
data sets from large sequence databases. Mol. Biol. Evol. 20: 1036-1042. |
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