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Bioinformatics prediction of HIV coreceptor usage.
Nature biotechnology Dec, 2007 | Pubmed ID: 18066037
V3 loop sequence space analysis suggests different evolutionary patterns of CCR5- and CXCR4-tropic HIV.
PloS one , 2009 | Pubmed ID: 19816596
Decreased HIV diversity after allogeneic stem cell transplantation of an HIV-1 infected patient: a case report.
Virology journal , 2010 | Pubmed ID: 20210988
Improved detection of CXCR4-using HIV by V3 genotyping: application of population-based and "deep" sequencing to plasma RNA and proviral DNA.
Journal of acquired immune deficiency syndromes (1999) Aug, 2010 | Pubmed ID: 20512044
Population-based V3 genotypic tropism assay: a retrospective analysis using screening samples from the A4001029 and MOTIVATE studies.
AIDS (London, England) Oct, 2010 | Pubmed ID: 20736814
Improved prediction of HIVâ€1 coreceptor usage with sequence information from the second hypervariable loop of gp120.
The Journal of infectious diseases Nov, 2010 | Pubmed ID: 20874088
Dynamic escape of pre-existing raltegravir-resistant HIV-1 from raltegravir selection pressure.
Antiviral research Dec, 2010 | Pubmed ID: 20883724
In-depth analysis of G-to-A hypermutation rate in HIV-1 env DNA induced by endogenous APOBEC3 proteins using massively parallel sequencing.
Journal of virological methods Feb, 2011 | Pubmed ID: 21111003
Deep sequencing to infer HIV-1 co-receptor usage: application to three clinical trials of maraviroc in treatment-experienced patients.
The Journal of infectious diseases Jan, 2011 | Pubmed ID: 21288824
Mutations in gp41 are correlated with coreceptor tropism but do not improve prediction methods substantially.
Antiviral therapy , 2011 | Pubmed ID: 21555814
Genotypic tropism testing by massively parallel sequencing: qualitative and quantitative analysis.
BMC medical informatics and decision making , 2011 | Pubmed ID: 21569501
APOBEC3G/F as one possible driving force for co-receptor switch of the human immunodeficiency virus-1.
Medical microbiology and immunology Feb, 2012 | Pubmed ID: 21573951
Added value of deep sequencing relative to population sequencing in heavily pre-treated HIV-1-infected subjects.
PloS one , 2011 | Pubmed ID: 21602929
High concordance between the position-specific scoring matrix and geno2pheno algorithms for genotypic interpretation of HIV-1 tropism: V3 length as the major cause of disagreement.
Journal of clinical microbiology Sep, 2011 | Pubmed ID: 21734029
HIV-1 mutational pathways under multidrug therapy.
AIDS research and therapy , 2011 | Pubmed ID: 21794106
Deep V3 sequencing for HIV type 1 tropism in treatment-naive patients: a reanalysis of the MERIT trial of maraviroc.
Clinical infectious diseases : an official publication of the Infectious Diseases Society of America Oct, 2011 | Pubmed ID: 21890778
HIV-GRADE: A Publicly Available, Rules-Based Drug Resistance Interpretation Algorithm Integrating Bioinformatic Knowledge.
Intervirology , 2012 | Pubmed ID: 22286877
Geno2pheno[454]: A Web Server for the Prediction of HIV-1 Coreceptor Usage from Next-Generation Sequencing Data.
Intervirology , 2012 | Pubmed ID: 22286879
Saleta Sierra1,
Rolf Kaiser1,
Nadine Lübke1,
Alexander Thielen2,
Eugen Schuelter1,
Eva Heger1,
Martin Däumer3,
Stefan Reuter4,
Stefan Esser5,
Gerd Fätkenheuer6,
Herbert Pfister1,
Mark Oette7,
Thomas Lengauer2
1Institute of Virology, University of Cologne,
2, Max Planck Institute for Informatics,
3, Institute for Immune genetics,
4Department of Gastroenterology, Hepatology and Infectiology, University of Duesseldorf,
5Department of Dermatology, University of Essen,
6Department of Internal Medicine, University of Cologne,
7, Augustinerinnen Hospital
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