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» Algorithms for phylogenetic footprinting
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BMCBI
2010
118views more  BMCBI 2010»
13 years 7 months ago
Detecting lateral gene transfers by statistical reconciliation of phylogenetic forests
Background: To understand the evolutionary role of Lateral Gene Transfer (LGT), accurate methods are needed to identify transferred genes and infer their timing of acquisition. Ph...
Sophie S. Abby, Eric Tannier, Manolo Gouy, Vincent...
BMCBI
2010
118views more  BMCBI 2010»
13 years 7 months ago
From learning taxonomies to phylogenetic learning: Integration of 16S rRNA gene data into FAME-based bacterial classification
Background: Machine learning techniques have shown to improve bacterial species classification based on fatty acid methyl ester (FAME) data. Nonetheless, FAME analysis has a limit...
Bram Slabbinck, Willem Waegeman, Peter Dawyndt, Pa...
WEA
2007
Springer
114views Algorithms» more  WEA 2007»
14 years 1 months ago
Improving Tree Search in Phylogenetic Reconstruction from Genome Rearrangement Data
Abstract. A major task in evolutionary biology is to determine the ancestral relationships among the known species, a process generally referred as phylogenetic reconstruction. In ...
Fei Ye, Yan Guo, Andrew Lawson, Jijun Tang
IPPS
2003
IEEE
14 years 21 days ago
Phylogenetic Tree Inference on PC Architectures with AxML/PAxML
Inference of phylogenetic trees comprising hundreds or even thousands of organisms based on the maximum likelihood method is computationally extremely expensive. In previous work,...
Alexandros Stamatakis, Thomas Ludwig 0002
PSB
2004
13 years 8 months ago
Phylogenetic Motif Detection by Expectation-Maximization on Evolutionary Mixtures
ct The preferential conservation of transcription factor binding sites implies that non-coding sequence data from related species will prove a powerful asset to motif discovery. We...
Alan M. Moses, Derek Y. Chiang, Michael B. Eisen