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» Genome rearrangements with duplications
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RECOMB
2010
Springer
14 years 8 months ago
An Approximation Algorithm for Computing a Parsimonious First Speciation in the Gene Duplication Model
We consider the following problem: given a forest of gene family trees on a set of genomes, find a first speciation which splits these genomes into two subsets and minimizes the ...
Aïda Ouangraoua, Krister M. Swenson, Cedric C...
JCB
2000
137views more  JCB 2000»
14 years 9 months ago
NOTUNG: A Program for Dating Gene Duplications and Optimizing Gene Family Trees
Large scale gene duplication is a major force driving the evolution of genetic functional innovation. Whole genome duplications are widely believed to have played an important rol...
Kevin Chen, Dannie Durand, Martin Farach-Colton
FCCM
2007
IEEE
117views VLSI» more  FCCM 2007»
15 years 4 months ago
FPGA Acceleration of Gene Rearrangement Analysis
In this paper we present our work toward FPGA acceleration of phylogenetic reconstruction, a type of analysis that is commonly performed in the fields of systematic biology and co...
Jason D. Bakos
WABI
2007
Springer
122views Bioinformatics» more  WABI 2007»
15 years 4 months ago
Algorithms for the Extraction of Synteny Blocks from Comparative Maps
In comparing genomic maps, it is often difficult to distinguish mapping errors and incorrectly resolved paralogies from genuine rearrangements of the genomes. A solution to this ...
Vicky Choi, Chunfang Zheng, Qian Zhu, David Sankof...
NAR
2008
122views more  NAR 2008»
14 years 10 months ago
EPGD: a comprehensive web resource for integrating and displaying eukaryotic paralog/paralogon information
Gene duplication is common in all three domains of life, especially in eukaryotic genomes. The duplicates provide new material for the action of evolutionary forces such as select...
Guohui Ding, Yan Sun, Hong Li, Zhen Wang, Haiwei F...