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Page 2 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS
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Page 2 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

PROTOCOL FOR THE LABORATORY

EVALUATION OF QUALITATIVE HIV

MOLECULAR ASSAYS

Page 3 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

© World Health Organization 2019

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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

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Page 4 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

TABLE OF CONTENTS

1. INTRODUCTION ...............................................................................................................................6 Prequalification of In Vitro Diagnostics .......................................................................................... 6

2. INTENDED AUDIENCE .......................................................................................................................6 3. STUDY OBJECTIVES ...........................................................................................................................7

Overall Objectives ......................................................................................................................... 7 Specific Objectives: ....................................................................................................................... 7

4. STUDY IMPLEMENTATION ................................................................................................................7 WHO Prequalification Evaluating Laboratories ............................................................................... 7 Training, performance evaluation and supervision ......................................................................... 8 Safety ........................................................................................................................................... 8 Storage of assays .......................................................................................................................... 8

5. STUDY DESIGN .................................................................................................................................8 6. SPECIMEN PANELS ...........................................................................................................................9

Analytical Performance Specimen Reference Panel ........................................................................ 9 Clinical Performance Specimen Reference Panel .......................................................................... 10

Criteria for eligible specimens ....................................................................................................................... 11 Characterization of the clinical specimens .................................................................................................... 12

7. LABORATORY TESTING ................................................................................................................... 12 Review of the instructions for use ............................................................................................... 12 Sequence of testing ..................................................................................................................... 12

Precision …………………………………………………………………………………………………………………………………………………12 Limit of detection ........................................................................................................................................... 12 Robustness ..................................................................................................................................................... 12 Subtype detection .......................................................................................................................................... 13 Clinical performance ...................................................................................................................................... 13

Interpretation and recording of test results ................................................................................. 13 Ease of use and operational characteristics .................................................................................. 13

8. QUALITY CONTROL ......................................................................................................................... 13 Test kit controls .......................................................................................................................... 13 Internal quality control ............................................................................................................... 14 External quality control specimen ............................................................................................... 14 Proficiency panels ....................................................................................................................... 14 Limits of acceptability ................................................................................................................. 14 Interpretation of results .............................................................................................................. 14

9. ANALYSIS OF DATA ........................................................................................................................ 14 Invalid runs ................................................................................................................................. 14 Invalid individual specimen results (invalid IQC/calibrator) .......................................................... 14 Analytical performance ............................................................................................................... 15

Precision of measurement ............................................................................................................................. 15 Limit of detection ........................................................................................................................................... 15 Cross-contamination or carry-over ................................................................................................................ 15

Clinical Performance ................................................................................................................... 15 Sensitivity and Specificity ............................................................................................................................... 15 Discrepant results .......................................................................................................................................... 16

10. REPORT PREPARATION ................................................................................................................... 16 11. MATERIALS AND SUPPLIES ............................................................................................................. 16

Page 5 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

12. ROLES AND RESPONSIBILITIES ........................................................................................................ 17 Responsibilities of the WHO Prequalification Evaluating Laboratory ............................................. 17 Responsibilities of WHO .............................................................................................................. 17

13. OTHER DOCUMENTS AND TOOLS REQUIRED ................................................................................... 18 14. REFERENCES .................................................................................................................................. 18 15. DOCUMENT CONTROL .................................................................................................................... 18

Page 6 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

1. Introduction

Prequalification of In Vitro Diagnostics

World Health Organization (WHO) prequalification of in vitro diagnostics (IVDs) is coordinated through the

department of Essential Medicines and Health Products. Focus is placed on IVDs for priority diseases and their

suitability for use in resource-limited settings.

WHO prequalification of IVDs is a comprehensive quality assessment of individual IVDs through a standardized

procedure aimed at determining whether the product meets WHO prequalification requirements.

The full prequalification assessment process includes the following components:

• review of a product dossier;

• performance evaluation including operational characteristics;

• inspection of the manufacturing site(s); and

• labelling review.

The abridged prequalification assessment includes the following components:

• performance evaluation including operational characteristics;

• inspection of the manufacturing site(s); and

• labelling review.

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 qualitative HIV 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 Health Laboratory Services HIV PCR Lab,

Charlotte Maxeke Johannesburg Academic Hospital, Johannesburg, South Africa and Division of Global

HIV/AIDS, Centers for Disease Control and Prevention, Atlanta, USA.

2. Intended audience

This document is intended to provide WHO Prequalification Evaluating Laboratories and manufacturers with

the WHO performance evaluation procedure.

Page 7 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

3. Study Objectives

Overall Objectives

The overall objective of the performance evaluation is:

• To evaluate analytical and diagnostic performance of commercially available qualitative HIV molecular assays undergoing prequalification assessment.

Specific Objectives:

The specific objectives of the evaluation are to:

• Assess the precision of selected technologies;

• Verify claims of limit of detection;

• Assess robustness (cross-contamination or carry-over);

• Assess subtype detection;

• Assess sensitivity and specificity using clinical specimens by comparing with a designated reference

standard;

• Evaluate the operational characteristics of selected technologies, e.g. ease of performance, specimen

type utility, suitability for use in extreme conditions (high/low temperatures, high humidity), suitability

for use in countries with limited infrastructure (no/limited electricity, no/limited clean water,

inadequate means of waste disposal);

• Report and disseminate the findings of the evaluation.

4. Study implementation

WHO Prequalification Evaluating Laboratories

The performance evaluation will be exclusively conducted by a WHO Prequalification Evaluating Laboratory.

These laboratories have successfully undergone assessment through the WHO Alternative Laboratory

Evaluation Mechanism which includes:

• Submission of an Expression of Interest (EoI) by the laboratory,

• Stage 1 audit of the laboratory (assessment of EoI and specific quality management system (QMS)

documentation),

• Stage 2 (on-site) audit to assess compliance with WHO requirements

The list of WHO Prequalification Evaluating Laboratories can be accessed here.

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.

Page 8 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

Training, performance evaluation and supervision

The following issues are key to minimizing error and maximizing the value of this evaluation:

• Only personnel having received specific training for this evaluation will be employed in the evaluation;

• Accurate record keeping is crucial to the success of the evaluation and the PI will be responsible for

ensuring that all data required for the evaluation are recorded as agreed

• Worksheets should be prepared and tubes, test devices or plates labelled prior to commencement of

any run / assay;

• 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.

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.

Storage of assays

All reagents must be stored as indicated in the instructions for use. Some assays may not need refrigeration.

Calibrated thermometers are placed at each location where reagents and specimens are stored, i.e. ambient,

refrigerator and freezer. Temperatures are recorded daily on forms designed for the purpose. The lot numbers

of the test kits received/used and their expiry dates are recorded on the individual run worksheets.

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)

• Robustness

• HIV subtype detection

Page 9 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

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:

• Skills and training requirements

• Maintenance and calibration requirements

• 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

Analytical Performance Specimen Reference Panel

• To assess the precision of measurement, two specimens representing the most commonly occurring HIV-

1 subtypes (subtypes B and C) and one HIV-negative specimen will be used. Each HIV-positive specimen

will be diluted in whole blood that is negative for HIV, HBV and HCV to obtain a concentration of 3-5x the

claimed limit of detection (LoD) of the assay.

• To conduct the assessment of the LoD, the WHO International Standard for HIV-1 RNA will be used to

prepare two-fold serial dilutions in HIV-negative whole blood comprising at least two concentrations above

the manufacturer’s stated LoD, one concentration at the stated LoD and two concentrations below the

LoD.

• The robustness (or cross-contamination) experiment will be conducted with HIV-1 subtype B or C stock

specimen at a concentration of >106 IU/ml and negative specimens in order to detect potential cross-

contamination, if applicable to the technology under evaluation.

• Specimens to demonstrate appropriate subtype detection should either be contributed by the evaluating

laboratory or procured commercially (eg. Accuset HIV-1 Worldwide Performance Panel, SeraCare Life

Sciences Inc.). They should comprise at least HIV-1 Subtypes B, C, D, F, AG and AE, as well as HIV-2, if

applicable (i.e. if claimed by manufacturer). These specimens will be diluted at a concentration of 5000

cp/mL.

Concentrations may be modified to accommodate the dynamic range of the assay under evaluation.

Page 10 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

The type of specimens used will depend on the specimen types claimed in the intended use of the assay. If

both venous whole blood and dried blood spots (DBS) are claimed specimen types, then analytical performance

should be assessed on both specimen types.

If capillary blood is the only specimen type claimed, then venous whole blood will be accepted for the

assessment of analytical performance, with previous approval from the company.

Table 1. Specimen requirements for analytical evaluation Analyte Concentration (copies/mL) Number of replicates

Precision assessment

HIV-1 Subtype B 3-5x LoD See section 7.2.1

HIV-1 Subtype C 3-5x LoD See section 7.2.1

Negative 0 See section 7.2.1

Limit of Detection

WHO International Standard for HIV-1 RNA

Two-fold serial dilutions with:

• Two concentrations above the manufacturer’s stated LoD

• One concentration at the stated LoD

• Two concentrations below the LoD

24 each= 120

Robustness (cross-contamination)

HIV-1 Subtype B or C >106 20

Negative specimens 0 20

Subtype detection

B 103.7 (5000) 1

C 103.7 (5000) 1

D 103.7 (5000) 1

F 103.7 (5000) 1

AG 103.7 (5000) 1

AE 103.7 (5000) 1 This panel may be adapted on a case-by-case basis according to the manufacturer’s claims

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.

Clinical Performance Specimen Reference Panel

Left-over venous whole blood submitted for routine testing will be used to evaluate clinical performance. If

applicable, DBS will be prepared immediately, dried and stored at room temperature until testing.

Clinically-derived specimens should comprise specimens collected from infants (<18 months) and adults sent

for routine testing. Table 2 represents the total number of clinical specimens required. Eligibility criteria are

described below.

Page 11 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

The sample size for infants <18 months was calculated in order to obtain a total width of the 95% confidence

interval of 0.087 for an expected sensitivity of 0.95 and 0.045 for an expected specificity of 0.98.

The sample size for adults was calculated in order to obtain a total width of the 95% confidence interval of 0.1

for expected sensitivity and specificity of 0.95.

Table 2. Number of specimens required for the clinical evaluation Number of specimens

Infants < 18 months

HIV RNA-positive

HIV RNA-negative

120

200

Adults (if applicable, ie. if intended use includes adults)

HIV RNA-positive

HIV RNA-negative

100

100

Total 520

6.2.1. Criteria for eligible specimens

Specimens will be eligible for the study if they meet the following criteria.

For infants:

- Infants up to 18 months of age (information on age should be available)

- Blood specimens sent for routine HIV testing

- Sufficient volume of whole blood and/or DBS available to perform the assay under evaluation after

all standard of care testing, including reference standard, performed

- Not on anti-retroviral therapy (but can be on prophylaxis treatment)

For adults (if applicable):

- Over the age of 15 years

- Blood specimens sent for routine testing

- Specimens confirmed HIV-positive or HIV-negative by serology according to the national algorithm

- Not on anti-retroviral therapy, as reported by the person

- At least 1 mL of whole blood available after all requested testing performed

Consecutive specimens matching the criteria described above will be included until reaching the stated sample

size for positive and negative specimens (infants/adults), according to the reference result. The specimens

should be used within the time recommended by the manufacturer, according to the instructions for use (IFU).

Specimens used for this study will be left-over from routinely collected specimens, so written informed consent

will not be needed. Patient information will be used to select specimens according to criteria described above

but will not be recorded in the database or used for this evaluation. Ethical requirements (i.e. the need for

submission of a protocol to an ethics committee and written informed consent) will be determined on a case-

by-case basis according to the regulations of the country where the evaluation takes place.

Page 12 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

6.2.2. Characterization of the clinical specimens

The clinical specimens will be characterized using the COBAS® AmpliPrep/COBAS® TaqMan® HIV-1 Qualitative

Test, version 2.0 (Roche Diagnostics) performed on DBS using COBAS® TaqMan analyser, COBAS® TaqMan

48analyser, or COBAS® TaqMan 96 analyser. The result obtained using this test will serve as the reference

result; no additional testing will be required. An alternative reference method may be selected by the WHO

Prequalification Evaluating Laboratory with prior agreement from WHO.

Use of any other reference standard shall be communicated, discussed and agreed with WHO beforehand.

7. Laboratory testing

Review of the instructions for use

Each product under evaluation will be used in accordance with the 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.

Sequence of testing

7.2.1. Precision

Three specimens will be used (one negative, one subtype B and one subtype C, both at a concentration of 3-5x

LoD, see Table 1).

For high-throughput technologies, the specimens will first be repeated 10 times each in the same testing

session (intra-run variability), and then repeated over 10 testing sessions (inter-run variability).

For low throughput technologies, these 3 specimens will each be repeated 8 times on each of 3 to 5

instruments to assess intra-instrument and inter-instrument variability.

7.2.2. Limit of detection

Each dilution of the WHO International Standard, as described in Table 1, will be tested 24 times. The 24

replicates will be separated in a minimum of eight runs where applicable.

7.2.3. Robustness

For high-throughput technologies, the high positive and negative specimens (see Table 1) will be tested 20

times each in the same run, by alternating each type of specimen (ie. high positive followed by negative

specimen) to assess cross-contamination.

For low-through put assays, the high positive and negative specimens will be tested in an alternative manner

on the same instrument under routine conditions. This sequence of tests will be repeated for a total of 20 times

(40 tests), using different instruments/modules if applicable.

Page 13 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

7.2.4. Subtype detection

Each specimen from the genotype detection panel will be tested once.

The test will be repeated once if the initial test is invalid or negative (not in agreement with manufacturer’s

claim).

7.2.5. Clinical performance

Each specimen from the clinical performance panel will be tested once on the assay under evaluation. The test

will be repeated once if the initial test is invalid.

Discrepant results, defined as results that do not agree with results obtained with the reference assay, will be

retested by the same operator on the assay under evaluation if sufficient specimen is available. Specimens

with results that are consistent with the reference testing results undergo no further testing.

Specimens will be randomized and blinded so that the laboratory staff performing the assay under evaluation

are not aware of the reference result.

Interpretation and recording of test results

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.

Wherever possible, all test results are saved and exported directly from the instrument to standardized test

result worksheets in Microsoft Excel spreadsheets for further data analysis.

Ease of use and operational characteristics

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 operational characteristics, ease of the

procedure, reading and interpretation of results, clarity of IFU, as well as records of any specific difficulties

encountered during the evaluation. Special attention should be paid to the IFU in order to evaluate whether

these instructions are sufficient for WHO Member State end-users. Comments on the IFU must be made in

the report if it does not meet an acceptable standard for any of the following criteria: clarity, presentation,

content, safety instructions.

The technician’s appraisal table will be made available to WHO Prequalification Evaluating Laboratories as a

separate document.

8. Quality control

Test kit controls

Manufacturer-supplied positive and negative test kit controls will be run at the frequency indicated in the IFU,

in each test run when applicable and at the start of each testing session when applicable. Where positive and

negative test kit controls are not supplied by the manufacturer, the external quality control specimen will act

at the control specimen.

Page 14 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

Internal quality control

Internal procedural controls should be incorporated into the design of most assays by the manufacturer. These

may take the form of extraction, and/or amplification, and/or detection controls, as indicated in the IFU. Any

internal quality control must be valid as per manufacturer’s instructions.

External quality control specimen

The evaluating site will supply a previously validated external quality control (QC) specimen which is tested in

single for each test run or once at the start of the day per instrument for single use devices. The QC specimen

represents a low positive HIV-1 specimen. The QC specimen will be made by the evaluating site or acquired

commercially and validated by the site.

Proficiency panels

A proficiency panel of routine specimens comprised of high and undetectable specimens must be run

successfully for each assay by each operator before the evaluation commences. This may be the same panel

as that used at the time of assay demonstration by the manufacturer or for training purposes.

Limits of acceptability

All results on test kit controls and the QC specimen are documented. Should the QC sample not give the

expected result, the run will be considered invalid, in which case the run will be repeated, and troubleshooting

should occur for instruments using single use devices. Such problems should be recorded on the data sheets.

The PI will be responsible for carefully checking all data entry forms for legibility, accuracy and completeness.

Interpretation of results

The interpretation of results for each assay under evaluation is made strictly according to the manufacturers’

instructions within the IFU. Invalid test results and errors will also be recorded. Recording will be done either

directly from the instrument printer (if applicable) or manually in the data collection sheet. In order to avoid

transcriptional errors, a digital record will be kept of the results in the latter case.

9. Analysis of data

Invalid runs

The number of invalid test runs will be recorded as the absolute number of invalid runs and as a percentage of

the total number of runs performed for the entire evaluation using all specimens. Other types of readings

indicating an invalid run may be possible depending on the platform under evaluation. These will also be

recorded.

Invalid individual specimen results (invalid IQC/calibrator)

The number of individual invalid specimen results is recorded. They are presented as a percentage of the total

number of specimens tested per platform for the entire evaluation.

If applicable, other types of readings indicating invalid result (eg. error) will also be recorded and reported as

a percentage of the total number of specimens tested of the entire evaluation.

Page 15 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

Analytical performance

The following methods are used to calculate the performance characteristics for each assay under evaluation.

9.3.1. Precision of measurement

Hit rates (i.e. the proportion of expected results) will be calculated by sample, by instrument (if applicable)

and globally.

9.3.2. Limit of detection

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 estimated using the Probit analysis on the results of the 24 replicates

of the LoD panel.

9.3.3. Cross-contamination or carry-over

If applicable, the cross-contamination (or carry-over) experiment will allow the determination of the well-to-

well / device-to-device cross-contamination rate of the platform. The proportion of false-positive results

among the 20 negative specimens tested will be reported.

Clinical Performance

9.4.1. Sensitivity and Specificity

For the estimation of sensitivity and specificity of the assay under evaluation for the detection of HIV nucleic

acids, the results of the assay under evaluation will be compared to the results of the reference method.

Table 3. 2x2 table for calculation of sensitivity and specificity

Results of reference testing

+ –

Results of assay

under evaluation

+

a

True positives

b

False positives

a+b

c

False negatives

d

True negatives

c+d

a+c b+d

Sensitivity will be calculated as the proportion of true positive results detected by the assay under evaluation

compred to all positives by the reference method (see Table 3) and expressed as a percentage.

ca

aySensitivit

Page 16 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

Specificity will be calculated as the proportion of true negative specimens identified by the index method

compared to all negatives by the reference method (see Table 3). Specificity will be expressed as a percentage.

db

dySpecificit

Sensitivity and specificity will be estimated with their 95% 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).

9.4.2. Discrepant results

The initial and re-testing results of specimens with discrepant results (as defined in section 7.2.5) will be

described in the report. However, only the initial result will be used for calculations described above.

10. Report preparation

The preliminary data analysis and drafting of the report will be carried out by the laboratory according to a

pre-defined report template.

For evaluations coordinated by WHO (option 1) and conducted in List 1 WHO Prequalification Evaluating

Laboratories, the draft report will be shared with WHO. WHO will verify the data and draft report and send to

the authorized contact designated by the manufacturer for comment.

For evaluations commissioned by the manufacturer (option 2) conducted List 2 WHO Prequalification

Evaluating Laboratory, the data and draft report will be shared simultaneously with WHO and the manufacturer.

WHO will verify data and draft report and produce a final draft, which will be shared with the evaluating

laboratory and the manufacturer.

In both cases, manufacturers will have one month right of reply. After one month has elapsed, the report will

be accepted as final by WHO, regardless if comments are submitted. The final report will be prepared and

disseminated by WHO. A copy of the final report will be sent to the authorized contact designated by the

manufacturer and to the laboratory.

11. Materials and supplies

Manufacturers will provide the products and any equipment necessary for the evaluation free of charge.

The number of tests to be performed for this evaluation is estimated at:

Number

Precision 60-75

LoD 120

Robustness 40

Genotype detection 6

Page 17 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

Clinical performance 520

Total 761

Total + ~20% (for controls and possible repeats) 913

12. Roles and responsibilities

Responsibilities of the WHO Prequalification Evaluating Laboratory

i. Ensure availability and maintenance of all specimen panels;

ii. Conducting the performance evaluation in accordance with this protocol and good laboratory practice;

iii. Informing WHO of any unforeseen event that could have an impact on the evaluation or its timeline;

iv. Preparation of draft report of the laboratory evaluation;

v. Advising WHO on operational characteristics of assays evaluated.

All source data, data analysis records and all correspondence are retained and archived for a period of at least

ten years.

Responsibilities of WHO

i. Technical advice to the PI;

ii. Technical and administrative management of the laboratory evaluation;

iii. Verification of the draft report, seeking comments from the manufacturer;

iv. Preparation and dissemination of the final report;

v. Formal contacts with the manufacturers.

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 HIV 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.

Page 18 PQDx_199 PROTOCOL FOR THE LABORATORY EVALUATION OF QUALITATIVE HIV MOLECULAR ASSAYS V 2.0

13. Other documents and tools required

Standard Operating Procedures

SOP_PQDx_224_Overaching Procedure for Molecular Evaluations

Master Templates

PQDx_227 Report template for nucleic-acid based qualitative HIV assays

Other Tools

PQDx_292_Technician’s appraisal of operational characteristics

14. 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.

15. Document Control

Version Control

Prepared by Draft version Release Date

M Pérez González Final version 1 18/03/2016

AL Page Version 2 03/05/2019

Version Updates

Prepared by

Draft version

updated

Summary of changes

AL Page Version 2.0 Changed to WHO generic protocol format, changed sample size

(reduced number of HIV+ infants from 150 to 120 for feasibility

purposes, increased number of HIV- infants, increased number of

adults), modified method for assessment of precision


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