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Prediction of post-vaccine population structure of Streptococcus pneumoniae using accessory gene frequencies

View ORCID ProfileTaj Azarian, View ORCID ProfilePamela P Martinez, Brian J Arnold, Lindsay R Grant, Jukka Corander, View ORCID ProfileChristophe Fraser, View ORCID ProfileNicholas J Croucher, Laura L Hammitt, Raymond Reid, Mathuram Santosham, Robert C Weatherholtz, Stephen D Bentley, Katherine L O’Brien, View ORCID ProfileMarc Lipsitch, View ORCID ProfileWilliam P Hanage
doi: https://doi.org/10.1101/420315
Taj Azarian
1Burnett School of Biomedical Sciences, University of Central Florida, Orlando, FL
2Center for Communicable Disease Dynamics, Department of Epidemiology, T.H. Chan School of Public Health, Harvard University, Boston MA
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Pamela P Martinez
2Center for Communicable Disease Dynamics, Department of Epidemiology, T.H. Chan School of Public Health, Harvard University, Boston MA
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Brian J Arnold
2Center for Communicable Disease Dynamics, Department of Epidemiology, T.H. Chan School of Public Health, Harvard University, Boston MA
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Lindsay R Grant
3Center for American Indian Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland
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Jukka Corander
4Helsinki Institute for Information Technology, Department of Mathematics and Statistics, University of Helsinki, 00014 Helsinki, Finland
5Department of Biostatistics, University of Oslo, 0317 Oslo, Norway
6Infection Genomics, The Wellcome Trust, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
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Christophe Fraser
7Big Data Institute, Nuffield Department of Medicine, University of Oxford, Oxford OX3 7LF, UK
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Nicholas J Croucher
8MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, London W2 1PG, UK
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Laura L Hammitt
3Center for American Indian Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland
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Raymond Reid
3Center for American Indian Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland
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Mathuram Santosham
3Center for American Indian Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland
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Robert C Weatherholtz
3Center for American Indian Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland
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Stephen D Bentley
6Infection Genomics, The Wellcome Trust, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
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Katherine L O’Brien
3Center for American Indian Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland
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Marc Lipsitch
2Center for Communicable Disease Dynamics, Department of Epidemiology, T.H. Chan School of Public Health, Harvard University, Boston MA
9Department of Immunology and Infectious Diseases, T.H. Chan School of Public Health, Harvard University, Boston MA
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William P Hanage
2Center for Communicable Disease Dynamics, Department of Epidemiology, T.H. Chan School of Public Health, Harvard University, Boston MA
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  • ORCID record for William P Hanage
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Article Information

doi 
https://doi.org/10.1101/420315
History 
  • September 18, 2018.

Article Versions

  • You are currently viewing Version 1 of this article (September 18, 2018 - 12:16).
  • Version 2 (April 17, 2019 - 21:22).
  • View Version 3, the most recent version of this article.
Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission.

Author Information

  1. Taj Azarian1,2,*,
  2. Pamela P Martinez2,
  3. Brian J Arnold2,
  4. Lindsay R Grant3,
  5. Jukka Corander4,5,6,
  6. Christophe Fraser7,
  7. Nicholas J Croucher8,
  8. Laura L Hammitt3,
  9. Raymond Reid3,
  10. Mathuram Santosham3,
  11. Robert C Weatherholtz3,
  12. Stephen D Bentley6,
  13. Katherine L O’Brien3,
  14. Marc Lipsitch2,9,* and
  15. William P Hanage2,*
  1. 1Burnett School of Biomedical Sciences, University of Central Florida, Orlando, FL
  2. 2Center for Communicable Disease Dynamics, Department of Epidemiology, T.H. Chan School of Public Health, Harvard University, Boston MA
  3. 3Center for American Indian Health, Johns Hopkins Bloomberg School of Public Health, Baltimore, Maryland
  4. 4Helsinki Institute for Information Technology, Department of Mathematics and Statistics, University of Helsinki, 00014 Helsinki, Finland
  5. 5Department of Biostatistics, University of Oslo, 0317 Oslo, Norway
  6. 6Infection Genomics, The Wellcome Trust, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK
  7. 7Big Data Institute, Nuffield Department of Medicine, University of Oxford, Oxford OX3 7LF, UK
  8. 8MRC Centre for Global Infectious Disease Analysis, Department of Infectious Disease Epidemiology, Imperial College London, London W2 1PG, UK
  9. 9Department of Immunology and Infectious Diseases, T.H. Chan School of Public Health, Harvard University, Boston MA
  1. Corresponding Author:
    Taj Azarian, PhD MPH Burnett School of Biomedical Science, College of Medicine University of Central Florida taj.azarian{at}ucf.edu
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Posted September 18, 2018.
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Prediction of post-vaccine population structure of Streptococcus pneumoniae using accessory gene frequencies
Taj Azarian, Pamela P Martinez, Brian J Arnold, Lindsay R Grant, Jukka Corander, Christophe Fraser, Nicholas J Croucher, Laura L Hammitt, Raymond Reid, Mathuram Santosham, Robert C Weatherholtz, Stephen D Bentley, Katherine L O’Brien, Marc Lipsitch, William P Hanage
bioRxiv 420315; doi: https://doi.org/10.1101/420315
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Prediction of post-vaccine population structure of Streptococcus pneumoniae using accessory gene frequencies
Taj Azarian, Pamela P Martinez, Brian J Arnold, Lindsay R Grant, Jukka Corander, Christophe Fraser, Nicholas J Croucher, Laura L Hammitt, Raymond Reid, Mathuram Santosham, Robert C Weatherholtz, Stephen D Bentley, Katherine L O’Brien, Marc Lipsitch, William P Hanage
bioRxiv 420315; doi: https://doi.org/10.1101/420315

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