The ‘South African Population Research Infrastructure Network’ (SAPRIN) is a national research infrastructure funded through the Department of Science and Innovation and hosted by the South African Medical Research Council. One of SAPRIN’s initial goals has been to harmonise and share the longitudinal data from the three current Health and Demographic Surveillance System (HDSS) Nodes. These long-standing nodes are the MRC/Wits University Agincourt HDSS in Bushbuckridge District, Mpumalanga, established in 1993, with a population of 113 113 people; the University of Limpopo DIMAMO HDSS in the Capricorn District of Limpopo, established in 1996, with a current population of 38 479; and the Africa Health Research Institute (AHRI) HDSS in uMkhanyakude District, KwaZulu-Natal, established in 2000, with a current population of 139 250. The data on this Repository is not the result of a single questionnaire but is a result of harmonised data from three different sites longitudinally collected over more than twenty years using different questionnaires that varied over time and site.