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BMCBI
2007
165views more  BMCBI 2007»
13 years 3 months ago
Direct maximum parsimony phylogeny reconstruction from genotype data
Background: Maximum parsimony phylogenetic tree reconstruction from genetic variation data is a fundamental problem in computational genetics with many practical applications in p...
Srinath Sridhar, Fumei Lam, Guy E. Blelloch, R. Ra...
TCBB
2008
122views more  TCBB 2008»
13 years 3 months ago
Mixed Integer Linear Programming for Maximum-Parsimony Phylogeny Inference
Reconstruction of phylogenetic trees is a fundamental problem in computational biology. While excellent heuristic methods are available for many variants of this problem, new adva...
Srinath Sridhar, Fumei Lam, Guy E. Blelloch, R. Ra...
COCOON
2005
Springer
13 years 9 months ago
Quartet-Based Phylogeny Reconstruction from Gene Orders
Abstract. Phylogenetic reconstruction from gene-rearrangement data is attracting increasing attention from biologists and computer scientists. Methods used in reconstruction includ...
Tao Liu, Jijun Tang, Bernard M. E. Moret
WABI
2009
Springer
117views Bioinformatics» more  WABI 2009»
13 years 10 months ago
A Simulation Study Comparing Supertree and Combined Analysis Methods Using SMIDGen
Background: Supertree methods comprise one approach to reconstructing large molecular phylogenies given multi-marker datasets: trees are estimated on each marker and then combined...
M. Shel Swenson, François Barbançon,...
SODA
2004
ACM
124views Algorithms» more  SODA 2004»
13 years 5 months ago
On contract-and-refine transformations between phylogenetic trees
The inference of evolutionary trees using approaches which attempt to solve the maximum parsimony (MP) and maximum likelihood (ML) optimization problems is a standard part of much...
Ganeshkumar Ganapathy, Vijaya Ramachandran, Tandy ...