GeneTree: Comparing gene and species phylogenies using reconciled trees

Bioinformatics

Volumn 14, Issue 9, 1998, Pages 819-820

  Page, Roderic D M ^a  

^a UNIVERSITY OF GLASGOW   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; COMPARATIVE STUDY; COMPUTER PROGRAM; GENE DUPLICATION; GENE LOCATION; PHYLOGENY; PRIORITY JOURNAL; SPECIES;

EID: 0031774059     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/14.9.819     Document Type: Article

References (14)

1. Constantinescu, M. and Sankoff, D. (1986) Tree enumeration modulo a consensus. J. Classif., 3, 349-356.
2. Eulenstein, O. (1997) A linear time algorithm for tree mapping. Arbeitspapiere der GMD No. 1046, St Augustine, Germany.
3. Eulenstein, O., Mirkin, B. and Vingron, M. (1997) Comparison of annotating duplications, tree mapping, and copying as methods to compare gene trees with species trees. In Mirkin, B., McMorris, F.R., Roberts, F.S. and Rzhetsky, A. (eds), Mathematical Hierarchies in Biology, American Mathematical Society, Providence, Rhode Island, pp. 71-93.
4. Fitch, W.M. (1970) Distinguishing homologous from analogous proteins. Syst. Zool., 19, 99-113.
5. Goodman, M., Czelusniak, J., Moore, G.W., Romero-Herrera, A.E. and Matsuda, G. (1979) Fitting the gene lineage into its species lineage: a parsimony strategy illustrated by cladograms constructed from globin sequences. Syst. Zool., 28, 132-168.
6. Guigó, R., Muchnik, I. and Smith, T.F. (1996) Reconstruction of ancient molecular phylogeny. Mol. Phylogenet. Evol., 6, 189-213.
7. Maddison, D.R., Swofford, D.L. and Maddision, W.P. (1997) NEXUS: An extensible file format for systematic information. Syst. Biol., 46, 590-621.
8. Maddison, W.P. (1997) Gene trees in species trees. Syst. Biol., 46, 523-536.
9. Mirkin, B., Muchnik, I. and Smith, T.F. (1995) A biologically consistent model for comparing molecular phylogenies. J. Comput. Biol., 2, 493-507
10. Page, R.D.M. (1993) COMPONENT, Tree comparison software for Microsoft® Windows™, Version 2.0, The Natural History Museum, London.
11. Page, R.D.M. (1994) Maps between trees and cladistic analysis of historical associations among genes, organisms, and areas. Syst. Biol., 43, 58-77.
12. Page, R.D.M. and Charleston, M.A. (1997a) From gene to organismal phylogeny: reconciled trees and the gene tree/species tree problem. Mol. Phylogenet. Evol., 7, 231-240.
13. Page, R.D.M. and Charleston, M.A. (1997b) Reconciled trees and incongruent gene and species trees. In Mirkin, B., McMorris, F.R., Roberts, F.S. and Rzhetsky, A. (eds), Mathematical Hierarchies in Biology, American Mathematical Society, Providence, Rhode Island, pp. 57-70.
14. Slowinski, J., Knight, A. and Rooney, A.P. (1997) Inferring species trees from gene trees: a phylogenetic analysis of the Elapidae (Serpentes) based on the amino acid sequences of venom proteins. Mol. Phylogenet. Evol., 8, 349-362.