MPI-INF D3 Publications: Journal Article: Stability analysis of mixtures of mutagenetic trees

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Author, Editor(s)

Author(s):

Bogojeska, Jasmina
Lengauer, Thomas
Rahnenführer, Jörg

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Not MPG Author(s):

Rahnenführer, Jörg

BibTeX cite key*:

Bogojeska_bmc_2008

Title

Title*:

Stability analysis of mixtures of mutagenetic trees

Journal

Journal Title*:	BMC Bioinformatics	Journal's URL:	http://www.biomedcentral.com/bmcbioinformatics/
Download URL for the article:	http://www.biomedcentral.com/1471-2105/9/165	Language:	English

Publisher

Publisher's Name:	BioMed Central	Publisher's URL:
Publisher's Address:	London, UK	ISSN:	1471-2105

Vol, No, pp, Date

Volume*:	9	Number:	1
Publishing Date:	March 2008
Pages*:	165-181	Number of VG Pages:
Page Start:		Page End:
Sequence Number:	165	DOI:	10.1186/1471-2105-9-165

Note:
(LaTeX) Abstract:	BACKGROUND: Mixture models of mutagenetic trees are evolutionary models that capture several pathways of ordered accumulation of genetic events observed in different subsets of patients. They were used to model HIV progression by accumulation of resistance mutations in the viral genome under drug pressure and cancer progression by accumulation of chromosomal aberrations in tumor cells. From the mixture models a genetic progression score (GPS) can be derived that estimates the genetic status of single patients according to the corresponding progression along the tree models. GPS values were shown to have predictive power for estimating drug resistance in HIV or the survival time in cancer. Still, the reliability of the exact values of such complex markers derived from graphical models can be questioned. RESULTS: In a simulation study, we analyzed various aspects of the stability of estimated mutagenetic trees mixture models. It turned out that the induced probabilistic distributions and the tree topologies are recovered with high precision by an EM-like learning algorithm. However, only for models with just one major model component, also GPS values for single patients can be reliably estimated. CONCLUSIONS: It is encouraging that the estimation process of mutagenetic trees mixture models can be performed with high confidence regarding induced probability distributions and the general shape of the tree topologies. For a model with only one major disease progression process, even genetic progression scores for single patients can be reliably estimated. However, for models with more than one relevant component, alternative measures should be introduced for estimating the stage of disease progression.
URL for the Abstract:	http://www.biomedcentral.com/1471-2105/9/165/abstract/
Categories, Keywords:	stability analysis, mutagenetic trees, GPS, HIV drug resistance
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Download Access Level:	Internal

Correlation

MPG Unit:	Max-Planck-Institut für Informatik

MPG Subunit:	Computational Biology and Applied Algorithmics
Appearance:	MPII WWW Server, MPII FTP Server, MPG publications list, university publications list, working group publication list, Fachbeirat, VG Wort

BibTeX Entry:

@ARTICLE{Bogojeska_bmc_2008,
AUTHOR = {Bogojeska, Jasmina and Lengauer, Thomas and Rahnenf{\"u}hrer, J{\"o}rg},
TITLE = {Stability analysis of mixtures of mutagenetic trees},
JOURNAL = {BMC Bioinformatics},
PUBLISHER = {BioMed Central},
YEAR = {2008},
NUMBER = {1},
VOLUME = {9},
PAGES = {165--181},
ADDRESS = {London, UK},
MONTH = {March},
ISBN = {1471-2105},
DOI = {10.1186/1471-2105-9-165},
}

Entry last modified by Ruth Schneppen-Christmann, 03/03/2009

Edit History (please click the blue arrow to see the details)

	Editor(s) Jasmina Bogojeska	Created 01/22/2009 15:02:38
Revision 1. 0.	Editor Ruth Schneppen-Christmann Jasmina Bogojeska	Edit Date 22.01.2009 15:23:36 01/22/2009 03:02:38 PM