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AHRI.Population Intervention Programme:Images of point of care HIV tests 2017-2022

South Africa, 2017 - 2022
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Reference ID
AHRI.PIP.RapidHIVTestImagesMetaData.2022.V1
Producer(s)
Kobus Herbst, Guy Harling, Mark Siedner, Willem Hanekom
Metadata
Documentation in PDF DDI/XML JSON
Created on
Feb 08, 2023
Last modified
Feb 08, 2023
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3012
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  • Identification
  • Version
  • Scope
  • Coverage
  • Producers and sponsors
  • Sampling
  • Data collection
  • Data processing
  • Data Access
  • Metadata production

    • Identification

    Survey ID number

    AHRI.PIP.RapidHIVTestImagesMetaData.2022.V1
    Title

    AHRI.Population Intervention Programme:Images of point of care HIV tests 2017-2022
    Country
    Name Country code
    South Africa ZA
    Abstract

    As part of the ongoing individual health surveillance, Africa Health Research Institute (AHRI) collect point of care HIV test images from all consenting resident individuals aged 15 years and above. Operationally, these images are used by clinical research operations team as part of the quality assurance process to check if the HIV test results captured in the electronic data collection system are accurately entered and that patient referral is done appropriately for those needing HIV care. Scientifically, these images were also used in machine learning study conducted in collaboration with University College London which aimed at developing and piloting new mobile phone connected diagnostic tests for use in community settings. These tests used an application linked to a mobile camera to interpret the results. The performance of the tests was benchmarked to gold-standard diagnostic tests (Enzyme Linked ImmunoSorbent Assays (ELISA) and Polymerase Chain Reaction (PCR)) using patient samples (n=100).

    For more, refer: Turbé, V., Herbst, C., Mngomezulu, T. et al. Deep learning of HIV field-based rapid tests. Nat Med 27, 1165-1170 (2021). https://doi.org/10.1038/s41591-021-01384-9
    Kind of Data

    Machine readable images of point of care (POC) HIV tests.
    Unit of Analysis

    Photographs of individual test strip responses.

    Version

    Version Description

    v1.0.0

    Scope

    Topics
    Topic Vocabulary URI
    HIV-1, Incidence, Machine Learning, Population Surveillance, Rural Population, HIV Infections, Africa Africa Health Research Institute www.ahri.org
    Keywords
    HIV rapid test, Point-of-care test, Lateral Flow test, images

    Coverage

    Geographic Coverage

    South Africa.

    AHRI's Population Intervention Programme Study Area (PIPSA) situated in uMkhanyakude district KwaZulu-Natal province which is approximately 200km north of Durban. The area is approximately 845km2 in size and since 2017, the area has been expanded in to include the area which was formerly used for a cluster randomised trial on treatment as a prevention(TasP).

    For more refer:

    1. Dickman Gareta, Kathy Baisley, Thobeka Mngomezulu, Theresa Smit, Thandeka Khoza, Siyabonga Nxumalo, Jaco Dreyer, Sweetness Dube, Nomathamsanqa Majozi, Gregory Ording-Jesperson, Eugene Ehlers, Guy Harling, Maryam Shahmanesh, Mark Siedner, Willem Hanekom, Kobus Herbst, Cohort Profile Update: Africa Centre Demographic Information System (ACDIS) and population-based HIV survey, International Journal of Epidemiology, Volume 50, Issue 1, February 2021, Pages 33-34, https://doi.org/10.1093/ije/dyaa264

    2. Tanser F, Hosegood V, Bärnighausen T, Herbst K, Nyirenda M, Muhwava W, Newell C, Viljoen J, Mutevedzi T, Newell ML. Cohort Profile: Africa Centre Demographic Information System (ACDIS) and population-based HIV survey. Int J Epidemiol. 2008 Oct;37(5):956-62. doi: 10.1093/ije/dym211. Epub 2007 Nov 12. PMID: 17998242; PMCID: PMC2557060.

    3. Iwuji CC, Orne-Gliemann J, Larmarange J, Balestre E, Thiebaut R, Tanser F, Okesola N, Makowa T, Dreyer J, Herbst K, McGrath N, Bärnighausen T, Boyer S, De Oliveira T, Rekacewicz C, Bazin B, Newell ML, Pillay D, Dabis F; ANRS 12249 TasP Study Group. Universal test and treat and the HIV epidemic in rural South Africa: a phase 4, open-label, community cluster randomised trial. Lancet HIV. 2018 Mar;5(3):e116-e125. doi: 10.1016/S2352-3018(17)30205-9. Epub 2017 Nov 30. PMID: 29199100.
    Universe

    All resident household members from AHRI's PIPSA aged 15 years and above and who gave informed consent for their rapid HIV test images to be photographed

    Producers and sponsors

    Primary investigators
    Name Affiliation
    Kobus Herbst AHRI
    Guy Harling AHRI
    Mark Siedner AHRI
    Willem Hanekom AHRI
    Producers
    Name
    Africa Health Research Institute
    Funding Agency/Sponsor
    Name Role
    Welcome Trust Funder
    SAPRIN Funder
    Other Identifications/Acknowledgments
    Name Affiliation Role
    Thobeka Mngomezulu AHRI Data collection
    Phumzile Dlamini AHRI Data collection
    Lindiwe Sithole AHRI Data collection
    Bonginkosi Ntimane AHRI Data quality
    Njabulo Myeni AHRI Data quality
    Eugene Ehlers AHRI Software Development
    Eugene Prenzler AHRI Data Analytics
    Brendan Gilbert AHRI IT infrastructure
    Sweetness Dube AHRI Data documentation
    Siyabonga Nxumalo AHRI Research Data management
    Dickman Gareta AHRI Research Data management

    Sampling

    Sampling Procedure

    Rapid HIV test image collection is integrated within the routine AHRI individual health surveillance

    Data collection

    Dates of Data Collection
    Start End
    2017-01-01 2022-12-05

    Data processing

    Data Editing

    The raw images have been stripped of the GPS coordinates and index data is completely anonymised.

    Data Access

    Access conditions

    Access to the data requires accurate completion of the online data access application form accessible on the AHRI Data repository(https://data.ahri.org/). Data users are required to abide by the data use conditions stipulated on the application for access to the data. Failure to do so may result in their data access privileges revolved by the Data Custodian. In order to recognise the effort and intellectual contributions of AHRI investigators in producing and curating the data, users of AHRI data must acknowledge the source of the data and abide by the terms and conditions under which the data is accessed. All analytical datasets published on the AHRI Data Repository are assigned digital object identifier (DOIs) and the DOIs can be found on the Data Repository under Study Description tab - Access policy. AHRI data users are required to always cite the dataset using the DOI.

    Due to the size of the zip file(>50GB), the images could not be published on the AHRI Data Repository. The images are therefore stored on the AHRI SharePoint. Users must request for access on the AHRI Data Repository by completing the online data request application form. Access to the SharePoint will only be granted to the data user once the Data Custodian has approved the user data request.
    Citation requirements

    Herbst, K., Harling, G., Siedner, M., & Hanekom, W. (2023). Population Intervention Programme:Images of point of care HIV tests 2017-2022 [Data set]. Africa Health Research Institute. DOI:https://doi.org/10.23664/AHRI.PIP.RAPIDHIVTESTIMAGESMETADATA.2022

    Metadata production

    DDI Document ID

    DDI.AHRI.PIP.RapidHIVTestImagesMetaData.2022.V1
    Producers
    Name
    Africa Health Research Institute
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