Protocol PQDX 225 HCV Molecular Assays v4 0
Protocol PQDX 225 HCV Molecular Assays v4 0
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PQDx_225 PROTOCOL FOR THE LABORATORY EVALUATION OF HCV MOLECULAR ASSAYS V 4.0
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© World Health Organization 2018
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WHO and the WHO Prequalification Evaluating Laboratory, do not warrant or represent that the evaluations conducted
with the HCV test kits referred to in this document are accurate, complete and/or error-free. WHO and the WHO
Prequalification Evaluating Laboratory disclaim all responsibility for any use made of the data contained herein, and
shall not be liable for any damages incurred as a result of its use. This document must not be used in conjunction with
commercial or promotional purposes.
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TABLE OF CONTENTS
1. INTRODUCTION ................................................................................................ 5
1.1. Prequalification of In Vitro Diagnostics ............................................................................................................. 5
2. INTENDED AUDIENCE ........................................................................................ 5
3. STUDY OBJECTIVES ........................................................................................... 5
3.1. Overall Objectives ............................................................................................................................................ 5
3.2. Specific Objectives: ........................................................................................................................................... 6
4. WHO PREQUALIFICATION EVALUATING LABORATORIES ................................... 6
4.1. Training, performance evaluation and supervision ........................................................................................... 6
4.2. Safety ............................................................................................................................................................... 7
4.3. Storage of assays .............................................................................................................................................. 7
5. STUDY DESIGN .................................................................................................. 7
6. SPECIMEN PANELS ............................................................................................ 8
6.1. Analytical Performance Specimen Reference Panel .......................................................................................... 8
6.2. Clinical Performance Specimen Reference Panel .............................................................................................. 9
6.3. Characterization of the Specimen Panels .......................................................................................................... 9
7. LABORATORY TESTING .................................................................................... 10
7.1. Recording test results ..................................................................................................................................... 10
8. QUALITY CONTROL AND INTERPRETATION OF TEST RESULTS .......................... 11
8.1. Test kit controls .............................................................................................................................................. 11
8.2. Internal quality control ................................................................................................................................... 11
8.3. External quality control specimen .................................................................................................................. 11
8.4. Proficiency panels........................................................................................................................................... 11
8.5. Limits of acceptability ..................................................................................................................................... 11
8.6. Interpretation of results ................................................................................................................................. 11
9. ANALYSIS OF DATA ......................................................................................... 12
9.1. Invalid runs ..................................................................................................................................................... 12
9.2. Invalid individual specimen results (invalid IQC/calibrator) ............................................................................ 12
9.3. Performance characteristics from WHO specimen reference panel ................................................................ 12
9.3.1. Analytical performance ...............................................................................................................................12
9.3.1.1. Precision of measurement...........................................................................................................................12
9.3.1.1.1. Intra-assay variation (within-run) .......................................................................................................... 12
9.3.1.1.2. Inter-assay variation (within days) ........................................................................................................ 12
9.3.1.1.3. Inter-instrument variation ..................................................................................................................... 12
9.3.1.2. Limit of detection and limit of quantitation ...............................................................................................13
9.3.1.3. Cross-contamination....................................................................................................................................13
9.3.2. Clinical Performance ....................................................................................................................................13
9.3.2.1. Trueness of measurement ...........................................................................................................................13
9.3.2.2. Sensitivity and Specificity ............................................................................................................................14
Confidence intervals .......................................................................................................................................................15
9.3.2.3. Discrepant results ........................................................................................................................................15
10. OPERATIONAL CHARACTERISTICS ................................................................... 15
11. REPORT PREPARATION ................................................................................... 15
12. MATERIALS AND SUPPLIES .............................................................................. 15
13. ROLES AND RESPONSIBILITIES ......................................................................... 16
13.1. Responsibilities of the WHO Prequalification Evaluating Laboratory .............................................................. 16
13.2. Responsibilities of WHO ................................................................................................................................. 16
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14. OTHER DOCUMENTS AND TOOLS REQUIRED................................................... 16
REFERENCES .......................................................................................................... 17
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1. Introduction
The WHO prequalification of in vitro diagnostics process includes three main components:
The performance evaluation will be conducted by a WHO Prequalification Evaluating site following a choice
of two different mechanisms described here. Performance evaluations conducted by a laboratory in List 1 will
be coordinated and cost covered by WHO. Performance evaluations conducted by a laboratory in List 2 will
be coordinated and cost incurred by the manufacturer.
This protocol describes the procedures required to perform an evaluation of HCV molecular technologies
submitted for WHO prequalification assessment. This protocol is not intended to replace validation and
verification studies that need to be conducted by the manufacturer in order to fulfil WHO prequalification
product dossier requirements.
Given the variety of molecular assays available, this protocol remains generic in nature and some sections
may be open to interpretation. Manufacturers are encouraged to contact WHO before the start of the
evaluation in order to verify that their preferred approach is in line with WHO expectations.
This protocol was developed in collaboration with the National Serology Reference Laboratory, Fitzroy,
Victoria, Australia.
2. Intended audience
This document is intended to provide WHO Prequalification Evaluating Laboratories and manufacturers with
the WHO performance evaluation procedure.
3. Study Objectives
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To evaluate commercially available HCV molecular assays (including qualitative and quantitative claims as
necessary) for detection of HCV RNA against a designated reference result.
The laboratory shall hold the following certification for quality management within the laboratory: ISO17025
(General requirements for the competence of testing and calibration laboratories), ISO15189 (Medical
laboratories: Particular requirements for quality and competence) or equivalent.
The person(s) listed in the EoI letter to WHO will act as the Principal Investigator (PI) for the work performed
by the WHO Prequalification Evaluating Laboratory.
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Because objective, machine-generated, permanent results for some of the technologies available
may not be feasible, it is essential that the PI emphasizes the need for accurate recordkeeping;
To minimize the risk of error, results will be directly exported from the platform wherever possible. If
this is not the case, results should be entered by one staff member and verified by another.
4.2. Safety
HIV, hepatitis B and hepatitis C and other viruses are transmissible by blood and body fluids. Therefore, all
types of specimens (including venous and capillary whole blood, serum/plasma, oral fluid, etc.) must be
handled as potentially infectious. Appropriate precautions to minimize infectious hazards must be taken at
all stages from the collection of specimens to the disposal of used materials from the laboratory. The WHO
Guidelines on HIV Safety Precautions, and Guidelines for the Safe Transport of Specimens (WHO/EMC/97.3)
and the site’s guidelines on laboratory safety should be carefully followed by the laboratory staff.
5. Study Design
The study will be conducted with two separate objectives, one investigating analytical performance and the
other investigating clinical performance. Although there are many performance characteristics that could be
investigated, this evaluation is risk-based and focuses on aspects of greatest importance to assuring the
safety and performance when such IVDs are used in WHO member states.
Analytical aspects that will be evaluated include the following performance characteristics:
• Precision of measurement
– Intra-assay variation (within-run if applicable),
– Inter-assay variation (within days)
– Inter-instrument variation (for point of care technologies with very low-throughput)
• Limit of detection (LOD), lower limit of quantification (LLOQ)
• Robustness
• Genotype detection
The evaluation of clinical performance will compare the assay's result with a reference method using
clinically derived specimens (specimens collected for routine testing at the evaluating site).
The evaluation will also include an assessment of the assays' operational characteristics in view of their
anticipated use in resource-limited settings. This assessment will include but is not limited to the following
characteristics:
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Specimen requirements
Electricity and water requirements
Equipment required (including equipment provided and ancillary equipment that is required but not
provided)
Storage requirements for reagents
Shelf life of reagents (upon the time of manufacture)
Time to result and hands-on time required (including number of steps)
Laboratory logistics, including equipment footprint.
6. Specimen Panels
• In order to conduct the assessment of the limit of detection, the WHO international standard
genotype 1a will be diluted to obtain, at a minimum, the following concentrations: 10 3, 102.5,102, 101.5, 101,
100.5, 100, 10-0.5 IU/ml. This assessment will require at a minimum, 24 replicates for each dilution member.
• The robustness experiment will be conducted with the genotype 1 stock specimen at a concentration
6
of 10 IU/ml and negative specimens in order to detect potential cross-contamination, if applicable to the
technology under evaluation.
Concentrations may be modified to accommodate the dynamic range of the assay under evaluation.
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Negative specimens 0 20
Total (plus an additional 20% to account for external controls and 272 (327 total)
errors)
Given that some of the experiments will share the same dilution for specific specimens, whenever possible
and depending on the assay under evaluation, specimens will be accommodated on the platform to maximize
the throughput and avoid the need to run the same dilution of specimen twice for different purposes. All
specimens will be prepared as a single use aliquot.
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from NIBSC
Clinically derived HCV positive specimens and HCV negative specimens for the clinical performance
evaluation will be characterized using the Roche cobas 6800 HCV viral load assay. This assay is calibrated
against the WHO HCV RNA international standard. The result obtained using this test will serve as the
reference result; no additional testing will be required. Discrepant resolution plan is described in 10.3.2.3. An
alternative reference method may be selected by the WHO Prequalification Evaluating Laboratory with prior
agreement from WHO.
7. Laboratory testing
Each product under evaluation will be used in accordance with the instructions for use (IFU) issued by the
manufacturer. The evaluating site will send a copy of the IFU to WHO upon delivery of the reagents and prior
to the commencement of the laboratory evaluation. The IFU must be reviewed against the IFU submitted to
WHO as part of the application or pre-submission form. If the IFU has been updated since this time, it is the
onus of the manufacturer to submit to WHO a letter detailing changes made prior to the start of the
laboratory evaluation. Records of the version used must be kept.
The interpretation of results for each assay under evaluation is made strictly according to the manufacturer’s
instructions within the IFU. Invalid runs and/or test results are recorded on the data collection sheets.
A technician's appraisal is made of each assay under evaluation and is completed by the operator performing
the testing. This appraisal is comprised of questions addressing ease of the procedure, reading of results,
clarity of IFU, as well as records of any specific difficulties encountered during the evaluation. The
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technician’s appraisal table will be made available to WHO Prequalification Evaluating Laboratories as a
separate document.
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9. Analysis of data
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9.3.1.2. Limit of detection and limit of quantitation
The limit of detection (LoD) is the lowest concentration of analyte that can be consistently detected in 95%
of specimens tested under routine laboratory conditions and in a given specimen matrix. It defines the
analytical sensitivity [4]. The LoD will be therefore defined as the lowest viral concentration detected with a
positivity rate of 95%.
The lower limit of quantitation (LoQ) is defined as the lowest concentration of measurand that are
determined with acceptable precision, trueness and linearity; "acceptable" is defined by clinical applications
of the assay. [4] For the purpose of this protocol, the LoQ will be defined as the viral concentration detected
with a positivity rate of at least 50%.
In order to estimate the limits of quantitation and detection for each assay under evaluation, a minimum of
24 replicates of an eight member dilution series concentrating on the lower end of the manufacturers’ claims
for the dynamic range of the assay will be used. The 24 replicates will be separated in a minimum of eight
runs where applicable. The WHO International Standard HCV RNA preparation will be used for this purpose.
9.3.1.3. Cross-contamination
If applicable, the cross-contamination experiment will allow the determination of the well-to-well / device-
to-device cross-contamination rate of the platform. The robustness of the different platforms will be
assessed by running 20 positive HCV genotype 1 specimens alternating with 20 negative specimens. The
concentration of the positive samples will be 106 IU/ml.
The level of agreement between the different specimens will be evaluated using the Bland-Altman analysis
(M. Bland, 1986); i.e. through a graphical representation of the plot of the difference between the
measurements using the two different methods (assay under evaluation and reference method) for each
data point against their mean. The limit of agreement is the 95% confidence interval of the difference
between the methods which is bias ±1.96 SD (standard deviation).
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9.3.2.2. Sensitivity and Specificity
a+c b+d
Sensitivity
Sensitivity will be calculated as the number of true positive results compared to true positives by the
reference method.
a
Sensitivity (see Table 1)
ac
Sensitivity will be expressed as a percentage.
Specificity
Specificity will be calculated as the number of true negative specimens identified by the index method
compared to true negatives by the reference method.
d
Specificity (see Table 1)
bd
Specificity will be expressed as a percentage.
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Confidence intervals
The 95% confidence intervals are calculated in order to assess the level of uncertainty introduced by sample
size. Exact 95% confidence intervals for binomial proportions will be calculated from the F-distribution (P.
Armitage, 2002) (B. Kirkwood, 2003).
Those specimens with results that are consistent with the reference testing results undergo no further
testing. Where possible, specimens with test results discrepant from the reference testing will be retested by
the same operator on the assay under evaluation if sufficient specimen is available.
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13. Roles and responsibilities
Any publication by WHO of the results of these evaluations and the WHO recommendations derived
therefrom will, however, be accompanied by the following disclaimer:
The mention of specific companies or of certain manufacturers’ products does not imply that they are
endorsed or recommended by the World Health Organization in preference to others of a similar nature that
are not mentioned. Errors and omissions excepted, the names of proprietary products are distinguished by
initial capital letters.
WHO and the WHO Prequalification Evaluating Laboratory, do not warrant or represent that the evaluations
conducted with the HCV test kits referred to in this document are accurate, complete and/or error-free. WHO
and the WHO Prequalification Evaluating Laboratory disclaim all responsibility for any use made of the data
contained herein, and shall not be liable for any damages incurred as a result of its use. This document must
not be used in conjunction with commercial or promotional purposes.
Master Templates
PQDx_274 PQT REPORT TEMPLATE FOR THE LABORATORY ASSESSMENT OF HCV MOLECULAR TECHNOLOGIES
Other Tools
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PQDx_292_Technician’s appraisal of operational characteristics
References
1. B. Kirkwood, J. S. (2003). Essential Medical Statistics 2nd edition. Blackwell Science Ltd.
2. ISO/IEC. (2007). International vocabulary of metrology - Basic and general concepts and associated
terms (VIM). ISO/IEC Guide 99. Geneva, Switzerland: International Organization for Standardization.
3. M. Bland, D. G. (1986). Statistical methods for assessing agreement between two methods of clinical
measurement. Lancet.
4. P. Armitage, G. B. (2002). Statistical Methods in Medical Research, 4th Edition. Oxford: Blackwell
Scientific Publications.
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