Substantial amounts of data have been generated from patient management and academic exercises designed to better
understand the human immunodeficiency virus (HIV) epidemic and design interventions to control it. A number of
specialized databases have been designed to manage huge data sets from HIV cohort, vaccine, host genomic and
drug resistance studies. Besides databases from cohort studies, most of the online databases contain limited curated
data and are thus sequence repositories. HIV drug resistance has been shown to have a great potential to derail the
progress made thus far through antiretroviral therapy. Thus, a lot of resources have been invested in generating drug
resistance data for patient management and surveillance purposes. Unfortunately, most of the data currently available
relate to subtype B even though >60% of the epidemic is caused by HIV-1 subtype C. A consortium of clinicians,
scientists, public health experts and policy markers working in southern Africa came together and formed a network,
the Southern African Treatment and Resistance Network (SATuRN), with the aim of increasing curated HIV-1 subtype C
and tuberculosis drug resistance data. This article describes the HIV-1 data curation process using the SATuRN Rega
database. The data curation is a manual and time-consuming process done by clinical, laboratory and data curation
specialists. Access to the highly curated data sets is through applications that are reviewed by the SATuRN executive
committee. Examples of research outputs from the analysis of the curated data include trends in the level of transmitted
drug resistance in South Africa, analysis of the levels of acquired resistance among patients failing therapy and factors associated with the absence of genotypic evidence of drug resistance among patients failing therapy. All these
studies have been important for informing first- and second-line therapy. This database is a free password-protected
open source database available on www.bioafrica.net.
Ismail, Nazir Ahmed; Mvusi, Lindiwe; Nanoo, Ananta; Dreyer, Andries; Omar, Shaheed V.; Babatunde, Sanni; Molebatsi, Thabo; Van der Walt, Martie; Adelekan, Adeboye; Deyde, Varough; Ihekweazu, Chikwe; Madhi, S.A.(Elsevier, 2018-07)
BACKGROUND : Globally, per-capita, South Africa reports a disproportionately high number of cases of multidrug-resistant (MDR) tuberculosis and extensively drug-resistant (XDR) tuberculosis. We sought to estimate the ...
Qekwana, Daniel Nenene; Phophi, Lufuno; Naidoo, Vinny; Oguttu, James Wabwire; Odoi, Agricola(BioMed Central, 2018-07-31)
BACKGROUND : This study investigated the burden and predictors of canine E. coli urinary tract infections (UTI) and
antimicrobial resistance among dogs presented at a veterinary teaching hospital in South Africa, ...
Oguttu, James Wabwire; Qekwana, Daniel Nenene; Odoi, Agricola(BioMed Central, 2017-08-22)
BACKGROUND : Antimicrobial resistant Staphylococcus are becoming increasingly important in horses because of the
zoonotic nature of the pathogens and the associated risks to caregivers and owners. Knowledge of the burden ...