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Research ArticleCONFERENCE PROCEEDING

Cataloguing the Taxonomic Origins of Sequences from a Heterogeneous Sample Using Phylogenomics: Applications in Adventitious Agent Detection

Robert L. Charlebois, Siemon H. S. Ng, Lucy Gisonni-Lex and Laurent Mallet
PDA Journal of Pharmaceutical Science and Technology November 2014, 68 (6) 602-618; DOI: https://doi.org/10.5731/pdajpst.2014.01023
Robert L. Charlebois
1Sanofi Pasteur, Analytical Research and Development North America, Toronto, Ontario, Canada; and
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  • For correspondence: robert.charlebois@sanofipasteur.com
Siemon H. S. Ng
1Sanofi Pasteur, Analytical Research and Development North America, Toronto, Ontario, Canada; and
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Lucy Gisonni-Lex
1Sanofi Pasteur, Analytical Research and Development North America, Toronto, Ontario, Canada; and
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Laurent Mallet
2Sanofi Pasteur, Analytical Research and Development Europe, Marcy L'Étoile, France
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Article Information

vol. 68 no. 6 602-618
DOI 
https://doi.org/10.5731/pdajpst.2014.01023
PubMed 
25475635

Published By 
Parenteral Drug Association (PDA)
Print ISSN 
1079-7440
Online ISSN 
1948-2124
History 
  • Published online December 4, 2014.

Copyright & Usage 
© PDA, Inc. 2014

Author Information

  1. Robert L. Charlebois1,*,
  2. Siemon H. S. Ng1,
  3. Lucy Gisonni-Lex1 and
  4. Laurent Mallet2
  1. 1Sanofi Pasteur, Analytical Research and Development North America, Toronto, Ontario, Canada; and
  2. 2Sanofi Pasteur, Analytical Research and Development Europe, Marcy L'Étoile, France
  1. ↵*Corresponding Author: Telephone: 1-416-667-2700; e-mail: robert.charlebois{at}sanofipasteur.com
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    mSphere 2017 2 5
  • Sensitivity and breadth of detection of high-throughput sequencing for adventitious virus detection
    Robert L. Charlebois, Sarmitha Sathiamoorthy, Carine Logvinoff, Lucy Gisonni-Lex, Laurent Mallet, Siemon H. S. Ng
    npj Vaccines 2020 5 1
  • Report of the second international conference on next generation sequencing for adventitious virus detection in biologics for humans and animals
    Arifa S. Khan, Johannes Blümel, Dieter Deforce, Marion F. Gruber, Carmen Jungbäck, Ivana Knezevic, Laurent Mallet, David Mackay, Jelle Matthijnssens, Maureen O'Leary, Sebastiaan Theuns, Joseph Victoria, Pieter Neels
    Biologicals 2020 67
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    Arifa S. Khan, Luca Benetti, Johannes Blumel, Dieter Deforce, William M. Egan, Ivana Knezevic, Philip R. Krause, Laurent Mallet, Dietmar Mayer, Philip D. Minor, Pieter Neels, Guanhua Wang
    Biologicals 2018 55
  • Report of the 2019 NIST-FDA workshop on standards for next generation sequencing detection of viral adventitious agents in biologics and biomanufacturing
    Megan H. Cleveland, Bharathi Anekella, Michael Brewer, Pei-Ju Chin, Heather Couch, Eric Delwart, Jim Huggett, Scott Jackson, Javier Martin, Serge Monpoeho, Tom Morrison, Siemon H.S. Ng, David Ussery, Arifa S. Khan
    Biologicals 2020 64
  • k -mer-Based Metagenomics Tools Provide a Fast and Sensitive Approach for the Detection of Viral Contaminants in Biopharmaceutical and Vaccine Manufacturing Applications Using Next-Generation Sequencing
    Madolyn L. MacDonald, Shawn W. Polson, Kelvin H. Lee, Angela L. Rasmussen
    mSphere 2021 6 2
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PDA Journal of Pharmaceutical Science and Technology: 68 (6)
PDA Journal of Pharmaceutical Science and Technology
Vol. 68, Issue 6
November/December 2014
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Cataloguing the Taxonomic Origins of Sequences from a Heterogeneous Sample Using Phylogenomics: Applications in Adventitious Agent Detection
Robert L. Charlebois, Siemon H. S. Ng, Lucy Gisonni-Lex, Laurent Mallet
PDA Journal of Pharmaceutical Science and Technology Nov 2014, 68 (6) 602-618; DOI: 10.5731/pdajpst.2014.01023

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Cataloguing the Taxonomic Origins of Sequences from a Heterogeneous Sample Using Phylogenomics: Applications in Adventitious Agent Detection
Robert L. Charlebois, Siemon H. S. Ng, Lucy Gisonni-Lex, Laurent Mallet
PDA Journal of Pharmaceutical Science and Technology Nov 2014, 68 (6) 602-618; DOI: 10.5731/pdajpst.2014.01023
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  • Article
    • Abstract
    • Introduction
    • Materials and Methods
    • Equation 1: Precision
    • Equation 2: Recall
    • Equation 3: Fβ
    • Equation 4: Chi-squared
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Cited By...

  • k-mer-Based Metagenomics Tools Provide a Fast and Sensitive Approach for the Detection of Viral Contaminants in Biopharmaceutical and Vaccine Manufacturing Applications Using Next-Generation Sequencing
  • A Multicenter Study To Evaluate the Performance of High-Throughput Sequencing for Virus Detection
  • Google Scholar

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Show more CONFERENCE PROCEEDING

Development and Optimization of Data Analysis Pipelines

  • A Practical Approach to a Viral Detection Pipeline Using Existing Viral and Non-Viral Sequence Resources
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Keywords

  • Adventitious agent detection
  • Bioinformatics
  • Metagenomics

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