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RECOMB
2008
Springer
9 years 10 months ago
Sorting Cancer Karyotypes by Elementary Operations
Since the discovery of the "Philadelphia chromosome" in chronic myelogenous leukemia in 1960, there is an ongoing intensive research of chromosomal aberrations in cancer....
Michal Ozery-Flato, Ron Shamir
RECOMB
2008
Springer
9 years 10 months ago
Perfect DCJ Rearrangement
We study the problem of transforming a multichromosomal genome into another using Double-Cut-and-Join (DCJ) operations. We introduce the notion of DCJ scenario that does not break ...
Sèverine Bérard, Annie Chateau, Cedr...
RECOMB
2008
Springer
9 years 10 months ago
Ancestral Reconstruction by Asymmetric Wagner Parsimony over Continuous Characters and Squared Parsimony over Distributions
Abstract. Contemporary inferences about evolution occasionally involve analyzing infinitely large feature spaces, requiring specific algorithmic techniques. We consider parsimony a...
Miklós Csürös
RECOMB
2008
Springer
9 years 10 months ago
On Computing the Breakpoint Reuse Rate in Rearrangement Scenarios
In the past years, many combinatorial arguments have been made to support the theory that mammalian genome rearrangement scenarios rely heavily on breakpoint reuse. Different model...
Anne Bergeron, Julia Mixtacki, Jens Stoye
RECOMB
2008
Springer
9 years 10 months ago
Hurdles Hardly Have to Be Heeded
Abstract. As data about genomic architecture accumulates, genomic rearrangements have attracted increasing attention. One of the main rearrangement mechanisms, inversions (also cal...
Krister M. Swenson, Yu Lin, Vaibhav Rajan, Bernard...
RECOMB
2008
Springer
9 years 10 months ago
Internal Validation of Ancestral Gene Order Reconstruction in Angiosperm Phylogeny
Abstract. Whole genome doubling (WGD), a frequent occurrence during the evolution of the angiopsperms, complicates ancestral gene order reconstruction due to the multiplicity of so...
David Sankoff, Chunfang Zheng, P. Kerr Wall, Claud...
RECOMB
2008
Springer
9 years 10 months ago
A Phylogenetic Approach to Genetic Map Refinement
Following various genetic mapping techniques conducted on different segregating populations, one or more genetic maps are obtained for a given species. However, recombination analy...
Denis Bertrand, Mathieu Blanchette, Nadia El-Mabro...
RECOMB
2008
Springer
9 years 10 months ago
Integrating Sequence and Topology for Efficient and Accurate Detection of Horizontal Gene Transfer
Abstract. One phylogeny-based approach to horizontal gene transfer (HGT) detection entails comparing the topology of a gene tree to that of the species tree, and using their differ...
Cuong Than, Guohua Jin, Luay Nakhleh
RECOMB
2008
Springer
9 years 10 months ago
Algorithms for Exploring the Space of Gene Tree/Species Tree Reconciliations
We describe algorithms to explore the space of all possible reconciliations between a gene tree and a species tree. We propose an algorithm for generating a random reconciliation, ...
Jean-Philippe Doyon, Cedric Chauve, Sylvie Hamel
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