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Capturing diverse microbial sequence with comprehensive and scalable probe design
View ORCID ProfileKatherine J. Siddle, View ORCID ProfileHayden C. Metsky, Adrianne Gladden-Young, James Qu, David K. Yang, Patrick Brehio, Andrew Goldfarb, Anne Piantadosi, Shirlee Wohl, Aaron E. Lin, Kayla G. Barnes, Damien C. Tully, Scott Hennigan, Giselle Barbosa-Lima, Yasmine R. Vieira, Lauren M. Paul, Amanda L. Tan, Kimberly F. Garcia, Leda A. Parham, Ikponmwonsa Odia, Philomena Eromon, Onikepe A. Folarin, Augustine Goba, Viral Hemorrhagic Fever Consortium, Etienne Simon-Lorière, Lisa Hensley, Angel Balmaseda, Eva Harris, Todd M. Allen, Jonathan A. Runstadler, Sandra Smole, Fernando A. Bozza, Thiago M. L. Souza, Sharon Isern, Scott F. Michael, Ivette Lorenzana, Lee Gehrke, Irene Bosch, Gregory Ebel, Christian Happi, Donald Grant, Daniel J. Park, Andreas Gnirke, Pardis C. Sabeti, Christian B. Matranga
doi: https://doi.org/10.1101/279570
Katherine J. Siddle
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
2Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
Hayden C. Metsky
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
3Department of Electrical Engineering and Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
Adrianne Gladden-Young
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
James Qu
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
David K. Yang
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
2Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
Patrick Brehio
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
Andrew Goldfarb
4Faculty of Arts and Sciences, Harvard University, Cambridge, Massachusetts, USA
Anne Piantadosi
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
5Division of Infectious Diseases, Massachusetts General Hospital, Boston, MA
Shirlee Wohl
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
2Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
Aaron E. Lin
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
2Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
Kayla G. Barnes
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
2Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
6Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, Harvard University, Boston, Massachusetts, USA
Damien C. Tully
7The Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA
Scott Hennigan
8Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, USA
Giselle Barbosa-Lima
9Fundação Oswaldo Cruz (FIOCRUZ), Rio de Janeiro, Rio de Janeiro, Brazil
Yasmine R. Vieira
9Fundação Oswaldo Cruz (FIOCRUZ), Rio de Janeiro, Rio de Janeiro, Brazil
Lauren M. Paul
10Department of Biological Sciences, College of Arts and Sciences, Florida Gulf Coast University, Fort Myers, Florida, USA
Amanda L. Tan
10Department of Biological Sciences, College of Arts and Sciences, Florida Gulf Coast University, Fort Myers, Florida, USA
Kimberly F. Garcia
11Instituto de Investigacion en Microbiologia, Universidad Nacional Autónoma de Honduras, Tegucigalpa, Honduras
Leda A. Parham
11Instituto de Investigacion en Microbiologia, Universidad Nacional Autónoma de Honduras, Tegucigalpa, Honduras
Ikponmwonsa Odia
12Institute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Edo State, Nigeria
Philomena Eromon
13African Center of Excellence for Genomics of Infectious Disease (ACEGID), Redeemer’s University, Ede, Osun State, Nigeria
Onikepe A. Folarin
13African Center of Excellence for Genomics of Infectious Disease (ACEGID), Redeemer’s University, Ede, Osun State, Nigeria
14Department of Biological Sciences, College of Natural Sciences, Redeemer’s University, Redemption City, Osun State, Nigeria
Augustine Goba
15Lassa Fever Laboratory, Kenema Government Hospital, Kenema, Eastern Province, Sierra Leone
16Tulane University, New Orleans, Louisiana, USA
Etienne Simon-Lorière
17Evolutionary genomics of RNA viruses, Virology Department, Institut Pasteur, Paris, France
Lisa Hensley
18Integrated Research Facility, Division of Clinical Research, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Frederick, Maryland, USA
Angel Balmaseda
19Laboratorio Nacional de Virología, Centro Nacional de Diagnóstico y Referencia, Ministry of Health, Managua, Nicaragua
Eva Harris
20Division of Infectious Diseases and Vaccinology, School of Public Health, University of California, Berkeley, Berkeley, California, USA
Todd M. Allen
7The Ragon Institute of MGH, MIT and Harvard, Cambridge, Massachusetts, USA
Jonathan A. Runstadler
21Department of Infectious Disease and Global Health, Cummings School of Veterinary Medicine, Tufts University, North Grafton, Massachusetts, USA
Sandra Smole
8Massachusetts Department of Public Health, Jamaica Plain, Massachusetts, USA
Fernando A. Bozza
9Fundação Oswaldo Cruz (FIOCRUZ), Rio de Janeiro, Rio de Janeiro, Brazil
Thiago M. L. Souza
9Fundação Oswaldo Cruz (FIOCRUZ), Rio de Janeiro, Rio de Janeiro, Brazil
Sharon Isern
10Department of Biological Sciences, College of Arts and Sciences, Florida Gulf Coast University, Fort Myers, Florida, USA
Scott F. Michael
10Department of Biological Sciences, College of Arts and Sciences, Florida Gulf Coast University, Fort Myers, Florida, USA
Ivette Lorenzana
11Instituto de Investigacion en Microbiologia, Universidad Nacional Autónoma de Honduras, Tegucigalpa, Honduras
Lee Gehrke
22Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
23Department of Microbiology and Immunobiology, Harvard Medical School, Boston, Massachusetts, USA
Irene Bosch
22Institute for Medical Engineering and Science, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA
Gregory Ebel
24Department of Microbiology, Immunology and Pathology, Colorado State University, Fort Collins, Colorado, USA
Christian Happi
12Institute of Lassa Fever Research and Control, Irrua Specialist Teaching Hospital, Irrua, Edo State, Nigeria
13African Center of Excellence for Genomics of Infectious Disease (ACEGID), Redeemer’s University, Ede, Osun State, Nigeria
14Department of Biological Sciences, College of Natural Sciences, Redeemer’s University, Redemption City, Osun State, Nigeria
Donald Grant
15Lassa Fever Laboratory, Kenema Government Hospital, Kenema, Eastern Province, Sierra Leone
Daniel J. Park
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
Andreas Gnirke
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
Pardis C. Sabeti
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
2Center for Systems Biology, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, Massachusetts, USA
6Department of Immunology and Infectious Diseases, Harvard T.H. Chan School of Public Health, Harvard University, Boston, Massachusetts, USA
25Howard Hughes Medical Institute, Chevy Chase, Maryland, USA
Christian B. Matranga
1Broad Institute of MIT and Harvard, Cambridge, Massachusetts, USA
Article usage
Posted March 12, 2018.
Capturing diverse microbial sequence with comprehensive and scalable probe design
Katherine J. Siddle, Hayden C. Metsky, Adrianne Gladden-Young, James Qu, David K. Yang, Patrick Brehio, Andrew Goldfarb, Anne Piantadosi, Shirlee Wohl, Aaron E. Lin, Kayla G. Barnes, Damien C. Tully, Scott Hennigan, Giselle Barbosa-Lima, Yasmine R. Vieira, Lauren M. Paul, Amanda L. Tan, Kimberly F. Garcia, Leda A. Parham, Ikponmwonsa Odia, Philomena Eromon, Onikepe A. Folarin, Augustine Goba, Viral Hemorrhagic Fever Consortium, Etienne Simon-Lorière, Lisa Hensley, Angel Balmaseda, Eva Harris, Todd M. Allen, Jonathan A. Runstadler, Sandra Smole, Fernando A. Bozza, Thiago M. L. Souza, Sharon Isern, Scott F. Michael, Ivette Lorenzana, Lee Gehrke, Irene Bosch, Gregory Ebel, Christian Happi, Donald Grant, Daniel J. Park, Andreas Gnirke, Pardis C. Sabeti, Christian B. Matranga
bioRxiv 279570; doi: https://doi.org/10.1101/279570
Capturing diverse microbial sequence with comprehensive and scalable probe design
Katherine J. Siddle, Hayden C. Metsky, Adrianne Gladden-Young, James Qu, David K. Yang, Patrick Brehio, Andrew Goldfarb, Anne Piantadosi, Shirlee Wohl, Aaron E. Lin, Kayla G. Barnes, Damien C. Tully, Scott Hennigan, Giselle Barbosa-Lima, Yasmine R. Vieira, Lauren M. Paul, Amanda L. Tan, Kimberly F. Garcia, Leda A. Parham, Ikponmwonsa Odia, Philomena Eromon, Onikepe A. Folarin, Augustine Goba, Viral Hemorrhagic Fever Consortium, Etienne Simon-Lorière, Lisa Hensley, Angel Balmaseda, Eva Harris, Todd M. Allen, Jonathan A. Runstadler, Sandra Smole, Fernando A. Bozza, Thiago M. L. Souza, Sharon Isern, Scott F. Michael, Ivette Lorenzana, Lee Gehrke, Irene Bosch, Gregory Ebel, Christian Happi, Donald Grant, Daniel J. Park, Andreas Gnirke, Pardis C. Sabeti, Christian B. Matranga
bioRxiv 279570; doi: https://doi.org/10.1101/279570
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