Pandemic strains of influenza have arisen in the past and will unquestionably arise in the future. Numerous respiratory viruses, including common influenza strains and pandemic strains, present with essentially identical generalized symptoms. A public health and clinical concern is distinguishing between patients infected with pandemic influenza or a common respiratory virus, to do so requires a sensitive diagnostic system. HT-FilmArray technology provides a dense format to concurrently assay for a panel of respiratory viruses including influenza but to also characterize the influenza H and N genes to differentiate strains (e.g. H5N1). HT-FilmArray employs a plastic disposable in which is performed a seamless progression of biochemical manipulations including: nucleic acid preparation, reverse transcription, PCR using a 2-stage nested multiplex process, and confirmation of product identity by high-resolution melt profiling. Nested PCR while exquisitely sensitive, has seen limited use as it is prone to amplicon contamination. HT-FilmArray contains the nested procedure such that its greatest strength (sensitivity) is realized while its greatest weakness (amplicon contamination) is eliminated. High-resolution melt profiling is used to confirm positive results. Melt profiling rapidly determines curve shape and melting temperature as a 2nd tier analysis to re-enforce positive results and to eliminate false positive results. In a pandemic scenario, communication between laboratories will enable clinicians to better diagnose patients and provide public health officials information to take steps that will contain the outbreak. Proposed is a software module allowing HT- FilmArray users, even in geographically remote locations, to communicate and share data over a secure internet connection. This data sharing module will enable privileged users to view runs in real-time from remote locations and for independent data sets to be shared and analyzed together. A data mining module will allow results to be analyzed together and provide a flexible format for data comparison. Data sharing/data mining will allow public health officials to monitor viral activity using data from multiple distantly located HT-FilmArray instruments and based upon the data make sound decisions to contain an outbreak. While this proposal is focused upon influenza, HT-FilmArray will be equally useful as a standard tool to assess patients during yearly respiratory virus epidemics.

National Institute of Health (NIH)
National Institute of Allergy and Infectious Diseases (NIAID)
Research Project--Cooperative Agreements (U01)
Project #
Application #
Study Section
Special Emphasis Panel (ZAI1-CCH-M (M1))
Program Officer
Krafft, Amy
Project Start
Project End
Budget Start
Budget End
Support Year
Fiscal Year
Total Cost
Indirect Cost
Biofire Diagnostics, Inc.
Salt Lake City
United States
Zip Code
Meyers, Lindsay; Ginocchio, Christine C; Faucett, Aimie N et al. (2018) Automated Real-Time Collection of Pathogen-Specific Diagnostic Data: Syndromic Infectious Disease Epidemiology. JMIR Public Health Surveill 4:e59
Davis, Carly R; Stockmann, Chris; Pavia, Andrew T et al. (2016) Incidence, Morbidity, and Costs of Human Metapneumovirus Infection in Hospitalized Children. J Pediatric Infect Dis Soc 5:303-11
Stockmann, Chris; Ampofo, Krow; Pavia, Andrew T et al. (2016) Clinical and Epidemiological Evidence of the Red Queen Hypothesis in Pneumococcal Serotype Dynamics. Clin Infect Dis 63:619-626
Biondi, Eric A; Byington, Carrie L (2015) Evaluation and Management of Febrile, Well-appearing Young Infants. Infect Dis Clin North Am 29:575-85
Stockmann, Chris; Pavia, Andrew T; Hersh, Adam L et al. (2014) Age-Specific Patterns of Influenza Activity in Utah: Do Older School Age Children Drive the Epidemic? J Pediatric Infect Dis Soc 3:163-7
Blaschke, Anne J; Shapiro, Daniel J; Pavia, Andrew T et al. (2014) A National Study of the Impact of Rapid Influenza Testing on Clinical Care in the Emergency Department. J Pediatric Infect Dis Soc 3:112-8
Stockmann, Chris; Ampofo, Krow; Hersh, Adam L et al. (2013) Seasonality of acute otitis media and the role of respiratory viral activity in children. Pediatr Infect Dis J 32:314-9
Stockmann, Chris; Sherwin, Catherine M T; Ampofo, Krow et al. (2013) Characteristics of antimicrobial studies registered in the USA through ClinicalTrials.Gov. Int J Antimicrob Agents 42:161-6
Stockmann, Chris; Ampofo, Krow; Byington, Carrie L et al. (2013) Pneumococcal meningitis in children: epidemiology, serotypes, and outcomes from 1997-2010 in Utah. Pediatrics 132:421-8
Blaschke, Anne J; Heyrend, Caroline; Byington, Carrie L et al. (2012) Rapid identification of pathogens from positive blood cultures by multiplex polymerase chain reaction using the FilmArray system. Diagn Microbiol Infect Dis 74:349-55

Showing the most recent 10 out of 21 publications