Presentation from Bioconference Live 2010
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Transcript of Presentation from Bioconference Live 2010
TessArae, LLC, Proprietary Information
Using Targeted Resequencing Microarrays forSimultaneous Definitive Detection and Identification of
Multiple Respiratory Pathogens.
Agnieszka M. Lichanska, Clark Tibbetts, andMatthew C. Lorence
TessArae, LLC, Potomac Falls, Virginia, USA
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Overview
Re-sequencing technology vs. traditional diagnostictechniques How does re-sequencing work? How are the techniques different?
Identification of new pathogens - an example: novelH1N1 flu
Additional examples of use of RPM-Flu 3.1 assay Summary
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Shift in Microbial Diagnostics
TessArray™
TessArae Inc.TessArray RPM-Flu v3.1
Respiratory PathogenPanel
P/N: 520-191
Phenotypic detectionand identification
Genotypic detectionand identification
Mainly single result per test Multiple results per one testMultiple signatures per pathogen
Detection and confirmation
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RPM Strategy
GTATGGTAGTTGGGATAATTAGCTTGATGTCATACCATCAACCCTATTAATCGAACTACA
GTATGGTAGTTGAGATAATTAGCTTGTATGGTAGTTGCGATAATTAGCTTGTATGGTAGTTGGGATAATTAGCTTGTATGGTAGTTGTGATAATTAGCTT
CATACCATCAACACTATTAATCGAACATACCATCAACCCTATTAATCGAACATACCATCAACGCTATTAATCGAACATACCATCAACTCTATTAATCGAA
Probes to interrogatecenter position of first complementary targetstrand
Probes to interrogatecenter position of secondcomplementary targetstrand
Target
25-base window of 8 transducersHemagglutinin A/Goose/Guangdong/1/96/H5N1
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RPM Strategy
GTATGGTAGTTGGGATAATTAGCTTGATGTCATACCATCAACCCTATTAATCGAACTACA
GTATGGTAGTTGGAATAATTAGCTTGGTATGGTAGTTGGCATAATTAGCTTGGTATGGTAGTTGGGATAATTAGCTTGGTATGGTAGTTGGTATAATTAGCTTG
CATACCATCAACCATATTAATCGAACCATACCATCAACCCTATTAATCGAACCATACCATCAACCGTATTAATCGAACCATACCATCAACCTTATTAATCGAAC
Hemagglutinin A/Goose/Guangdong/1/96/H5N1
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RPM Strategy
GTATGGTAGTTGGGATAATTAGCTTGATGTCATACCATCAACCCTATTAATCGAACTACA
GTATGGTAGTTGGGATAATTAGCTTGAGTATGGTAGTTGGGCTAATTAGCTTGAGTATGGTAGTTGGGGTAATTAGCTTGAGTATGGTAGTTGGGTTAATTAGCTTGA
CATACCATCAACCCAATTAATCGAACTCATACCATCAACCCCATTAATCGAACTCATACCATCAACCCGATTAATCGAACTCATACCATCAACCCTATTAATCGAACT
Hemagglutinin A/Goose/Guangdong/1/96/H5N1
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TessArray®
RPM-Flu 3.1
TessArray™
TessArae, LLCTessArray RPM-Flu v3.1
Respiratory Pathogen PanelP/N: 520-191
Coronavirus (229E)Coronavirus (OC43)Coronavirus (NL63)Coronavirus (SARS Urbani)Cytomegalovirus (HHV-5)Enteroviruses:• Coxsackievirus (5 types)• Echovirus (8 types)• Rhinovirus (27 types)Measles VirusMetapneumovirus (types A, B)Parainfluenza 1Parainfluenza 2 Parainfluenza 3Parainfluenza 4aParainfluenza 4bRSV ARSV BRubella Virus
Bordatella pertussisCorynebacterium diphtheriaeChlamydia psittaciChlamydia trachomatisChlamydophila pneumoniaeHaemophilus influenzae Klebsiella pneumoniaeLegionella pneumophilaMoraxella catarrhalisMycobacterium kansasiiMycobacterium tuberculosisMycoplasma pneumoniaeNeisseria meningitidisPseudomonas aeruginosaStaphylococcus aureusStreptococcus agalactiaeStreptococcus pneumoniaeStreptococcus pyogenes
Variola majorBacillus anthracisFrancisella tularensisYersinia pestis
Influenza A HA1Influenza A HA2Influenza A HA3Influenza A HA4Influenza A HA5Influenza A HA6Influenza A HA7Influenza A HA8Influenza A HA9 Influenza A HA10Influenza A HA11Influenza A HA12Influenza A HA13Influenza A HA14Influenza A HA15Influenza A HA16
Influenza A NA1Influenza A NA2Influenza A NA3Influenza A NA4Influenza A NA5Influenza A NA6Influenza A NA7Influenza A NA8Influenza A NA9Influenza A MtxInfluenza A NS Influenza A PB2 Influenza B HA1Influenza B HA2Influenza B NA1
Influenza B Mtx
Adenovirus B Adenovirus C Adenovirus D Adenovirus E
Simultaneous differential diagnosisof influenza-like illness
30 different types of viral andbacterial respiratory pathogens
938,032 oligonucleotide probes
117,254 nucleotides of targetedpathogen gene sequences per assay
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How the RPM Assay Works?
Control Template Live Influenza Vaccine (FluMist® 2004-2005)
Trivalent mixture of different influenza virus A/HN and B subtypes A/Canterbury/20/1999 (H1N1) A/Wyoming/3/2003 (H3N2) B/Jilin/20/2003 Hemagglutinin and Neuraminidase Genes from these Vaccine Strains
Engineered by Reassortment with Cold-Adapted Master Strains A/Ann Arbor/6/1960 (H2N2) B/Ann Arbor/1/1966 Matrix and Other Viral Genes from Master Strains
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ChipBackground
Segment
Tile AGT C
CAG
T
Translation Key:
TGGAAAATGAAAGGACTTTGGATTTCCATGACTCCAATGTGAAGAInfluenza A Virus segment 4 hemagglutinin (HA1)
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>EV70UTR:NRL_KB_FluVaccine_082206 Start=12 End=707nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncnannnnnngnnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncnncnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngnnnnntnnnnnnnnnnnnnnnncncnnnnnnnnnncnnnnnnnnnnnnnnnnntnnnnnnnnnnntnngancnnnnngnnnnnnnnnnccnnnngnnnnnnnnnnnnnnnnnnggnnnnnnnnnnnncnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnacnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncnnnnnnnnnnn>FLUAHA1:NRL_KB_FluVaccine_082206 Start=12 End=1487agaagaatgtgacagngncncactctgtcaacctacttgaggacagtcacaatggaaaactatgtctactaaaaggaatagccccncnnnnnntgggtaattgcagcgttgccggatggatcttaggaaacccagaatgcgaattactgatttccaaggaatcatggtcctacattgtagaaacaccaaatcctgagaatggaacatgttacccagggtatttcgccgactatgaggaactgagggagcaattgagttcagtatcttcatttgagagattcgaaatattccccaaagaaagctcatggcccaaccacaccgtaaccggagtatcagcatcatgcncccnnnnngggaaaagcagtttttacagaaatttgctatggcngncnnnnnngaatggnnnnnnnccaaacctgagcaagtcctatgtaaacaacaaagagaaagaagtccttgtactatgggcnntncntcacccgcctaacanagggaaccaaagggccctctatcatacagaaaatgcttatgtctctgtagtgtcttcacattatagcagaagattcaccccagaaatagccaaaagacccaaagtaagagatcaggaaggaagaatcaactactactggactctgcnggaacctggggatacaataatatttgaggcaaatggaaatctaatagcgccatggtatgcttttgcactgagtagaggctttggatcaggaatcatcacctcaaatgcaccaatggatgaatgtgatgcgaagtgtcaaacacctcagggagctataaacagcagtcttcctttccagaatgtacacccagtcacaataggagagtgtccaaagtatgtcaggagtgcaaaatnaaggatggntacaggactaaggaacatcccntccattcaatccagaggtttgtttggagccattgccggtttcattgaagnnnngtggactggaatggtagatgggtggtatggttatcatcatcagaatgagcaaggatcnggnnnnnnnncagatcaaaaaagtncacaaaatgccattaacgggattacaaacaaggtgannnnnnnnnnnnagaaaatgaacactcaattcacngcngtgggcaaagaattcaacaaattggaaagaaggatggaaaacttaaataaaaaagttgatgatgggtttctagacatttggannnnnnnnncagaattgttggttctacTGGAAAATGAAAGGACTTTGGATTTCCATGACTCCAATGTGAAGAatctgtatgagaaagtaaaaagccaattaaagaataatgccaaagaaataggaaacgggtgttttgaattctatcacaagtgtaacaatgaatgcatggagagtgtgaaaaatggaacttatgactatccaaaatattccgaagaatcaaagttaaacagggagaaaattgatggagtgaaattggaatcaatgggagtctatcagattc>FLUAHA10:NRL_KB_FluVaccine_082206 Start=12 End=787nnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnncnnnnnnnnnnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnngnnnnncnnnnnnnnnnnnnnnnnnnnnnnnncnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnntnnnncnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnannnnnnnncnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncnnnnnnnnnnnnnnnnnnnnnnnnngnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnncaggaangagnannnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnggnnnnnntnnnangnaggnnggnngnnnnnnnnnnnnnnnnnnncnnnnnnnnn…
Enterovirus 70 UTRNegative
Type A Flu - HA1Positive
Type A Flu - HA10Negative
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How to Identify a Novel Pathogen?
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RPM Detection of Novel Strains
CATACCATCAACCCTATTAATCGAACTACAGCGTATGGTAGTTGGGATAATTAGCTTGATGTCG
TGGTAGTTGGGAAAATTAGCTTGATTGGTAGTTGGGACAATTAGCTTGATTGGTAGTTGGGAGAATTAGCTTGATTGGTAGTTGGGATAATTAGCTTGAT
ACCATCAACCCTATTAATCGAACTAACCATCAACCCTCTTAATCGAACTAACCATCAACCCTGTTAATCGAACTAACCATCAACCCTTTTAATCGAACTA
CATACCATCAACCCTGTTAATCGAACTACAGCGTATGGTAGTTGGGACAATTAGCTTGATGTCG
TGGTAGTTGGGAAAATTAGCTTGATTGGTAGTTGGGACAATTAGCTTGATTGGTAGTTGGGAGAATTAGCTTGATTGGTAGTTGGGATAATTAGCTTGAT
ACCATCAACCCTATTAATCGAACTAACCATCAACCCTCTTAATCGAACTAACCATCAACCCTGTTAATCGAACTAACCATCAACCCTTTTAATCGAACTA
Forwardstrandsequencevariantdetection
Reversestrandsequencevariantdetection
target
Old Strain New Strain
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Detection of Novel Strains
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Novel H1N1 Influenza Detection
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Detecting Seasonal Strains of Influenza
RPM-Detector Tiles for Seasonal A/H1N1 and Seasonal A/H3N2 Influenza Viruse s Vir u s Target Gen e Detector Tile Sequence/Strai n Leng t h Prob e s
A/H1 N 1 Hemagglutinin(A/HA1 ) A/New Caledonia/20/1999(H1N1) 1500 bp 12,000 A/H1 N 1 Neuraminidase(A/NA1) A/New Caledonia/20/1999(H1N1) 1200 bp 9,600 A/H1 N 1 Matrix(A/H1N1-M ) A/Canterbury/100/2000(H1N1) 850 bp 6,800
A/H3 N 2 Hemagglutinin(A/HA3 ) A/Canterbury /125/2005(H3N2) 1500 bp 12,000 A/H3 N 2 Neuraminidase(A/NA2) A/Canterbury /125/2005(H3N2) 1200 bp 9,600 A/H3 N 2 Matrix(A/H3N2-M ) A/Canterbury /125/2005(H3N2) 850 bp 6,800
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A Sentinel Case
April 2009: Patient presents at Washington, DC hospital Recently returned from vacation in Mexico Convalescing from recent flu-like illness Anxious about reports of novel influenza outbreak
TessArray Outcomes:
01 May 2009 - Best MatchesL20309, X90504 H influenzae outer membrane protein P5A/duck/Guanxi/2004(H5N1); A/chicken/Yogjakarta/2004(H5N1)
Very unusual result suggested patient had been infected by an avian influenza virusDatabase updated following week, new sequence records from Mexico outbreak isolates
05 May 2009 - Best MatchesL20309, X90504 H influenzae outer membrane protein P5A/California/07/2009(H1N1); A/Texas/04/2009(H1N1)
Perfect Match to New CDC Strain!From a Test Designed in 2006 With No Prior Knowledge of New Strain
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T S R A - A ML_CNMC_01_050109 (“RPM-Flu Sentinel Case”) Best Matches from VSRD Archive
Updated November 2008 Best Matches from VSRD Archive
Updated May 2009
A/chicken/Indonesia/7/2003(H5N1) A/chicken/Puebla/231-5284/98(H5N2) A/chicken/Puebla/231-5284/98 (H5N2)
A/chicken/Yogjakarta/BBVet-IX/2004(H5N1) A/duck/Guangxi/1436/2006(H5N1) A/duck/Guangxi/351/2004(H5N1) A/duck/Guangxi/3548/2005(H5N1) A/duck/Guangxi/380/2004(H5N1) A/duck/Guangxi/4016/2005(H5N1)
A/hooded vulture/Burkina Faso/2/2006(H5N1) A/mallard/Alberta/111/99(H4N6) A/mallard/Alberta/111/99(H4N6)
A/mallard/Maryland/1235/2006(H3N6) A/mallard/Maryland/1235/2006(H3N6) A/quail/Tasikmalaya/BPPV4/2004(H5N1)
A/swine/Hong Kong/1197/02(H3N2) A/swine/Hong Kong/1197/02(H3N2) A/swine/Iowa/930/01(H1N2)
A/swine/Virginia/670/1987(H1N1) A/swine/Virginia/671/1987(H1N1)
A/swine/British Columbia/28103/2005(H3N2)
A/California/04/2009(H1N1) A/California/05/2009(H1N1) A/California/06/2009(H1N1) A/California/07/2009(H1N1) A/California/08/2009(H1N1) A/California/09/2009(H1N1) A/California/10/2009(H1N1) A/California/14/2009(H1N1) A/Canada-ON/RV1527/2009(H1N1) A/New York/06/2009(H1N1) A/New York/10/2009(H1N1) A/New York/11/2009(H1N1) A/New York/15/2009(H1N1) A/New York/18/2009(H1N1) A/New York/19/2009(H1N1) A/New York/20/2009(H1N1) A/New York/22/2009(H1N1) A/Ohio/07/2009(H1N1)
A/Texas/04/2009(H1N1) A/Texas/05/2009(H1N1)
RPM detection and identification works forstrains and variantsthat share at least 80% sequence similarity toarray detector tiles
The RPM-Flu 3.1 designed for A/H5N1 in 2006 is capable to sensitively detect and differentiate the Novel A/H1N1 SOIV from Seasonal A/H1N1 and Seasonal A/H3N2 subtypes without modification
190/215 = 88%
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Avian A/H5N1 matrixgene resequencingdetector tile sequence(top sequence)
2009 Novel H1N1(A/Pensacola/INS107/2009(H1N1)) strain (middlesequence)
Sequence from a high titerstock of a 2009 Novel H1N1outbreak strain strain,A/NHRC-California/BRD_40116(H1N1)(bottom sequence)
Legend:“x” = Mismatch“|” = Match
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Seasonal H1N1 Seasonal H3N2 Novel H1N1
LoD (95%) TCID50/ml
TessArray RPM-Flu Novel A/H1N1 1,740 Seasonal A/H1N1 102 Seasonal A/H3N2 224
CDC rRT-PCR (JBAIDS) Novel A/H1N1 5,000 Seasonal A/H1N1 10 Seasonal A/H3N2 100
Analytical Sensitivity with Cultured Influenza Virus
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Analytical SensitivityCultured Influenza Virus
0/501 (0%)0/501 (0%)0/501 (0%) Clinical Negative by PCR
0/14 (0%)0/14 (0%)0/14 (0%) Water Blanks
0/24 (0%)0/24 (0%)0/24 (0%) Other High Load Pathogens
0/16 (0%)0/16 (0%)0/16 (0%) Avian A/H5N1-positive
Negative Controls
8/8 (100%)0/8 (0%)0/8 (0%) 2009 Novel A/H1N1(SOIV)
0/31 (0%)31/31 (100%)0/31 (0%) Seasonal A/H3N2
0/13 (0%)0/13 (0%)13/13 (100%) Seasonal A/H1N1
Positive Clinical Specimens
44/44 (100%)0/55 (0%)0/55 (0%) 2009 Novel A/H1N1(SOIV)
0/58 (0%)44/44 (100%)0/58 (0%) Seasonal A/H3N2
0/41 (0%)0/41 (0%)38/38 (100%) Seasonal A/H1N1
Endpoint LoD Titration
2009 NovelA/H1N1 SOIV
SeasonalA/H3N2
SeasonalA/H1N1
Controls
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Detecting Emergent Strains
A/New Caledonia/20/1999(H1N1) HemagglutininA/New Caledonia/20/1999(H1N1) NeuraminidaseA/Canterbury/100/2000(H1N1) MatrixA/Canterbury/125/2005 (H3N2) HemagglutininA/Canterbury/125/2005 (H3N2) NeuraminidaseA/Canterbury/125/2005 (H3N2) Matrix
2004-5 FluMistA/New Caledonia/20/1999(H1N1)A/New Caledonia/20/1999(H1N1)A/Ann Arbor/6/1960(H2N2)A/Wyoming/03/2003 (H3N2)A/Wyoming/03/2003 (H3N2)A/Ann Arbor/6/1960(H2N2)
2009-10 FluMistA/South Dakota/6/2007(H1N1)A/South Dakota/6/2007(H1N1)A/Ann Arbor/6/1960(H2N2)A/Uruguay/716/2007 (H3N2)A/Uruguay/716/2007 (H3N2)A/Ann Arbor/6/1960(H2N2)
What’s on the Device:
What it Told Us:
TessArray™
TessArae, LLCTessArray RPM-Flu v3.1
Respiratory Pathogen PanelP/N: 520-191
2006-7 FluZoneA/New Caledonia/20/1999(H1N1)A/New Caledonia/20/1999(H1N1)A/Puerto Rico/8/1934(H1N1)A/Wisconsin/67/2005 (H3N2)A/Wisconsin/67/2005 (H3N2)A/Puerto Rico/8/1934(H1N1)
2009-10 FluVirinA/South Dakota/6/2007(H1N1)A/South Dakota/6/2007(H1N1)A/Puerto Rico/8/1934(H1N1)A/Uruguay/716/2007 (H3N2)A/Uruguay/716/2007 (H3N2)A/Puerto Rico/8/1934(H1N1)
When Confronted With DifferentStrains the Array Still Tells UsWhat Is Present Based on theSequences of the Organisms
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A/gull/MD/1824/78H13N6
H15N9
H14N5
H7N7
H7N3
H7N1
H5N2
No AI
H7N3
H5N3
AMPV, No AI
H12N5
H11N3
H10N7
H8N4
H7N2
H4N6
H3N2
H2N8
H1N1
Match SEPRL Reference Strain
A/Turkey/Kansas/4880/80
A/Herring Gull/DE/677/88
A/turkey/MN/366767/2005
A/Blue Winged Teal/LA/240B/88
A/quail/PA/20304/98
A/turkey/CO/169118-13/02
A/quail/NJ/25254-22/95
A/chicken/NJ/4645/96
A/duck/LA/188D/87
Avian Metapneumovirus (Colorado Strain)
A/duck/Singapore/F119/97
A/chicken/Chile(F0)/176822/02
Avian Paramyxovirus I (NDV, RPM-TEI assay)
A/chicken/Mex/26654-1374/94
A/turkey/Italy/4580/99
A/chicken/Pakistan/1369-CR2/95
A/chicken/Victoria/85
A/mallard/Gurjev/263/82
A/Shearwater/W. Australia/2576/79
H13N612
Sample RPM Assay
1 H1N1
2 H2N8
3 H3N2
4 H4N6
6 H7N2
7 H8N4
9 H10N7
10 H11N3
11 H12N5
13 AMPV, No AI
14 H5N3
15 H7N3
16 No AI
17 H5N2
18 H7N1
19 H7N3
20 H7N7
21 H14N5
22 H15N9
Specimens from USDA ARS SEPRL reference archive (20 Mar 08)Avian Influenza Subtypes: Differential Diagnostics
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Reconciliation of Inter-Platform Results Discrepancies by de novo DNA Sequencing of Viral Genes from Original Specimens
Sample IDCDC-Certified
H5 (Asian) PCRIbis-T5000
ESI-MSHA RSLT (P1)Serology
TessArray®RPM-Flu v3.1
Gold StandardDNA Sequencing
2006900845 H5 H5N1 H5 H5N1 not tested
2006906089 H5 H5N1 H5 H5N1 not tested
2006900590 H5 H5N1 H5 H5N1 not tested
2006902838 H5 H5N1 H5 H5N1 not tested
2006902764 not tested H5N1 H5 H5N1 H5N1
2006905588 Flu UNKNOWN H7 H7N7 H7N7
2004909864 not tested H9N2 UNKNOWN H7N7 H7
2005912823 Flu H7N7 UNKNOWN H10N7 H10N7
2005912908 not tested H7N7 H10 H10N7 H10N7
2004900600 Flu H7N7 H10 H10N7 H10N7
2004900845 H5 H5N1 H10 H10N7 or H10N5 H10N7
2004900688 not tested H7N7 H11 H11N? H11
2005912306 Flu NEW UNKNOWN H13N6 or H13N8 H13
= Conflict with de novo sequencing results
Avian Influenza Subtypes: Differential Diagnostics
= Results concordant with de novo sequencing
Lin et al PLOS 2009
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Longitudinal Data Analysis
CT_Sick_050509 Rhinovirus
CT_Sick_042010 Parainfluenza Virus
CT_Healthy_Control_080508CT_Sick_Day4_080603 Metapneumovirus
But not the novel A/H1N1!
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MLST-like Epidemiological Analysis:Genomic diversity of Haemophilus influenzae from 50 Different Patients at MCRD San Diego
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MLST-Like Epidemiological Analysis:Clonal genomic uniformity of Adenovirus Type 4in Same 50 Patients at MCRD San Diego
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Summary
Real-time Epidemic/Pandemic Surveillance in Human and AnimalPopulations
Simultaneous Detection and Definitive Identification of Multiple Pathogens Characterization of Difficult Cases
Superior to Benchmark Platform Sensitivity and Specificity Limits of Detection ~ 102 Genome Equivalents/specimen
Zero False Positive Detection Events Immediate Identification of Known and Unknown Strains and Variants
Surveillance of Shift and Drift in Populations Same Day Results
RPM Sequence-based Detector Array Six Sigma Data Quality Basecall Error Rate ≥ 10-6
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Acknowledgements
Naval Health Research Center/Naval Respiratory Disease Laboratory, San Diego, CA
David Metzgar Chris Myers Christian HansenCDR Kevin Russell Jason Brown Larivhie Dela CruzCDR Dennis Faix Miguel Osuna David Ortiz
TessArae, LLC - Potomac Falls, VAClark Tibbetts Brian Weslowski Leah MorrisMatthew Lorence Lisa Borsuk Klaus Schafer
Naval Research Laboratory/Center for Bio/Molecular Science andEngineering - Washington, DC
Joel Schnur Anthony Malanoski Nina LongDavid Stenger Baochuan Lin Carolyn KiddZheng Wang Dzung Thach Kate Blaney