Commercial Assays an Overview. Molecular Workshop
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1 Commercial Assays an Overview Molecular Workshop
2 Commercial Assays By Discipline Infectious Disease Blood borne viruses Respiratory Viruses and Bacteria Enteropathogens STD s bacteria, viruses and parasites, HPV Tuberculosis/rapid growers Nosocomial including resistance mechanisms Transplants CSF Haem-Oncol Lymphomas Leukaemias Coagulation Anatomical Pathology Somatic Mutation/Cancer cfdna/ctcs Tissue of origin Clinical Chemistry Pharmacogenomics Lipid metabolism Folate metabolism Cytogenetics/Molecular Genetics Developmental Delay Array CGH / SNP Arrays FISH MLPA Inherited Disorders Parentage NIPT PGD
3 Blood Borne Viruses Hepatitis C qualitative Hepatitis C quantitative (viral load) Hepatitis C genotyping Hepatitis B quantitative (viral load) HIV quantitative (viral load) HIV resistance genotyping
4 Roche Ampliprep/Taqman
5 Roche Ampliprep/DockedTaqman
6 Abbott m2000
7 Siemens Versant k-pcr
8 Siemens Versant 440
9 Siemens Lipa 2.0 HCV Genotyping
10 ViroSeq HIV-1 Resistance Genotyping
11 Siemens Trugene HIV-1 Resistance Genotyping
12 Respiratory Viruses and Bacteria Generally two categories Smaller kits FluA/B +/- RSV ParaInfluenza kits hmpv kits Mutliplexes >5 up to Large Panels 12+ including bacterial targets
13 GenProbe Prodesse ProFlu+ FluA/B/RSV Quidel Influenza A+B
14 Alere i FluA/B
15 Focus FluA/B/RSV DAD Direct Amplification Disc DAD
16 Focus Diagnostics Pertussis
17 Cepheid GeneXpert Flu
18 Seegene ACE RV15
19 Seegene TOCE RV16
20 Luminex RVP Fast Bead Array
21 Genera RTIplex Panel
22 Idaho/BioFire/bioMerieux FilmArray
23 BioFire/bioMerieux FilmArray
24 BioFire/bioMerieux FilmArray
25 AusDiagnostics Resp 12
26 Illumigene B. pertussis LAMP
27 STD s Chlamydia trachomatis Neisseria gonorrhoeae Trichomonas vaginalis Herpes simplex 1/2 (plus VZV) Mycoplasma genitalium Syphilis HPV
28 Roche Cobas 4800 CT/NG HPV (PCR)
29 Hologic Panther/Tigris Aptima CT/NG Trich HPV
30 Abbott m2000 CT/NG HPV (PCR)
31 BD Viper XTR/LT CT/NG Trich HPV (SDA)
32 BDMax
33 Siemens k-pcr CT/NG
34 High Throughput Systems
35 Consolidated Molecular Automation Roche FLOW Primary Sample Handler Magnapure 96 Extractor Flow PCR Setup LC480 qpcr LIS query all test(s) requested for a sample Extraction, PCR assay setup, Amplification, Reporting Consolidates in-house and commercial assays Assay inventory on board PCR setup module
36 Consolidated Molecular Automation Roche FLOW
37 Consolidated Molecular Automation Vela
38 Enteropathogens Multiplex PCR tests for bacterial/parasitic and viral gastroenteritis emerged since 2012 Rapid uptake by GPs due to better TAT for common causes of enteric disease Issues remain recovery of bacterial isolates for epidemiology/protecting food supply?molecular screening and then reflex culture Multiplex PCR assays or bead array implementations cover >90% of typical enteropathogens recovered
39 Enteropathogens
40 Enteropathogens BioFire Flim Array
41 Enteropathogens Roche LightMix
42 Enteropathogens Genetic Signatures
43 Enteropathogens Others
44 HPV Testing/Systems Renewal program of Cervical screening As described by Jenny Ross on Friday HPV testing expected to have a x25 multiple per annum (test of cure use) to per annum (screening) Requires Pre-Analytic equipment High throughput HPV test systems
45 HPV Testing/Systems Available Platforms Now Roche Cobas 4800 Hologic Panther Hologic Tigris QIAGEN QIASymphony/RCS BD Onclarity (Viper LT) Abbott m2000 Available Platforms 2016 Roche Cobas 6800/8800 Abbott MQ Hologic Panther Hologic Tigris QIAGEN QIASymphony/RCS BD Onclarity (Viper LT)
46 HPV PreAnalytics
47 HPV Test Platforms Roche Cobas 4800
48 HPV Test Platforms Roche Cobas 6800/ /8hr /8hr
49 HPV Test Platforms Hologic Panther
50 HPV Test Platforms Hologic Tigris
51 HPV Test Platforms Abbott m2000
52 HPV Test Platforms BD Viper LT (PCR mode)
53 HPV Test Platforms Qiagen RCS
54 Transplant/CSF CMV Viral Load BK EBV HSV1/2 Enteroviruses
55 Roche Ampliprep/Taqman CAP/CTM CMV Monitor
56 Focus Diagnostics CMV/ BK/ EBV/ HSV
57 Qiagen Symphony/AS Rotorgene and Artus Assay Kits
58 Seegene CMV Quantitative
59 Diasorin Iam QLAMP
60 Haem-Oncol - Lymphomas T-cell receptor rearrangements/clonality B-cell IgH/K rearrangements/clonality
61 Invivoscribe B-cell
62 Invivoscribe T-cell
63 Invivoscribe Translocations
64 Haem-Oncol - Leukaemias CML: BCR-abl Jak-2, CALR, MPL AML: NPM1, FLT3
65 Ipsogen/Qiagen
66 Cepheid BCR-ABL Monitor
67 Coagulation Factor V Leiden FactorII/Prothrombin G20210A MTHFR Pharmacogenomics / Warfarin metabolism
68 Focus Diagnostics
69 Drug Metabolism
70 Warfarin Pharmacogenomics
71 Autogenomics Infiniti Warfarin Assay
72 Sequenome MassArray
73 Anatomical Pathology Somatic Mutation/Cancer cfdna/ctcs Tissue of origin
74 Cell Pathways Targeted Therapies
75 Companion Diagnostics
76 Automated Paraffin Extraction Siemens Tissue Preparation System
77 COBAS 4800 EGFR,KRAS,BRAF
78 Qiagen Rotorgene Therascreen
79 Qiagen PyroMark/Pyrosequencing
80 Seegene BRAF ACE
81 Autogenomics Infiniti
82 NGS PCR Targeted Panels PCR based targeted sequencing enrichment panels Using NGS can detect to the 1%-5% sensitivity range Known Hot spots or full pathways Price dropping, question will be 2-3 genes by current methods or all for same price via NGS panel
83 NGS PCR Targeted Panels PCR based targeted sequencing enrichment panel TrueSeq Amplicon Cancer Panel TSACP
84 NGS PCR Targeted Panels
85 NGS PCR Targeted Panels
86 NGS PCR Targeted Panels
87 Cell Free DNA cfdna / ctdna Circulating Tumour Cells cfdna cell free DNA CTC circulating tumour cells Circulating tumour DNA (ctdna) cell-free DNA released from a solid tumour as tumour cells turn over small DNA fragments <120 bp
88 Liquid Biopsy Concept Tumor Load Surgery Therapy New threshold of detection
89
90 NIPT - Reducing Amniocentesis Analyses cell-free DNA (cfdna) derived from the foetus that can be found in the mother's plasma Used to detect trisomy 21 (T21) pregnancies (and T18, T13 +) Sits between the current maternal age/nuchal/papp risk score and CVS/Amniocentesis Several tests and technologies
91 Non Invasive Prenatal Genetic Testing - NIPT
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