MPI-INF D3 Publications: Journal Article: Genotyping hepatitis B virus dual infections using population-based sequence data

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Author, Editor(s)

Author(s):

Beggel, Bastian
Neumann-Fraune, Maria
Doering, Matthias
Lawyer, Glenn
Kaiser, Rolf
Verheyen, Jens
Lengauer, Thomas

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Not MPG Author(s):

Neumann-Fraune, Maria
Doering, Matthias
Kaiser, Rolf
Verheyen, Jens

BibTeX cite key*:

Beggel2012

Title

Title*:

Genotyping hepatitis B virus dual infections using population-based sequence data

Journal

Journal Title*:	Journal of General Virology	Journal's URL:	http://vir.sgmjournals.org/
Download URL for the article:		Language:	English

Publisher

Publisher's Name:	Society for General Microbiology	Publisher's URL:	http://www.sgm.ac.uk
Publisher's Address:	Reading	ISSN:	0022-1317

Vol, No, pp, Date

Volume*:	9	Number:	93
Publishing Date:	September 2012
Pages*:	1899-1907	Number of VG Pages:
Page Start:	1899	Page End:	1907
Sequence Number:		DOI:	10.1099/vir.0.043042-0

Note:
(LaTeX) Abstract:	The hepatitis B virus (HBV) is classified into distinct genotypes A–H that are characterized by different progression of hepatitis B and sensitivity to interferon treatment. Previous computational genotyping methods are not robust enough regarding HBV dual infections with different genotypes. The correct classification of HBV sequences into the present genotypes is impaired due to multiple ambiguous sequence positions. We present a computational model that is able to identify and genotype inter- and intragenotype dual infections using population-based sequencing data. Model verification on synthetic data showed 100\% accuracy for intergenotype dual infections and 36.4\% sensitivity in intragenotype dual infections. Screening patient sera (n5241) revealed eight putative cases of intergenotype dual infection (one A–D, six A–G and one D–G) and four putative cases of intragenotype dual infection (one A–A, two D–D and one E–E). Clonal experiments from the original patient material confirmed three out of three of our predictions. The method has been integrated into geno2pheno[hbv], an established web-service in clinical use for analysing HBV sequence data. It offers exact and detailed identification of HBV genotypes in patients with dual infections that helps to optimize antiviral therapy regimens. geno2pheno[hbv] is available under http://www.genafor.org/g2p_hbv/index.php.
URL for the Abstract:	http://www.ncbi.nlm.nih.gov/pubmed?term=22694900
Categories, Keywords:	virology hepatitis genotyping dual infection
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Download Access Level:	Internal

Correlation

MPG Unit:	Max-Planck-Institut für Informatik

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

BibTeX Entry:

@ARTICLE{Beggel2012,
AUTHOR = {Beggel, Bastian and Neumann-Fraune, Maria and Doering, Matthias and Lawyer, Glenn and Kaiser, Rolf and Verheyen, Jens and Lengauer, Thomas},
TITLE = {Genotyping hepatitis B virus dual infections using population-based sequence data},
JOURNAL = {Journal of General Virology},
PUBLISHER = {Society for General Microbiology},
YEAR = {2012},
NUMBER = {93},
VOLUME = {9},
PAGES = {1899--1907},
ADDRESS = {Reading},
MONTH = {September},
ISBN = {0022-1317},
DOI = {10.1099/vir.0.043042-0},
}

Entry last modified by Anja Becker, 02/11/2013

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

	Editor(s) [Library]	Created 12/13/2012 14:03:30
Revisions 3. 2. 1. 0.	Editor(s) Anja Becker Manuel Lamotte-Schubert Bastian Beggel Bastian Beggel	Edit Dates 11.02.2013 14:22:08 21.12.2012 08:36:22 19.12.2012 13:39:00 13.12.2012 14:03:30