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Automated collection of pathogen-specific diagnostic data for real-time syndromic epidemiological studies

View ORCID ProfileLindsay Meyers, View ORCID ProfileChristine C. Ginocchio, View ORCID ProfileAimie N. Faucett, View ORCID ProfileFrederick S. Nolte, View ORCID ProfilePer H. Gesteland, Amy Leber, View ORCID ProfileDiane Janowiak, View ORCID ProfileVirginia Donovan, View ORCID ProfileJennifer Dien Bard, View ORCID ProfileSilvia Spitzer, View ORCID ProfileKathleen A. Stellrecht, View ORCID ProfileHossein Salimnia, View ORCID ProfileRangaraj Selvarangan, View ORCID ProfileStefan Juretschko, View ORCID ProfileJudy A. Daly, Jeremy C. Wallentine, View ORCID ProfileKristy Lindsey, View ORCID ProfileFranklin Moore, View ORCID ProfileSharon L. Reed, Maria Aguero-Rosenfeld, View ORCID ProfilePaul D. Fey, Gregory A. Storch, Steve J. Melnick, View ORCID ProfileCamille V. Cook, Robert K. Nelson, View ORCID ProfileJay D. Jones, View ORCID ProfileSamuel V. Scarpino, View ORCID ProfileBenjamin M. Althouse, View ORCID ProfileKirk M. Ririe, View ORCID ProfileBradley A. Malin, View ORCID ProfileMark A. Poritz
doi: https://doi.org/10.1101/157156
Lindsay Meyers
1BioFire Diagnostics, Salt Lake City, UT 84103
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  • For correspondence: lindsay.meyers@biofiredx.com
Christine C. Ginocchio
1BioFire Diagnostics, Salt Lake City, UT 84103
2bioMérieux USA, Durham, NC 27712
3Hofstra Northwell School of Medicine, Hempstead, NY 11549
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Aimie N. Faucett
1BioFire Diagnostics, Salt Lake City, UT 84103
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Frederick S. Nolte
4Medical University of South Carolina, Charleston, SC 29425
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Per H. Gesteland
5University of Utah, Salt Lake City, UT 84112
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Amy Leber
6Nationwide Children’s Hospital, Columbus, OH 43205
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Diane Janowiak
7South Bend Medical Foundation, South Bend, IN 46601
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Virginia Donovan
8Winthrop University Hospital, Mineola, NY 11501
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Jennifer Dien Bard
9Children’s Hospital of Los Angeles, Los Angeles, CA 90027
10Keck School of Medicine, University of Southern California, Los Angeles, CA 90039
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Silvia Spitzer
11Stony Brook University Medical Center, Stony Brook, NY 11794
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Kathleen A. Stellrecht
12Albany Medical Center, Albany, NY 12208
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Hossein Salimnia
13Detroit Medical Center, Detroit, MI 48201
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Rangaraj Selvarangan
14Children’s Mercy Hospital, Kansas City, MO 64108
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Stefan Juretschko
15Northwell Health, Lake Success, NY 11042
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Judy A. Daly
16Primary Children’s Hospital, Salt Lake City, UT 84132
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Jeremy C. Wallentine
17Intermountain Medical Center, Murray, UT 84107
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Kristy Lindsey
18University of Massachusetts Medical School-Baystate, Springfield, MA 01199
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Franklin Moore
18University of Massachusetts Medical School-Baystate, Springfield, MA 01199
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Sharon L. Reed
19UC San Diego Health, San Diego, CA 92093
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Maria Aguero-Rosenfeld
20New York University Langone Health, New York, NY 10016
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Paul D. Fey
21University of Nebraska Medical Center, Omaha, NE 68198
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Gregory A. Storch
22Washington University Medical Center, St. Louis, MO 63110
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Steve J. Melnick
23Nicklaus Children’s Hospital, Miami, FL 33155
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Camille V. Cook
1BioFire Diagnostics, Salt Lake City, UT 84103
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Robert K. Nelson
1BioFire Diagnostics, Salt Lake City, UT 84103
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Jay D. Jones
1BioFire Diagnostics, Salt Lake City, UT 84103
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Samuel V. Scarpino
24University of Vermont, VT 05405
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Benjamin M. Althouse
25University of Washington, WA 98105
26New Mexico State University, NM 87131
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Kirk M. Ririe
2bioMérieux USA, Durham, NC 27712
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Bradley A. Malin
27Vanderbilt University, Nashville, TN 37232
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Mark A. Poritz
28BioFire Defense, Salt Lake City, UT 84107
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Abstract

Public health decision makers rely on accurate, real-time monitoring of infectious diseases for outbreak preparedness and response. Pathogen early detection is improved by systems that are disease-specific. Here we describe a system, FilmArray® Trend, for rapid disease reporting that is syndrome-based but pathogen-specific. Results from a multiplex molecular diagnostic test are sent directly to a cloud database. www.syndromictrends.com presents these data in near real-time. Trend preserves patient privacy by removing or obfuscating patient identifiers. We summarize the respiratory pathogen results, for 20 organisms from >320,000 patient samples acquired as standard of care testing over the last four years from 18 clinical laboratories in the United States. The majority of pathogens show an influenza-like seasonality, rhinovirus has fall and spring peaks and adenovirus and bacterial pathogens show constant detection over the year. Interestingly, the rate of pathogen co-detections, on average 7.6%, matches expectations based on the relative abundance of organisms present.

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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.
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Posted July 31, 2017.
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Automated collection of pathogen-specific diagnostic data for real-time syndromic epidemiological studies
Lindsay Meyers, Christine C. Ginocchio, Aimie N. Faucett, Frederick S. Nolte, Per H. Gesteland, Amy Leber, Diane Janowiak, Virginia Donovan, Jennifer Dien Bard, Silvia Spitzer, Kathleen A. Stellrecht, Hossein Salimnia, Rangaraj Selvarangan, Stefan Juretschko, Judy A. Daly, Jeremy C. Wallentine, Kristy Lindsey, Franklin Moore, Sharon L. Reed, Maria Aguero-Rosenfeld, Paul D. Fey, Gregory A. Storch, Steve J. Melnick, Camille V. Cook, Robert K. Nelson, Jay D. Jones, Samuel V. Scarpino, Benjamin M. Althouse, Kirk M. Ririe, Bradley A. Malin, Mark A. Poritz
bioRxiv 157156; doi: https://doi.org/10.1101/157156
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Automated collection of pathogen-specific diagnostic data for real-time syndromic epidemiological studies
Lindsay Meyers, Christine C. Ginocchio, Aimie N. Faucett, Frederick S. Nolte, Per H. Gesteland, Amy Leber, Diane Janowiak, Virginia Donovan, Jennifer Dien Bard, Silvia Spitzer, Kathleen A. Stellrecht, Hossein Salimnia, Rangaraj Selvarangan, Stefan Juretschko, Judy A. Daly, Jeremy C. Wallentine, Kristy Lindsey, Franklin Moore, Sharon L. Reed, Maria Aguero-Rosenfeld, Paul D. Fey, Gregory A. Storch, Steve J. Melnick, Camille V. Cook, Robert K. Nelson, Jay D. Jones, Samuel V. Scarpino, Benjamin M. Althouse, Kirk M. Ririe, Bradley A. Malin, Mark A. Poritz
bioRxiv 157156; doi: https://doi.org/10.1101/157156

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