A Hybrid Micro-Macroevolutionary Approach to Gene Tree Reconstruction
暂无分享,去创建一个
Dannie Durand | Bjarni V. Halldórsson | Benjamin Vernot | Bjarni V. Halldórsson | B. Halldórsson | Benjamin Vernot | D. Durand
[1] R. Page,et al. Trees within trees: phylogeny and historical associations. , 1998, Trends in ecology & evolution.
[2] Charles Elkan,et al. Fitting a Mixture Model By Expectation Maximization To Discover Motifs In Biopolymer , 1994, ISMB.
[3] A. Hughes,et al. Phylogenetic tests of the hypothesis of block duplication of homologous genes on human chromosomes 6, 9, and 1. , 1998, Molecular biology and evolution.
[4] Temple F. Smith,et al. Reconstruction of ancient molecular phylogeny. , 1996, Molecular phylogenetics and evolution.
[5] Louxin Zhang,et al. On a Mirkin-Muchnik-Smith Conjecture for Comparing Molecular Phylogenies , 1997, J. Comput. Biol..
[6] Martin Vingron,et al. Duplication-Based Measures of Difference Between Gene and Species Trees , 1998, J. Comput. Biol..
[7] Pawel Górecki,et al. Reconciliation problems for duplication, loss and horizontal gene transfer , 2004, RECOMB.
[8] Alan Filipski,et al. Neighbor-Joining Method , 2004 .
[9] Sean R. Eddy,et al. ATV: display and manipulation of annotated phylogenetic , 2001, Bioinform..
[10] D. Higgins,et al. T-Coffee: A novel method for fast and accurate multiple sequence alignment. , 2000, Journal of molecular biology.
[11] David S. Johnson,et al. The computational complexity of inferring rooted phylogenies by parsimony , 1986 .
[12] R. Page,et al. From gene to organismal phylogeny: reconciled trees and the gene tree/species tree problem. , 1997, Molecular phylogenetics and evolution.
[13] W. H. Day. Computational complexity of inferring phylogenies from dissimilarity matrices. , 1987, Bulletin of mathematical biology.
[14] Julie Dawn Thompson,et al. Improved sensitivity of profile searches through the use of sequence weights and gap excision , 1994, Comput. Appl. Biosci..
[15] Michael T. Hallett,et al. Simultaneous identification of duplications and lateral transfers , 2004, RECOMB.
[16] Bengt Sennblad,et al. Bayesian gene/species tree reconciliation and orthology analysis using MCMC , 2003, ISMB.
[17] Michael A. Charleston,et al. Reconciled trees and incongruent gene and species trees , 1996, Mathematical Hierarchies and Biology.
[18] Bin Ma,et al. From Gene Trees to Species Trees , 2000, SIAM J. Comput..
[19] N. Saitou,et al. The neighbor-joining method: a new method for reconstructing phylogenetic trees. , 1987, Molecular biology and evolution.
[20] John P. Huelsenbeck,et al. MrBayes 3: Bayesian phylogenetic inference under mixed models , 2003, Bioinform..
[21] K. Nicholas,et al. GeneDoc: Analysis and visualization of genetic variation , 1997 .
[22] Guy Perrière,et al. Tree pattern matching in phylogenetic trees: automatic search for orthologs or paralogs in homologous gene sequence databases , 2005, Bioinform..
[23] Tamir Tuller,et al. Maximum Likelihood of Evolutionary Trees Is Hard , 2005, RECOMB.
[24] G. Moore,et al. Fitting the gene lineage into its species lineage , 1979 .
[25] Michael T. Hallett,et al. New algorithms for the duplication-loss model , 2000, RECOMB '00.
[26] B. Efron,et al. A Leisurely Look at the Bootstrap, the Jackknife, and , 1983 .
[27] D. Sheehan,et al. Structure, function and evolution of glutathione transferases: implications for classification of non-mammalian members of an ancient enzyme superfamily. , 2001, The Biochemical journal.
[28] Martin Vingron,et al. Comparison of annotating duplication, tree mapping, and copying as methods to compare gene trees with species trees , 1996, Mathematical Hierarchies and Biology.
[29] Michael T. Hallett,et al. Efficient algorithms for lateral gene transfer problems , 2001, RECOMB.
[30] R. Page. Maps between trees and cladistic analysis of historical associations among genes , 1994 .
[31] L. Silver,et al. Newly identified paralogous groups on mouse chromosomes 5 and 11 reveal the age of a T-box cluster duplication. , 1997, Genomics.
[32] Ulrike Stege,et al. Gene Trees and Species Trees: The Gene-Duplication Problem in Fixed-Parameter Tractable , 1999, WADS.
[33] Roderic D. M. Page,et al. GeneTree: comparing gene and species phylogenies using reconciled trees , 1998, Bioinform..
[34] Ilya B. Muchnik,et al. A Biologically Consistent Model for Comparing Molecular Phylogenies , 1995, J. Comput. Biol..
[35] D. Birnbaum,et al. Ancient large-scale genome duplications: phylogenetic and linkage analyses shed light on chordate genome evolution. , 1998, Molecular biology and evolution.
[36] Dannie Durand,et al. NOTUNG: A Program for Dating Gene Duplications and Optimizing Gene Family Trees , 2000, J. Comput. Biol..
[37] Bengt Sennblad,et al. Gene tree reconstruction and orthology analysis based on an integrated model for duplications and sequence evolution , 2004, RECOMB.
[38] Sean R. Eddy,et al. A simple algorithm to infer gene duplication and speciation events on a gene tree , 2001, Bioinform..