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Bogojeska/etal/2008a: Rtreemix: an R package for estimating evolutionary pathways and genetic progression scores

Bibtype Article
Bibkey Bogojeska/etal/2008a
Author Jasmina Bogojeska and Adrian Alexa and André Altmann and Thomas Lengauer and Jörg Rahnenführer
Title Rtreemix: an R package for estimating evolutionary pathways and genetic progression scores
Journal Bioinformatics
Volume 24
Number 20
Pages 2391--2392
Institution Max Planck Institute for Informatics, Saarbrücken, Germany. jasmina@mpi-inf.mpg.de
Abstract In genetics, many evolutionary pathways can be modeled by the ordered accumulation of permanent changes. Mixture models of mutagenetic trees have been used to describe disease progression in cancer and in HIV. In cancer, progression is modeled by the accumulation of chromosomal gains and losses in tumor cells; in HIV, the accumulation of drug resistance-associated mutations in the viral genome is known to be associated with disease progression. From such evolutionary models, genetic progression scores can be derived that assign measures for the disease state to single patients. Rtreemix is an R package for estimating mixture models of evolutionary pathways from observed cross-sectional data and for estimating associated genetic progression scores. The package also provides extended functionality for estimating confidence intervals for estimated model parameters and for evaluating the stability of the estimated evolutionary mixture models.
Month Oct
Year 2008
Projekt SFB876-A3
Url http://dx.doi.org/10.1093/bioinformatics/btn410
 
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