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» Phylogenetics by likelihood: Evolutionary modeling as a tool...
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JBI
2006
13 years 4 months ago
Phylogenetics by likelihood: Evolutionary modeling as a tool for understanding the genome
Molecular evolutionary studies provide a means of investigating how cells function and how organisms adapt to their environment. The products of evolutionary studies provide medic...
Carolin Kosiol, Lee Bofkin, Simon Whelan
BMCBI
2005
118views more  BMCBI 2005»
13 years 4 months ago
Vestige: Maximum likelihood phylogenetic footprinting
Background: Phylogenetic footprinting is the identification of functional regions of DNA by their evolutionary conservation. This is achieved by comparing orthologous regions from...
Matthew J. Wakefield, Peter Maxwell, Gavin A. Hutt...
RECOMB
2003
Springer
14 years 4 months ago
Combining phylogenetic and hidden Markov models in biosequence analysis
A few models have appeared in recent years that consider not only the way substitutions occur through evolutionary history at each site of a genome, but also the way the process c...
Adam C. Siepel, David Haussler
IPPS
2009
IEEE
13 years 11 months ago
Exploring FPGAs for accelerating the phylogenetic likelihood function
Driven by novel biological wet lab techniques such as pyrosequencing there has been an unprecedented molecular data explosion over the last 2-3 years. The growth of biological seq...
Nikolaos Alachiotis, Euripides Sotiriades, Apostol...
BMCBI
2010
109views more  BMCBI 2010»
13 years 4 months ago
FPGA acceleration of the phylogenetic likelihood function for Bayesian MCMC inference methods
Background: Likelihood (ML)-based phylogenetic inference has become a popular method for estimating the evolutionary relationships among species based on genomic sequence data. Th...
Stephanie Zierke, Jason D. Bakos