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Easy and Accurate Reconstruction of Whole HIV Genomes from Short-Read Sequence Data
Chris Wymant, François Blanquart, Astrid Gall, Margreet Bakker, Daniela Bezemer, Nicholas J. Croucher, Tanya Golubchik, Matthew Hall, Mariska Hillebregt, Swee Hoe Ong, Jan Albert, Norbert Bannert, Jacques Fellay, Katrien Fransen, Annabelle Gourlay, M. Kate Grabowski, Barbara Gunsenheimer-Bartmeyer, Huldrych F. Günthard, Pia Kivelä, Roger Kouyos, Oliver Laeyendecker, Kirsi Liitsola, Laurence Meyer, Kholoud Porter, Matti Ristola, Ard van Sighem, Guido Vanham, Ben Berkhout, Marion Cornelissen, Paul Kellam, Peter Reiss, Christophe Fraser, The BEEHIVE Collaboration
doi: https://doi.org/10.1101/092916
Chris Wymant
1Oxford Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, University of Oxford, UK
2Medical Research Council Centre for Outbreak Analysis and Modelling, Department of Infectious Disease Epidemiology, Imperial College London, London, UK
François Blanquart
2Medical Research Council Centre for Outbreak Analysis and Modelling, Department of Infectious Disease Epidemiology, Imperial College London, London, UK
Astrid Gall
3Virus Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
Margreet Bakker
4Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam (CINIMA), Academic Medical Center of the University of Amsterdam, Amsterdam, The Netherlands
Daniela Bezemer
5Stichting HIV Monitoring, Amsterdam, The Netherlands
Nicholas J. Croucher
2Medical Research Council Centre for Outbreak Analysis and Modelling, Department of Infectious Disease Epidemiology, Imperial College London, London, UK
Tanya Golubchik
1Oxford Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, University of Oxford, UK
6Wellcome Trust Centre for Human Genetics, Nuffield Department of Medicine, University of Oxford, UK
Matthew Hall
1Oxford Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, University of Oxford, UK
2Medical Research Council Centre for Outbreak Analysis and Modelling, Department of Infectious Disease Epidemiology, Imperial College London, London, UK
Mariska Hillebregt
5Stichting HIV Monitoring, Amsterdam, The Netherlands
Swee Hoe Ong
3Virus Genomics, Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
Jan Albert
7Department of Microbiology, Tumor and Cell Biology, Karolinska Institutet, Stockholm, Sweden
8Department of Clinical Microbiology, Karolinska University Hospital, Stockholm, Sweden
Norbert Bannert
9Division for HIV and other Retroviruses, Robert Koch Institute, Berlin, Germany
Jacques Fellay
10School of Life Sciences, Ecole Polytechnique Fédérale de Lausanne, Switzerland
11Swiss Institute of Bioinformatics, Lausanne, Switzerland
Katrien Fransen
12HIV/STI reference laboratory, WHO collaborating centre, Institute of Tropical Medicine, Department of Clinical Science, Antwerpen, Belgium
Annabelle Gourlay
13Department of Infection and Population Health, University College London, London, UK
M. Kate Grabowski
14John Hopkins University, Baltimore, USA
Barbara Gunsenheimer-Bartmeyer
15Department of Infectious Disease Epidemiology, Robert Koch-Institute, Berlin, Germany
Huldrych F. Günthard
16Division of Infectious Diseases and Hospital Epidemiology, University Hospital Zurich, Zurich, Switzerland
17Institute of Medical Virology, University of Zurich, Switzerland
Pia Kivelä
18Department of infectious Diseases, Helsinki University Hospital, Helsinki, Finland
Roger Kouyos
16Division of Infectious Diseases and Hospital Epidemiology, University Hospital Zurich, Zurich, Switzerland
17Institute of Medical Virology, University of Zurich, Switzerland
Oliver Laeyendecker
19Laboratory of Immunoregulation, NIAID, NIH, Baltimore, USA
Kirsi Liitsola
18Department of infectious Diseases, Helsinki University Hospital, Helsinki, Finland
Laurence Meyer
20INSERM CESP U1018, Université Paris Sud, Université Paris Saclay, APHP, Service de Santé Publique, Hôpital de Bicêtre, Le Kremlin-Bicêtre, France
Kholoud Porter
13Department of Infection and Population Health, University College London, London, UK
Matti Ristola
18Department of infectious Diseases, Helsinki University Hospital, Helsinki, Finland
Ard van Sighem
5Stichting HIV Monitoring, Amsterdam, The Netherlands
Guido Vanham
21Virology Unit, Immunovirology Research Pole, Biomedical Sciences Department, Institute of Tropical Medicine, Antwerpen, Belgium
Ben Berkhout
4Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam (CINIMA), Academic Medical Center of the University of Amsterdam, Amsterdam, The Netherlands
Marion Cornelissen
4Laboratory of Experimental Virology, Department of Medical Microbiology, Center for Infection and Immunity Amsterdam (CINIMA), Academic Medical Center of the University of Amsterdam, Amsterdam, The Netherlands
Paul Kellam
22Kymab Ltd, Cambridge, UK
23Division of Infectious Diseases, Department of Medicine, Imperial College London, London, UK
Peter Reiss
5Stichting HIV Monitoring, Amsterdam, The Netherlands
Christophe Fraser
1Oxford Big Data Institute, Li Ka Shing Centre for Health Information and Discovery, Nuffield Department of Medicine, University of Oxford, UK
2Medical Research Council Centre for Outbreak Analysis and Modelling, Department of Infectious Disease Epidemiology, Imperial College London, London, UK
Article usage
Posted December 13, 2016.
Easy and Accurate Reconstruction of Whole HIV Genomes from Short-Read Sequence Data
Chris Wymant, François Blanquart, Astrid Gall, Margreet Bakker, Daniela Bezemer, Nicholas J. Croucher, Tanya Golubchik, Matthew Hall, Mariska Hillebregt, Swee Hoe Ong, Jan Albert, Norbert Bannert, Jacques Fellay, Katrien Fransen, Annabelle Gourlay, M. Kate Grabowski, Barbara Gunsenheimer-Bartmeyer, Huldrych F. Günthard, Pia Kivelä, Roger Kouyos, Oliver Laeyendecker, Kirsi Liitsola, Laurence Meyer, Kholoud Porter, Matti Ristola, Ard van Sighem, Guido Vanham, Ben Berkhout, Marion Cornelissen, Paul Kellam, Peter Reiss, Christophe Fraser, The BEEHIVE Collaboration
bioRxiv 092916; doi: https://doi.org/10.1101/092916
Easy and Accurate Reconstruction of Whole HIV Genomes from Short-Read Sequence Data
Chris Wymant, François Blanquart, Astrid Gall, Margreet Bakker, Daniela Bezemer, Nicholas J. Croucher, Tanya Golubchik, Matthew Hall, Mariska Hillebregt, Swee Hoe Ong, Jan Albert, Norbert Bannert, Jacques Fellay, Katrien Fransen, Annabelle Gourlay, M. Kate Grabowski, Barbara Gunsenheimer-Bartmeyer, Huldrych F. Günthard, Pia Kivelä, Roger Kouyos, Oliver Laeyendecker, Kirsi Liitsola, Laurence Meyer, Kholoud Porter, Matti Ristola, Ard van Sighem, Guido Vanham, Ben Berkhout, Marion Cornelissen, Paul Kellam, Peter Reiss, Christophe Fraser, The BEEHIVE Collaboration
bioRxiv 092916; doi: https://doi.org/10.1101/092916
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