Publications
Publications
131
Articles in 2024
52
Articles in 2023
45
Articles in 2022
8
Articles in 2021
| Journal / Source | Publication Details |
|---|---|
| Acta Chiropterologica | Anthropogenic effects on bat activity and diversity along the Eerste River, South Africa Moir M., et al. |
| Advanced Quantum Technologies | A Multi‐Class Quantum Kernel‐Based Classifier Petruccione F., Pillay S., et al. |
| African Journal of Inter/Multidisciplinary Studies | Preserving Academic Integrity in AI-Generated Assessments: A Case Study in Entrepreneurship at a Sino-Foreign University Ozguven M., et al. |
| AIDS Research and Human Retroviruses | Virologic Nonsuppression and HIV Drug Resistance Among People Who Inject Drugs and Their Sexual and Injecting Partners in Kenya Wilkinson E., De Paiva Nazareth Andrade De O T., et al. |
| AIP Conference Proceedings | Preface: Proceedings of the 66th Annual Conference of the South African Institute of Physics (SAIP 2022) Petruccione F., et al. |
| BioEssays | Isotope effects on radical pair performance in cryptochrome: A new hypothesis for the evolution of animal migration Petruccione F., et al. |
| BMC Infectious Diseases | HIV-1 pretreatment and acquired antiretroviral drug resistance before tenofovir/ lamivudine /dolutegravir (TLD) roll-out in Mozambique Baxter C., Wilkinson E., De Paiva Nazareth Andrade De O T., Hofstra L., et al. |
| BMC Microbiology | Whole genome sequence analysis of multi-drug resistant and biofilm-forming Staphylococcus haemolyticus isolated from bovine milk Montso P., et al. |
| BMJ Global Health | Convergence of HIV and non-communicable disease epidemics: geospatial mapping of the unmet health needs in an HIV hyperendemic community in South Africa Tanser F., et al. |
| BMJ Open | Using a logic model to design and evaluate a health system strengthening intervention to improve infection prevention and control for Ebola virus disease in the Democratic Republic of the Congo Ousman K, Thumath M, Kabego L, Niyukuri D, Ombeni M, Banzua B, Mangala S, Tatabod R, Mirindi P, Talisuna A, Houndjo B, Baller A, Keïta M, Kickbusch I, Mckay G |
| British Journal of Clinical Pharmacology | Cross‐disciplinary mathematical modelling to benefit healthcare – could clinical pharmacology play an enabling role? Petruccione F., Rajaratnam K., Oladejo (Defunct) S., et al. |
| Cogent Engineering | LogicHouse-v1: a digital game-based learning tool for enhanced teaching of digital electronics in higher education institutions Moyo S., et al. |
| Computational Modeling and Simulation of Advanced Wireless Communication Systems | Computational Models for Training, Testing, and Validating Wireless Networks and Systems Oladejo S., et al. |
| Diagnostic and Prognostic Research | Evaluating diagnostic accuracy of an RT-PCR test for the detection of SARS-CoV-2 in saliva Baxter C., et al. |
| Environment International | Wastewater-based epidemiology for SARS-CoV-2 surveillance in South Africa Street R.A., et al. |
| EPJ Quantum Technology | Digital simulation of convex mixtures of Markovian and non-Markovian single qubit Pauli channels on NISQ devices Petruccione F., et al. |
| FEMS Microbiology Ecology | Changes in nutrient availability substantially alter bacteria and extracellular enzymatic activities in Antarctic soils Makhalanyane T., Rameshan G., et al. |
| FEMS Microbiology Ecology | Gradient boosted regression as a tool to reveal key drivers of temporal dynamics in a synthetic yeast community Watson B., et al. |
| Frontiers in Plant Science | Botrytis cinerea causes different plant responses in grape (Vitis vinifera) berries during noble and grey rot: diverse metabolism versus simple defence Otto M., et al. |
| Frontiers in Public Health | Evaluating the impact of COVID-19 on multi-drug-resistant tuberculosis services in South Africa Kagoro F, Jamieson L, Long L, Evans D, Nichols B, Silal S, Luthuli N, Miot J, Sanne I, Venter F, Meyer-Rath G |
| Frontiers in Public Health | Strengthening public health surveillance in Africa Tegally H., et al. |
| Frontiers in Virology | No detectable differences in Nef-mediated downregulation of HLA-I and CD4 molecules among HIV-1 group M lineages circulating in Cameroon, where the pandemic originated De Paiva Nazareth Andrade De O T., et al. |
| Gates Open Research | Accumulation of immunity in heavy-tailed sexual contact networks shapes Mpox outbreak sizes Endo A, Abbott S, Brueckner M, Kucharski A, Funk S |
| Genes | Unraveling the Complexity of Chikungunya Virus Infection Immunological and Genetic Insights in Acute and Chronic Patients De Souza Fonseca V., et al. |
| Genome Biology | A novel approach to exploring the dark genome and its application to mapping of the vertebrate virus fossil record Gifford R., et al. |
| Global Health Action | Improving modelling for epidemic responses: reflections from members of the UK infectious disease modelling community on their experiences during the COVID-19 pandemic Surendran S, Eames K, Edmunds W, Funk S, Gog J, Hollingsworth T, Keeling M, Klepac P, Kraemer M, Kucharski A, Lipsitch M, Medley G, Meentemeyer R, Pellis L, Pulliam J, Riley S, Roberts M, Robertson D, Tildesley M |
| Handbook of Whale Optimization Algorithm: Variants, Hybrids, Improvements, and Applications | Tuning SVMs' hyperparameters using the whale optimization algorithm Oladejo S., et al. |
| IEEE Sensors Journal | Design and Performance Analysis of a Novel Hoop-Cut SPR-PCF Sensor for High Sensitivity and Broad Range Sensing Applications Petruccione F., et al. |
| IEEE Transactions on Quantum Engineering | Quantum machine learning for big data analysis Schuld M., et al. |
| IET Quantum Communication | A novel quantum key distribution resistant against large‐pulse attacks Petruccione F., et al. |
| International Conference on Artificial Intelligence and Mechatronics System, AIMS 2024 | Metaheuristics for Protein Structure Prediction: Review and Empirical Analysis Oladejo S. |
| International Conference on Science, Engineering and Business for Driving Sustainable Development Goals, SEB4SDG 2024 | Intra-Datacenter Load Balancing in a Federated Cloud with Throttled Algorithm Moyo S., et al. |
| International Conference on Science, Engineering and Business for Driving Sustainable Development Goals, SEB4SDG 2024 | Optimizing Network Management and Virtualization Using Machine Learning Approach: Network Slice Prediction Oladejo S., et al. |
| International Journal of Environmental Research and Public Health | Assessing the Impact of COVID-19 on Mental Health in South Africa Davids M.R., et al. |
| International Journal of Infectious Diseases | Integrated analyses of the transmission history of SARS-CoV-2 and its association with molecular evolution of the virus underlining the pandemic outbreaks in Italy, 2019-2023 Tegally H., Wilkinson E., De Paiva Nazareth Andrade De O T., et al. |
| International Journal of Infectious Diseases | Rapid dynamic changes of FL.2 variant: A case report of COVID-19 breakthrough infection De Paiva Nazareth Andrade De O T., et al. |
| International Journal of Molecular Sciences | An Oxford Nanopore Technology-Based Hepatitis B Virus Sequencing Protocol Suitable for Genomic Surveillance Within Clinical Diagnostic Settings Baxter C., De Paiva Nazareth Andrade De O T., et al. |
| International Journal of Tuberculosis and Lung Disease | Reducing initial loss to follow-up among people with bacteriologically confirmed tuberculosis: LINKED, a cluster-randomised trial in South Africa Mbhele S, Hoddinott G, Taderera E, Nthane T, Van D.B.K., Walter E, Hesseling A, Dunbar R |
| Investment Analysts Journal | The low-volatility effect in African frontier equity markets Gilbert E., et al. |
| ISME Communications | Phylogenomic analysis expands the known repertoire of single-stranded DNA viruses in benthic zones of the South Indian Ocean Makhalanyane T., et al. |
| JMIR Research Protocols | SARS-CoV-2 Infections in a Triad of Primary School Learners (Grades 1-7), Their Parents, and Teachers in KwaZulu-Natal, South Africa: Protocol for a Cross-Sectional and Nested Case-Cohort Study De Paiva Nazareth Andrade De O T., et al. |
| Journal of Behavioral and Experimental Finance | Using machine learning to predict investors’ switching behaviour Gilbert E., et al. |
| Journal of Clinical Tuberculosis and Other Mycobacterial Diseases | Prevalence of chronic respiratory symptoms and post-tuberculosis lung disease among people treated for tuberculosis in South Africa Osman M, Hesseling A, Van S.C., Naidoo P, Dunbar R, Dlamini S, Enimil A, Hoddinott G, Seddon J, Marx F |
| Journal of Cosmology and Astroparticle Physics | Cosmological parameter estimation with machine learning Ntwaetsile T., et al. |
| Journal of Genomics | Reference Genome Resource for the Citrus Pathogen Phytophthora citrophthora Coetzee B., et al. |
| Journal of High Energy Physics | Holographic complexity and fidelity susceptibility Gieser L., et al. |
| Journal of Immunological Methods | Performance of Softcup® menstrual cup and vulvovaginal swab samples for detection and quantification of genital cytokines Baxter C., et al. |
| Journal of NeuroVirology | Characterization of HIV variants from paired Cerebrospinal fluid and Plasma samples in primary microglia and CD4+ T-cells Van Wyk S., et al. |
| Journal of Physics A: Mathematical and Theoretical | Dynamics of quantum correlations in open systems Dajka J., et al. |
| Journal of Physics: Conference Series | Machine learning for quantum technologies Schuld M., et al. |
| Journal of the International AIDS Society | Population impacts of conditional financial incentives and a male‐targeted digital decision support application on the HIV treatment cascade in rural KwaZulu Natal: findings from the HITS cluster randomized clinical trial Tanser F., et al. |
| Knowledge-Based Systems | The Hiking Optimization Algorithm: A novel human-based metaheuristic approach Oladejo S., et al. |
| Microbial Ecology | Synergizing Ecotoxicology and Microbiome Data Is Key for Developing Global Indicators of Environmental Antimicrobial Resistance Makhalanyane T., Leareng S., et al. |
| Microbiology Resource Announcements | Draft genome sequence of Priestia megaterium AB-S79 strain isolated from active gold mine Adeniji A., et al. |
| Microbiology Resource Announcements | Draft genome sequence of Staphylococcus auricularis PAPLE_T1 isolate of Carica papaya revealing biosynthetic clusters for beneficial metabolites Adeniji A., et al. |
| mLife | Harnessing marine microbiomes to develop a sustainable, all‐Atlantic bioeconomy Makhalanyane T., et al. |
| Monthly Notices of the Royal Astronomical Society | Remove First Detect Later: A counter-intuitive approach for detecting radio frequency interference in radio sky imagery Van Zyl D., et al. |
| Nature Climate Change | Impacts of climate change-related human migration on infectious diseases Tegally H., Wilkinson E., De Paiva Nazareth Andrade De O T., Moir M., et al. |
| Nature Communications | Clearance of persistent SARS-CoV-2 associates with increased neutralizing antibodies in advanced HIV disease post-ART initiation De Paiva Nazareth Andrade De O T., et al. |
| Nature Communications | Global disparities in SARS-CoV-2 genomic surveillance Tegally H., et al. |
| Nature Communications | HIV transmission dynamics and population-wide drug resistance in rural South Africa Tanser F., et al. |
| Nature Medicine | Design of a sentinel surveillance system for detecting emerging infectious diseases in Africa Tegally H., et al. |
| Nature Medicine | Global, regional, and national burden of disorders affecting the nervous system, 1990-2021: a systematic analysis for the Global Burden of Disease Study 2021 Steinmetz J, Seeher K, Schiess N, Nichols E, Cao B, Servili C, Cavallera V, Msemburi W, Agudelo-Botero M, Aji B, Akinyemi R, Alahdab F, Al-Aly Z, Alanezi F, Alanzi T, et al. |
| Nature Medicine | Sustained human outbreak of a new MPXV clade I lineage in eastern Democratic Republic of the Congo De Paiva Nazareth Andrade De O T., Baxter C., et al. |
| New Disease Reports | Citrus black spot caused by Phyllosticta citricarpa found on Valencia oranges in Botswana Coetzee B., et al. |
| New Journal of Physics | Nonequilibrium quantum heat transport between structured environments Petruccione F., et al. |
| npj Quantum Information | A quantum leaky integrate-and-fire spiking neuron and network Petruccione F., et al. |
| OBM Genetics | Reflective Evaluation of Next-Generation Sequencing Data during Early Phase Detection of the Delta Variant De Paiva Nazareth Andrade De O T., Baxter C., Ramphal Y., Tshiabuila D., Wilkinson E., Van Wyk S., et al. |
| Open Forum Infectious Diseases | Cost-Effectiveness of Remdesivir for Hospitalized Patients With COVID-19 in South Africa Youngji J, Jamieson L, Edoka I, Long L, Silal S, Pulliam J, Moultrie H, Sanne I, Meyer-Rath G, Nichols B |
| Pathogens | Understanding the Transmission Dynamics of the Chikungunya Virus in Africa De Paiva Nazareth Andrade De O T., Wilkinson E., Moir M., Baxter C., Tegally H., Hofstra L., et al. |
| Physical Review A | Quantum control of open systems Petruccione F., et al. |
| Physical Review A | Quantum simulation of open quantum systems Sinayskiy I., Petruccione F., et al. |
| Physical Review Research | Quantum algorithms for complex systems Sweke R., et al. |
| Physics Letters A | Open quantum systems in non-inertial frames Petruccione F., et al. |
| Physics Letters A | Petz recovery maps for qudit quantum channels Petruccione F., et al. |
| Physics of the Dark Universe | Dipole cosmology in f Q -gravity Paliathanasis A. |
| Physics of the Dark Universe | Dynamics of a higher-dimensional Einstein–Scalar–Gauss–Bonnet cosmology Paliathanasis A., et al. |
| PLOS Biology | A new lineage nomenclature to aid genomic surveillance of dengue virus Tegally H., De Paiva Nazareth Andrade De O T., Mwanyika G., Gifford R., De Souza Fonseca V., et al. |
| PLoS Computational Biology | Modelling the impact of non-pharmaceutical interventions on COVID-19 transmission Pulliam J.R.C., et al. |
| PLOS Global Public Health | A scoping review and taxonomy of epidemiological-macroeconomic models of COVID-19 Klopper M, Burger R, Smith A, Silal S |
| PLOS Global Public Health | Geospatial and temporal mapping of detectable HIV-1 viral loads amid dolutegravir rollout in KwaZulu-Natal, South Africa Tanser F., et al. |
| PLOS Global Public Health | Increasing HIV testing and linkage to care among men in rural South Africa using conditional financial incentives and a decision support app: A process evaluation Tanser F., et al. |
| PLOS Global Public Health | “The COVID-19 pandemic in BRICS: Milestones, interventions, and molecular epidemiology” De Paiva Nazareth Andrade De O T., Tegally H., Sitharam N., Santos Xavier J., Moir M., Abdool Karim W., Wilkinson E., et al. |
| PLOS Global Public Health | Tuberculin skin test surveys and the Annual Risk of Tuberculous Infection in school children in Northern KwaZulu-Natal Tanser F., et al. |
| PLoS ONE | Genomic epidemiology of SARS-CoV-2 in Africa Tegally H., et al. |
| Preventive Medicine Reports | Assessing the effect of public health interventions on the transmission of COVID-19 in Sudan: A mathematical modelling study Mohamed N, Elhag M, Ahmed M, Silal S |
| Public Health Action | Depression: an individual-level early warning indicator of virologic failure in HIV patients in South Africa Tanser F., et al. |
| Quantum Machine Intelligence | Classical ensembles of single-qubit quantum variational circuits for classification Petruccione F., et al. |
| Quantum Machine Intelligence | Hybrid genetic optimization for quantum feature map design Petruccione F., et al. |
| Quantum Machine Intelligence | Pulsar classification: comparing quantum convolutional neural networks and quantum support vector machines Petruccione F., et al. |
| Quantum Science and Technology | Benchmarking quantum computers Fingerhuth M., et al. |
| Scientific Reports | Comparing COVID-19 testing strategies in resource-limited settings: a modelling study in South Africa Jamieson L, Nichols B, Silal S, Pulliam J, Moultrie H, Meyer-Rath G |
| Scientific Reports | Markovian noise modelling and parameter extraction framework for quantum devices Petruccione F., et al. |
| Scientific Reports | Quantum machine learning for quantum data Schuld M., et al. |
| Scientific Reports | Quantum state tomography of a single-photon state in a turbulent channel Petruccione F., et al. |
| Scientific Reports | The effect of classical optimizers and Ansatz depth on QAOA performance in noisy devices Petruccione F., et al. |
| South African Journal of Botany | Complementary conservation of South African crop wild relatives for plant improvement Visser M., et al. |
| South African Journal of Science | Doing just sustainability transitions: Facing the legitimation crisis in the Anthropocene today De Oliveira A., et al. |
| Spatial and Spatio-temporal Epidemiology | Small area estimation of HIV prevalence in South Africa: A systematic review Mhlanga L, Grebe P, Welte A |
| Studies in Mycology | What are the 100 most cited fungal genera? Coetzee B., et al. |
| Symmetry | Geometric Linearization for Constraint Hamiltonian Systems Paliathanasis A. |
| The European Physical Journal Special Topics | Benchmarking regularisation methods for quantum process tomography on NISQ devices Petruccione F., et al. |
| The Lancet | Global burden of 288 causes of death and life expectancy decomposition in 204 countries and territories and 811 subnational locations, 1990-2021: a systematic analysis for the Global Burden of Disease Study 2021 Naghavi M, Ong K, Aali A, Abadian H, Abosetugn A, Abushouk A, Accrombessi M, Adane M, Adetokunboh O, et al. |
| The Lancet | The HIV response beyond 2030: preparing for decades of sustained HIV epidemic control in eastern and southern Africa Tanser F., et al. |
| The Lancet Global Health | Updated data and methods for the 2023 UNAIDS HIV estimates van Schalkwyk C, Mahy M, Johnson L, Imai-Eaton J |
| The Lancet Infectious Diseases | Emergence and spread of SARS-CoV-2 lineages in South Africa Viana R., et al. |
| The Lancet Planetary Health | Dengue virus importation risks in Africa: a modelling study Baxter C., De Paiva Nazareth Andrade De O T., Ramphal Y., Tegally H., et al. |
| Trends in Biotechnology | Leveraging marine biotechnology for an All-Atlantic sustainable blue economy Makhalanyane T., et al. |
| Virus Evolution | A phylogenetic assessment of HIV-1 transmission trends among people who inject drugs from Coastal and Nairobi, Kenya De Paiva Nazareth Andrade De O T., Wilkinson E., et al. |
| Virus Evolution | Emergence of Omicron FN.1 a descendent of BQ.1.1 in Botswana De Paiva Nazareth Andrade De O T., Baxter C., Moir M., Tegally H., Wilkinson E., et al. |
| Virus Evolution | Phylogenetic evidence of extensive spatial mixing of diverse HIV-1 group M lineages within Cameroon but not between its neighbours De Paiva Nazareth Andrade De O T., et al. |
| Viruses | Exploring Dengue Infection in a Vaccinated Individual: Preliminary Molecular Diagnosis and Sequencing Insights De Souza Fonseca V., et al. |
| Viruses | Insights into SARS-CoV-2 Surveillance among Prison Populations in Mato Grosso do Sul, Brazil, in 2022 De Souza Fonseca V., et al. |
| Where Am I in the Picture? Researcher Positionality in RuralStudies | “Hey, Mlungu!”: Positionality in Participatory Visual Research in Post-Apartheid South Africa De Oliveira A., et al. |
| Women's Health | Maternal exposure to heat and its association with miscarriage in rural KwaZulu-Natal, South Africa: A population-based cohort study Tanser F., et al. |
© 2025 Stellenbosch University School for Data Science and Computational Thinking
| Journal / Source | Publication Details |
|---|---|
| 27th ACM International Systems and Software Product Line Conference (SPLC 2023) Tokyo, New York, USA, Association for Computing Machinery 2023: 182-193. | True Variability Shining Through Taxonomy Mining KÖNIG C, SCHAEFER IA, ROSIAK K, CLEOPHAS LGWA. |
| African Journal of Laboratory Medicine 2023; 12(1):1-8. | Consequences of rpoB mutations missed by the GenoType MTBDR plus assay in a programmatic setting in South Africa MVELASE N, CELE L P, SINGH R, NAIDOO Y, GIANDHARI J, WILKINSON E, DE OLIVEIRA T, SWE SWE HAN K, MLISANA K. |
| AIDS and Behavior 2023 | Examining the relationship between psychosocial factors with knowledge of HIV‑positive status and antiretroviral therapy exposure among adolescent girls and young women living with HIV in South Africa Dietrich J., Jonas K., Cheyip M., Appollis T., Ariyo O., Beauclair R., Lombard C., Gray G., Mathews C. |
| Annals of Epidemiology 2023; 84:48-53. | High prevalence of self-reported sexually transmitted infections among older adults in Tanzania: Results from a list experiment in a population-representative survey KIM H-Y, ROHR J, LEYNA GH, KILLEWO J, TOMITA A, TANSER FC, BAERNIGHAUSEN T. |
| BMC Infectious Diseases 2023; 23:889, 11 pages. | Associations of inter-annual rainfall decreases with subsequent HIV outcomes for persons with HIV on antiretroviral therapy in Southern Africa: a collaborative analysis of cohort studies TRICKEY A, JOHNSON LF, FUNG F, IWUJI C, BIRARO S, BOSOMPRAH S, CHIRIMUTA L, EUVRARD J, FATTI GL, TANSER FC, ET AL. |
| BMC Medicine 2023 | Assessing the impacts of COVID-19 vaccination programme’s timing and speed on health benefits, cost-effectiveness, and relative affordability in 27 African countries Liu Y., Procter S., Pearson C., Montero A., Torres-Rueda S., Asfaw E., Uzochukwu B., Drake T., Bergren E., Eggo R., Ruiz F., Ndembi N., Nonvignon J., Jit M., Vassall A. |
| BMC Public Health 2023; 23(1):2383. | Feasibility and acceptability of using biometric fingerprinting to track migrations and support retention in HIV prevention research in fishing population in East Africa ABAASA A, MEE P, NANYONJO A, EASTON S, TANSER FC, ASIKI G. |
| BMC Public Health 2023; 23(1):2147, 8 pages. | An early warning precision public health approach for assessing COVID-19 vulnerability in the UK: The Moore-Hill Vulnerability Index (MHVI) MOORE H, EMERY J, HILL B, GUSSY M, SIRIWARDENA A N, SPAIGHT R, TANSER FC. |
| BMJ Global Health 2023; 8(1):e012522, 11 pages. | Improving early infant diagnosis for HIV-exposed infants using unmanned aerial vehicles for blood sample transportation in Conakry, Guinea: a comparative cost-effectiveness analysis INGHELS M, MEE P, DIALLO O H, CISSÉ M, NELSON D, TANSER FC, ASGHAR Z, KOITA Y, LABORDE-BALEN G, BRETON G. |
| Bulletin of Entomological Research 2023 | Improved models for the relationship between age and the probability of trypanosome infection in female tsetse, Glossina pallidipes Austen Hargrove J., Van S.J. |
| Cell 2023; 186(15):3277-3290. | Dispersal patterns and influence of air travel during the global expansion of SARS-CoV-2 variants of concern TEGALLY H, WILKINSON E, TSUI J L, MOIR MI, MARTIN D, BRITO AF, GIOVANETTI M, KHAN K, POONGAVANAN J, SANTOS XAVIER J, BAXTER C, DE OLIVEIRA T, ET AL ET. |
| Clinical Infectious Diseases 2023; 76(9):1702-1703. | Reply to Molldrem MAPONGA TG, JEFFRIES ML, SUTHERLAND AD, TEGALLY H, WILKINSON E, LESSELS R, MSOMI N, VAN ZYL GU, DE OLIVEIRA T, PREISER W. |
| Clinical Infectious Diseases 2023; 76(3):e522-e525. | Persistent Severe Acute Respiratory Syndrome Coronavirus 2 Infection With accumulation of mutations in a patient with poorly controlled Human Immunodeficiency Virus infection MAPONGA TG, JEFFRIES ML, TEGALLY H, SUTHERLAND AD, WILKINSON E, LESSELS R, MSOMI N, VAN ZYL GU, DE OLIVEIRA T, PREISER W. |
| Critical Reviews in Food Science and Nutrition 2023; 63(32):10995-11009. | Chemometric and sensometric techniques in enological data analysis MAFATA M, BRAND J, MEDVEDOVIC A, BUICA AS. |
| ecancermedicalscience 2023 | Risk factors for breast cancer among women in Ekurhuleni Metropolitan Municipality, Gauteng province of South Africa, 2017‒2020: a case-control study Mashele Z., Zwane T., Kuonza L., Muchengeti M., Motsuku L. |
| EcoHealth 2023 | Human exposure to bats, rodents and monkeys in Bangladesh Shanta I., Luby S., Hossain K., Heffelfinger J., Kilpatrick A., Haider N., Rahman T., Chakma S., Ahmed S. |
| Emerging Infectious Diseases 2023; 29(9):1859-1863. | Rapid Epidemic Expansion of Chikungunya Virus East/Central/South African Lineage, Paraguay GIOVANETTI M, VAZQUEZ C, LIMA M, CASTRO E, ROJAS A, GOMEZ DE LA FUENTE A, AQUINO C, CANTERO C, TEGALLY H, DE OLIVEIRA T, ET AL. |
| Emerging Infectious Diseases 2023; 29(10):2072-2082. | Ancestral Origin and Dissemination Dynamics of Reemerging Toxigenic Vibrio cholerae, Haiti MAVIAN C N, TAGLIAMONTE M S, ALAM M T, SAKIB S N, CASH M N, MOIR MI, JIMENEZ J P, RIVA A, DE OLIVEIRA T, MORRIS J G, SALEMI M, ET AL. |
| European Food Research and Technology 2023; 249(4):1073-1087. | Unsupervised data fusion and interpretation through cluster analysis on biplot projections: craft beer and gin case studies MAFATA MO, WILLIAMS C, KRUGER MG, BRAND J, WATSON BW, BUICA AS. |
| Fourth Southern African Conference for Artificial Intelligence Research - SACAIR2023, Pretoria, South Africa, SACAIR 2023: 98-114. | Towards a SCADA Cybersecurity Model with Machine Learning Algorithms BANDA TV, BLAAUW DN, WATSON BW. |
| Frontiers in Ecology and Evolution 2023 | Investigating the unaccounted ones: insights on age-dependent reproductive loss in a viviparous fly English S., Barreaux A., Leyland R., Lord J., Hargrove J., Vale G., Haines L. |
| Genes 2023; 14(3):1-15. | Molecular Epidemiology and Diversity of SARS-CoV-2 in Ethiopia, 2020-2022 SISAY A, TSHIABUILA DK, VAN WYK S, TESFAYE A, MBOOWA G, OYOLA S O, TESEMA S K, BAXTER C, TEGALLY H, MOIR MI, RAMPHAL Y, PILLAY Y, MAHARAJ A, NAIDOO Y, CHABUKA L, WILKINSON E, DE OLIVEIRA T, ET AL. |
| HTS Theological Studies/ Teologiese Studies 2023; 79(1):a8336, 7 pages. | Reductionism or holism? The two faces of biology WALKER JA, CLOETE TE. |
| IEEE Access 2023; 11:56891, 9pp. | Orbital Angular Momentum Mode Propagation and Supercontinuum Generation in a Soft Glass Bragg Fiber DYAVANGOUDAR AA, CCHIPA MK, SAHARIA A, ISMAIL Y, PETRUCCIONE F, BOURDINE AV, MOROZOV OG, DEMIDOV VV, YIN J, SINGH G, TIWARI M. |
| IEEE Access 2023; 11:83639-82665. | The Deep Sleep Optimizer: A Human-Based Metaheuristic Approach OLADEJO SO, EKWE S, AKINYEMI L, MIRJALILI SA. |
| IJID Regions 2023 | Evidence of HIV incidence reduction in young women, but not in adolescent girls, in KwaZulu-Natal, South Africa Mhlanga L., Welte A., Grebe P., Ohler L., Van C.G., Huerga H., Conan N. |
| Influenza and Other Respiratory Viruses 2023; 17(9):e13198, 13 pages. | Insights into SARS-CoV-2 in Angola during the COVID-19 peak: Molecular epidemiology and genome surveillance FRANCISCO NM, VAN WYK S, MOIR MI, SAN E J, SEBASTIAO CS, TEGALLY H, SANTOS XAVIER J, MAHARAJ A, NAIDOO Y, TSHIABUILA DK, CHABUKA L, CHOGA WT, PILLAY Y, BAXTER C, WILKINSON E, DE OLIVEIRA T, ET AL. |
| International Conference on Electrical, Computer and Energy Technologies (ICECET 2023), Cape Town, South Africa, IEEE 2023: 1-6. | Enhancing Chronic Kidney Disease Prediction through Data Preprocessing Optimization and Machine Learning Techniques AKINYEMI LA, OSHINUGA OP, EKWE S, OLADEJO SO. |
| International Conference on Electrical, Computer and Energy Technologies (ICECET 2023), Cape Town, South Africa, IEEE 2023: 1-6. | Development of Phylum Chordata Sound Recognition System using Machine Learning and Deep Learning Techniques: A Case Study of Catfish KINYEMI LA, OSHINUGA OP, ESHILOKUN OA, OLADEJO SO, EKWE S. |
| International Journal of Cancer 2023 | Thirteen cancers associated with HIV infection in a Black South African cancer patient population (1995-2016) Sengayi-Munchengeti M., Singh E., Chen W., Bradshaw D., De V.C., Newton R., Waterboer T., Mathew C., Sitas F. |
| International Journal of Cancer 2023 | Kaposi sarcoma-associated herpesvirus, HIV-1 and Kaposi sarcoma risk in black South Africans diagnosed with cancer during antiretroviral treatment rollout Motlhale M., Muchengeti M., Bradshaw D., Chen W., Singini M., De V.C., Lewis C., Bender N., Mathew C., Newton R., Waterboer T., Singh E., Sitas F. |
| International Journal of Environmental Research and Public Health 2023 | Socio-economic inequalities in the double burden of malnutrition among under-five children: evidence from 10 selected sub-Saharan African countries Alaba O., Chiwire P., Siya A., Saliu O., Nhakaniso K., Nzeribe E., Okova D., Lukwa A. |
| ISBN 978-92-4-008617-3 (electronic version) 2023 | World malaria report 2023 - Biological threats to malaria interventions Geneva: W.H.O., Niyukuri D. |
| Journal of Clinical Virology 2023; 165:105498, 5 pages. | Performance of rapid antigen tests in identifying Omicron BA.4 and BA.5 infections in South Africa SAMSUNDER N, LUSTIG G, DE VOS M, NGCAPU S, GIANDHARI J, TSHIABUILA D, SAN E J, LEWIS L, DE OLIVEIRA T, ET AL. |
| Journal of Comorbidity 2023; 13:1-12. | Geospatial assessment of the convergence of communicable and non-communicable diseases in South Africa CUADROS D, MORENO CM, TOMITA A, SINGH U, OLIVIER S, CASTLE A, MOOSA Y, EDWARDS J A, KIM H-Y, SIEDNER M, WONG E B, TANSER FC. |
| Journal of Simulation 2023 | Modelling presymptomatic Infectiousness in COVID-19 Cheng R., Dye C., Dagpunar J., Williams B. |
| Journal of the International AIDS Society 2023; 26(8):e26142, 9 pages. | Impact of family networks on uptake of health interventions: Evidence from a community-randomized control trial aimed at increasing HIV testing in South Africa MAKOFANE K, KIM H-Y, TCHETGEN E T, BASSETT M T, BERKMAN L, ADEAGBO O, MCGRATH N, SEELEY J, TANSER FC, ET AL. |
| Journal of the International AIDS Society 2023 | What will it take for an injectable ARV to change the face of the HIV epidemic in high-prevalence countries? Considerations regarding drug costs and operations Meyer-Rath G., Jamieson L., Pillay Y. |
| Lancet Global Health 2023; 11(9):1372-1382. | The met and unmet health needs for HIV, hypertension, and diabetes in rural KwaZulu-Natal, South Africa: analysis of a cross-sectional multimorbidity survey SINGH U, OLIVIER S, CUADROS DF, CASTLE A, MOOSA Y, ZULU T, EDWARDS J A, KIM H-Y, TANSER FC, ET AL. |
| Lancet HIV 2023; 10(4):230-243. | Safety and pharmacokinetics of escalating doses of neutralising monoclonal antibody CAP256V2LS administered with and without VRC07-523LS in HIV-negative women in South Africa (CAPRISA 012B): a phase 1, dose-escalation, randomised controlled trial MAHOMED S, GARRETT NJ, CAPPARELLI E, OSMAN F, MKHIZE N, HARKOO I, GENGIAH T N, MANSOOR LE, BAXTER C, ET AL. |
| Lancet Infectious Diseases 2023; 23(3):273-275. | New nomenclature for mpox (monkeypox) and monkeypox virus clades AGAFONOV A, BURCHFIELD J, CARTER L, HAPPI C, JAKOB R, KRPELANOVA E, KUPPALLI K, LEFKOWITZ E J, DE OLIVEIRA T, ET AL. |
| Lancet Infectious Diseases 2023; 23(5):e185-e189. | Advancing detection and response capacities for emerging and re-emerging pathogens in Africa NACHEGA JB, NSANZIMANA S, RAWAT A, WILSON LA, ROSENTHAL J, SIEDNER M, VARMA JK, KILMARX PH, MUTESA L, TANNER M, BINAGWAHO A, FORREST JI, MBALA-KINGEBENI P, MUYEMBE-TAMFUM JJ, NTOUMI F, ZUMLA A, DE OLIVEIRA T, MILLS EJ. |
| Malaria Journal 2023 | Community case management of malaria in Western Kenya: performance of community health volunteers in active malaria case surveillance Otambo W., Ochwedo K., Omondi C., Lee M., Wang C., Atieli H., Githeko A., Zhou G., Kazura J., Githure J., Yan G. |
| Mathematical and Computational Applications 2023 | Model-based assessment of elastic material parameters in rheumatic heart disease patients and healthy subjects Familusi M., Skatulla S., Hussan J., Aremu O., Mutithu D., Lumngwena E., Gumedze F., Ntusi N. |
| Medical and Veterinary Entomology 2023 | Improved estimates of abortion rates in tsetse (Glossina spp.) Hargrove J. |
| Microbiology Resource Announcements 2023; 12(12):e0084923, 3 pages. | Draft genome sequence of active gold mine isolate Pseudomonas iranensis strain ABS_30 ADENIJI A, AYANGBENRO A S, BABALO O O. |
| Microbiology Spectrum 2023 | Evaluation of Ortho VITROS and Roche Elecsys S and NC Immunoassays for SARS-CoV-2 Serosurveillance Applications Sulaeman H., Grebe P., Dave H., Mccann L., Di G.C., Sanghavi A., Sclar V., Bougie D., Chatelain G., Biggerstaff B., Jones J., Thornburg N., Kleinman S., Stone M., Busch M. |
| Microorganisms 2023; 11(11):2730, 15 pages. | Metronidazole treatment failure and persistent BV lead to increased frequencies of activated T- and dendritic-cell subsets QULU WP, MZOBE G, MTSHALI A, OSMAN F, GARRETT N, MINDRY D, NGCOBO N, KHARSANY ABM, ROMPALA R, LESSSELS R, ARCHARY D. |
| Nature Communications 2023; 14(1):8087, 8 pages. | Evolution and neutralization escape of the SARS-CoV-2 BA.2.86 subvariant KHAN K, LUSTIG G, ROMER C, BERNSTEIN M, REEDOY K, JARCHOW-MACDONALD AA, SHOZI N, MTHABELA N, GANGA Y, GOVENDER Z, TEGALLY H, DE OLIVEIRA T, ET AL. |
| Nature Microbiology 2023; 8(1):15-18. | SARS-CoV-2 Africa dashboard for real-time COVID-19 information SANTOS XAVIER J, MOIR MI, TEGALLY H, SITHARAM N, ABDOOL KARIM WA, WILKINSON E, DE OLIVEIRA T. |
| New England Journal of Medicine 2023; 389(26):2478-2487. | Case 40-2023: A 70-Year-Old Woman with Cough and Shortness of Breath GANDHI RT, CASTLE AC, DE OLIVEIRA T, LESSELLS R. |
| Photonics 2023; 10:875, 12 pages. | Spiral shaped photonic crystal fiber-based surface plasmon resonance biosensor for cancer cell detection MITTAL S, SAHARIA A, ISMAIL Y, TIWARI M, PETRUCCIONE F. |
| Physical Review Applied 2023; 20:014023, 15 pages. | Cyclic quantum engines enhanced by strong bath coupling LATUNE CL, PLEASANCE FP, PETRUCCIONE F. |
| PLOS Global Public Health 2023; 3(3):e0001648, 14 pages. | Genomic epidemiology of SARS-CoV-2 during the first four waves in Mozambique ISMAEL N, VAN WYK S, TEGALLY H, SITHARAM N, SANTOS XAVIER J, MOIR MI, SAN E J, TSHIABUILA D, BAXTER C, WILKINSON E, DE OLIVEIRA T, ET AL ET. |
| PLOS Global Public Health 2023 | What, how and who: Cost-effectiveness analyses of COVID-19 vaccination to inform key policies in Nigeria Ruiz F., Torres-Rueda S., Pearson C., Bergren E., Okeke C., Procter S., Madriz-Montero A., Jit M., Vassall A., Uzochukwu B. |
| PLOS Global Public Health 2023 | The role of modelling in planning and budgeting for South Africa's COVID-19 response Silal S., Pulliam J., Jamieson L., Nichols B., Moultrie H., Meyer-Rath G. |
| PLOS Global Public Health 2023 | The National COVID-19 Epi Model (NCEM): estimating cases, admissions and deaths for the first wave of COVID-19 in South Africa Silal S., Pulliam J., Meyer-Rath G., Jamieson L., Nichols B., Norman J., Hounsell R., Mayet S., Kagoro F., Moultrie H. |
| PLOS Global Public Health 2023 | Differential in-hospital mortality and intensive care treatment over time: Informing hospital pathways for modelling COVID-19 in South Africa Jamieson L., Van S.C., Nichols B., Meyer-Rath G., Silal S., Pulliam J., Blumberg L., Cohen C., Moultrie H., Jassat W. |
| PLOS Global Public Health 2023 | The role of modelling and analytics in South African COVID-19 planning and budgeting Meyer-Rath G., Hounsell R., Pulliam J., Jamieson L., Nichols B., Moultrie H., Silal S. |
| PLOS ONE 2023; 18(4):e0284414, 15 pages. | Evaluation of miniaturized Illumina DNA preparation protocols for SARS-CoV-2 whole genome sequencing PILLAY S, SAN E J, TSHIABUILA D, GIANDHARI J, TEGALLY H, WILKINSON E, BAXTER C, DE OLIVEIRA T, LESSSELS R, CHIMUKANGARA B. |
| PLOS ONE 2023; 18(5):e0286373, 14 pages. | SARS-CoV-2 spike protein diversity at an intra-host level among SARS-CoV-2 infected individuals in South Africa, 2020 to 2022 SUBRAMONEY K, MTILENI N, DAVIS A, GIANDHARI J, TEGALLY H, WILKINSON E, DE OLIVEIRA T, TREURNICHT F K, ET AL. |
| PLOS ONE 2023; 18(11):e0294025, 12 pages. | High-risk human papillomavirus prevalence among South African women diagnosed with other STIs and BV QULU WP, MTSHALI A, OSMAN F, NGCOBO N, MINDRY D, MANGWANI J, KHARSANY ABM, ROMPALA R, DE OLIVEIRA T, ARCHARY D. |
| PLOS ONE 2023 | Estimating the time-varying reproduction number for COVID-19 in South Africa during the first four waves using multiple measures of incidence for public and private sectors across four waves Bingham J., Tempia S., Moultrie H., Viboud C., Jassat W., Cohen C., Pulliam J. |
| PLOS ONE 2023 | Integration of point-of-care screening for type 2 diabetes mellitus and hypertension with COVID-19 rapid antigen screening in Johannesburg, South Africa Brennan A., Vetter B., Majam M., Msolomba V., Venter F., Carmona S., Kao K., Gordon A., Meyer-Rath G. |
| PLoS Computational Biology 2023 | Deep learning approaches to landmark detection in tsetse wing images Geldenhuys D., Josias S., Brink W., Makhubele M., Hui C., Landi P., Bingham J., Hargrove J., Hazelbag C. |
| PLoS Neglected Tropical Disease 2023 | Identification of the area sampled by traps: a modelling study with tsetse Vale G., Hargrove J., Torr S. |
| Proceedings of the National Academy of Sciences 2023 | Multiple models for outbreak decision support in the face of uncertainty Shea K., Borchering R., Probert W., Howerton E., Bogich T., Li S., Van P.W., Viboud C., Aguas R., Pearson C., Et A. |
| Psychology, Health & Medicine 2023; 28(9):2536-2544. | Water, sanitation and depression in rural communities: Evidence from nationally representative study data in South Africa MNGADI LC, CUADROS DF, TANSER FC, HLONGWA M, ARCHIBONG B, SARTORIUS B. |
| SAIEE Africa Research Journal 2023; 114(4):114-127. | Radiofrequency electromagnetic radiation exposure assessment, analysis, computation, and minimization technique in 5G networks: A perspective on QoS trade-offs AJIBARE AT, OLADEJO SO, EKWE S, AKINYEMI L, RAMOTSOELA D. |
| Science 2023; 381(6660):841-843. | Will climate change amplify epidemics and give rise to pandemics? DE OLIVEIRA T, TEGALLY H. |
| Science 2023; 381(6655):336-343. | Genomic assessment of invasion dynamics of SARS-CoV-2 Omicron BA.1 TSUI JL, MCCRONE JT, LAMBERT B, BAJAJ S, INWARD R P D, BOSETTI P, PENA R E, TEGALLY H, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Science Advances 2023; 9(35):1-13. | Genomic epidemiology unveils the dynamics and spatial corridor behind the Yellow Fever virus outbreak in Southern Brazil GIOVANETTI M, PINOTTI F, ZANLUCA C, FONSECA V, NAKAYA HI, DE OLIVEIRA T, ET AL. |
| Science of the Total Environment 2023 | The role of wastewater-based epidemiology for SARS-CoV-2 in developing countries: cumulative evidence from South Africa supports sentinel site surveillance to guide public health decision-making Iwu-Jaja C., Ndlovu N., Rachida S., Yousif M., Taukobong S., Macheke M., Mhlanga L., Van S.C., Pulliam J., Moultrie T., Le R.W., Schaefer L., Pocock G., Coetzee L., Mans J., Bux F., Pillay L., De V.D., Du T.A., Jambo D., Gomba A., Groeninck S., Madgewick N., Van D.W.M., Mutshembele A., Berkowitz N., Suchard M., Mccarthy K. |
| Seybold Report 2023; 18(8):1753-1768. | Towards developing a sustainability assessment framework for buildings in Uganda: A literature review SEMANDA J, MOYO S, CHIKAFALIMANI SHP, KIBWAMI N. |
| South African Journal of Science 2023; 119:15330, 2pp. | Data sharing and data governance in sub-Saharan Africa: Perspectives from the Lorentz Center Workshop KABANDA SM, CENGIZ N, RAJARATNAM K, KATZ DS, DE OLIVEIRA T. |
| South African Journal of Science 2023; 119:15714, 2 pages. | Data sharing: A long COVID perspective, challenges, and road map for the future OLADEJO SO, WATSON LR, WATSON BW, DE OLIVEIRA T. |
| South African Journal of Science 2023; 119:16147, 5 pages. | Managing and assembling population-scale data streams: The pipeline of the CSIR-SU Centre for Epidemic Response and Innovation within the INFORM-Africa Consortium POONGAVANAM J, XAVIER JS, DUNAISKI MP, DE OLIVEIRA T. |
| South African Medical Journal 2023 | Impact of interventions for tuberculosis prevention and care in South Africa – a systematic review of mathematical modelling studies Brown L., Van S.C., De V.A., Marx F. |
| Southern African Journal of Public Health 2023 | Neonatal sepsis: Challenges in data access, harmonisation and analysis to inform empirical antibiotic recommendations in South African neonatal units Bolton L., Bekker A., Govender N., Van S.C., Whitelaw A., Dramowski A. |
| Systematic Reviews 2023 | A systematic review of risk factors for mortality among tuberculosis patients in South Africa Nicholson T., Hoddinott G., Seddon J., Claassens M., Van D.Z.M., Lopez E., Bock P., Caldwell J., Da C.D., De V.C., Dunbar R., Du P.K., Hesseling A., Joseph K., Kriel E., Loveday M., Marx F., Meehan S., Purchase S., Naidoo K., Naidoo L., Solomon-Da C.F., Sloot R., Osman M. |
| Tropical Medicine and International Health 2023 | Provision of HIV prevention and care services to farmworkers in sub-Saharan African countries Mlangeni N., Adetokunboh O., Lembani M., Maloltle M., Ngah V., Nyasulu P. |
| Vaccine 2023; 41(23):3559-3570. | Efficacy of AZD1222 primary series against SARS-CoV-2 variants of concern in South Africa and the UK KOEN A, IZU A, BAILLIE V, CUTLAND C L, BAXTER C, COHN S, DE OLIVEIRA T, ET AL ET. |
| Virus Genes 2023; 59(3):360-366. | Subregional origins of emerging SARS-CoV-2 variants during the second pandemic wave in Côte d’Ivoire ANOH EA, WAYORO O, MONEMO P, BELARBI E, SAN EJ, TEGALLY H, WILKINSON E, DE OLIVEIRA T, KAKOU-NGAZOA R. |
| Viruses (Basel) 2023; 15(5):1214, 11 pages. | Molecular epidemiology of SARS-CoV-2 during five COVID-19 waves and the significance of low-frequency lineages SUBRAMONEY K, MTILENI N, GIANDHARI J, TEGALLY H, WILKINSON E, DE OLIVEIRA T, TREURNICHT FK. |
| Journal / Source | Publication Details |
|---|---|
| ) Proceedings of 43rd Conference of the South African Institute of Computer Scientists and Information Technologists, Stockport, United Kingdom, EasyChair 2022: 129-145. | Sentiment and intent classification of in-text citations using BERT VISSER R, DUNAISKI MP. |
| African Journal of Business and Economic Research 2022; 17(4):283-309. | Millennial?s consumer behaviour during the COVID-19 pandemic: perspectives from an emerging and a developed economy TSHIKOVHI N, DOBBELSTEIN T, MOYO S. |
| Archivos de Bronconeumología 2022 | Breathing back better! A state of the art on the benefits of functional evaluation and rehabilitation of post-tuberculosis and post-COVID lungs. Pontali E., Silva D., Marx F., Caminero J., Centis R., Muhwa J., Tiberi S., Migliori G. |
| Blood Transfusion 2022 | Characterising differences in red blood cell usage patterns between healthcare sectors in South Africa: 2014-2019 Bolton L., Van D.B.K., Swanevelder R., Pulliam J. |
| BMC Genomics 2022; 23:520, 13 pages. | Genomic surveillance of Rift Valley fever virus: from sequencing to lineage assignment JUMA J, FONSECA V, VAN HEUSDEN P, BETT B, DE OLIVEIRA T, ET AL. |
| BMC GENOMICS 2022; 23:319, 17 pages. | Comparison of SARS‑CoV‑2 sequencing using the ONT GridION and the Illumina MiSeq TSHIABUILA D, GIANDHARI J, PILLAY S, RAMPHAL U, RAMPHAL Y, MAHARAJ A, ANYANEJI UJ, NAIDOO Y, TEGALLY H, SAN JE, WILKINSON E, LESSELLS RJ, DE PAIVA NAZARETH ANDRADE DE O T. |
| BMC Medicine 2022 | The prevalence of onchocerciasis in Africa and Yemen, 2000-2018: a geospatial analysis Schmidt C., Cromwell E., Hill E., Donkers K., Schipp M.J.K., Pigott D., Hay I., Adetokunboh O., Lbd 2.T.N.D.C., Hay S. |
| BMC Public Health 2022 | Drivers of socioeconomic inequalities of child hunger during COVID-19 in South Africa: evidence from NIDS-CRAM Waves 1-5 Alaba O., Hongoro C., Thulare A., Lukwa A. |
| BMJ Open 2022 | Male partner unknown HIV status as a risk factor for HIV incidence and clinical outcomes in prevention of mother-to-child transmission of HIV programmes in 21 WHO priority countries: a systematic review protocol Mmotsa T., Ngandu N., Adetokunboh O., Nyasulu P. |
| BMJ Open 2022 | Cohort profile: the South African HIV Cancer Match (SAM) Study, a national population-based cohort Muchengeti M., Bartels L., Olago V., Dhokotera T., Chen W., Spoerri A., Rohner E., Butikofer L., Ruffieux Y., Singh E., Egger M., Bohlius J. |
| BMJ Open 2022 | Access to HIV healthcare services by farm workers in sub-Saharan Africa (SSA): a systematic review protocol Mlangeni N., Adetokunboh O., Lembani M., Malotle M., Nyasulu P. |
| Cancer Epidemiology 2022 | Epidemiology of Kaposi's sarcoma in sub-Saharan Africa Motlhale M., Sitas F., Bradshaw D., Chen W., Singini M., De V.C.L.C., Muchengeti M., Waterboer T., Mathew C., Newton R., Singh E. |
| Cancer Epidemiology 2022 | Lifestyle factors associated with sex differences in Kaposi sarcoma incidence among adult black South Africans: A case-control study Motlhale M., Sitas F., Bradshaw D., Chen W., Singini M., De V.C., Lewis C., Muchengeti M., Waterboer T., Mathew C., Newton R., Singh E. |
| Cardiovascular Diabetology 2022; 21:148, 17 pages. | Prevalence of symptoms, comorbidities, fibrin amyloid microclots and platelet pathology in individuals with Long COVID/Post-Acute sequelae of COVID-19 (PASC) PRETORIUS E, VENTER C, LAUBSCHER GJ, KOTZE MJ, OLADEJO SO, WATSON LR, RAJARATNAM K, WATSON BW, KELL DB. |
| Cell Host and Microbe 2022; 30(2):154-162. | SARS-CoV-2 prolonged infection during advanced HIV disease evolves extensive immune escape CELE SC, KARIM F, LUSTIG G, SAN JE, HERMANUS T, TEGALLY H, SNYMAN J, WILKINSON E, DE PAIVA NAZARETH ANDRADE DE O T, ET AL ET. |
| Cell Host and Microbe 2022; 30:880-886.e4. | SARS-CoV-2 Omicron triggers cross-reactive neutralization and Fc effector functions in previously vaccinated, but not unvaccinated, individuals RICHARDSON SI, MADZORERA VS, SPENCER H, MANAMELA N, VAN DER MESCHT MA, LAMBSON BE, OOSTHUYSEN B, AYRES F, DE PAIVA NAZARETH ANDRADE DE O T, ET AL. |
| Clinical Infectious Diseases 2022; 75(1):e857–e864. | Immunogenicity of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Infection and Ad26.CoV2.S Vaccination in People Living With Human Immunodefciency Virus (HIV) KHAN K, LUSTIG G, BERNSTEIN M, ARCHARY D, CELE S, KARIM F, SMITH M, GANGA Y, DE OLIVEIRA T, ET AL. |
| Clinical Infectious Diseases 2022 | The direct and indirect effects of the COVID-19 pandemic on private healthcare utilization in South Africa, March 2020 - September 2021 Perofsky A., Tempia S., Bingham J., Maslo C., Toubkin M., Laubscher A., Walaza S., Pulliam J., Viboud C., Cohen C. |
| Clinical Infectious Diseases 2022 | Prolonged-course tuberculosis treatment or secondary prevention for those at high risk of recurrence? Moore D., Hesseling A., Marx F. |
| Contraception 2022 | Participation in an HIV prevention intervention and access to and use of contraceptives among young women: A cross sectional analysis in six South African districts Jonas K., Lombard C., Chirinda W., Govindasamy D., Appollis T., Kuo C., Gray G., Beauclair R., Cheyip M., Mathews C. |
| eClinicalMedicine 2022 | Estimating the effect of HIV on cervical cancer elimination in South Africa: Comparative modelling of the impact of vaccination screening Boily M., Barnabas R., Ronn M., Bayer C., Van S.C., Soni N., Rao D., Staadegaard L., Liu G., Silhol R., Brisson M., Johnson L., Bloem P., Gottlieb S., Broutet N., Dalal S. |
| Ecological Informatics 2022; 70:101688, 12 pg. | Passive acoustic monitoring of animal populations with transfer learning DUFOURQ E, BATIST C, FOQUET R, DURBACH IN. |
| Emerging Infectious Diseases 2022; 28(5):1021-1025. | Rapid Replacement of SARS-CoV-2 Variants by Delta and Subsequent Arrival of Omicron, Uganda, 2021 BBOSA N, SSEMWANGA D, NAMAGEMBE, H, KIIZA R, KICONCO J, KAYIWA J, LUTALO T, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Epidemics 2022 | Spatially targeted digital chest radiography to reduce tuberculosis in high-burden settings: a study of adaptive decision making De V.A., Dye D., Yaesoubi R., Cohen T., Marx F. |
| Frontiers in Public Health 2022 | Classification schemes of COVID-19 high risk areas and resulting policies: a rapid review Uthman O., Adetokunboh O., Wiysonge C., Al-Awlaqi S., Hanefeld J., El B.C. |
| Future Virology 2022 | A systematic review and meta-analysis of the sensitivity of antibody tests for the laboratory confirmation of COVID-19 Makoah N., Tipih T., Litabe M., Brink M., Sempa J., Goedhals D., Burt F. |
| Global Strategy Journal 2022; 12:520-542. | Us and them: Corporate strategic activism, horizontal inequalities, and society's capacity to address its grand challenges GANSON BC, HE TL, HENISZ WJ. |
| https://wwwnc.cdc.gov/eid/art… 2022 | Evaluation of Commercially Available High-Throughput SARS-CoV-2 Serologic Assays for Serosurveillance and Related Applications Stone M., Grebe P., Sulaeman H., Germanio C., Dave H., Kelly K., Biggerstaff B., Crews B., Tran N., Jerome K., Deny T., Hogema B., Jones J., Thornburg N., Simmons G., Krajden M., Kleinman S., Dumont L., Busch M. |
| Infectious Agents and Cancer 2022 | HPV types 16/18 L1 E6 and E7 proteins seropositivity and cervical cancer risk in HIV-positive and HIV-negative black South African women Singini M., Singh E., Bradshaw D., Chen W., Motlhale M., Kamiza A., De V.C., Muchengeti M., Mathew C., Newton R., Bender N., Waterboer T., Sitas F. |
| Infectious Disease Modelling 2022 | Exploring predictive frameworks for malaria in Burundi Mfisimana L., Nibayisabe E., Badu K., Niyukuri D. |
| International Journal of Epidemiology 2022 | Potential test-negative design study bias in outbreak settings: application to Ebola vaccination in Democratic Republic of Congo Pearson C., Edmunds W., Hladish T., Eggo R. |
| International Journal of Sexual Health 2022 | Early Sexual Debut and the Effects on Well-Being among South African Adolescent Girls and Young Women Aged 15 to 24 Years Appollis T., Jonas K., Beauclair R., Lombard C., Duby Z., Cheyip M., Maruping K., Dietrich J., Mathews C. |
| International Journal of STD & AIDS 2022 | Human immunodeficiency virus funding and access to treatment in sub-Saharan Africa Granich R., Gupta S., Williams B. |
| Journal of Affective Disorders Reports 2022; 10:100433;7pp. | Depression onset and its association with community HIV prevalence: A geospatial and panel analyses of nationally representative South African data, 2015?2017 ASARE K, TOMITA A, GARRETT NJ, SLOTOW RS, BURNS J, TANSER FC, CUADROS D. |
| Journal of Affective Disorders Reports 2022; 10:100434;7pp. | Spatial clustering of codeine use and its association with depression: a geospatial analysis of nationally representative South African data NYONI P, CUADROS D, GIBBS A, TANSER FC, SLOTOW R, BURNS J, TOMITA A. |
| Journal of Epidemiology and Community Health 2022 | Health trends, inequalities and opportunities in South Africa’s provinces, 1990–2019: findings from the Global Burden of Disease 2019 Study Achoki T., Sartorius B., Watkins D., Glenn S., Kengne A., Oni T., Adetokunboh O., Claassens M., Iwu-Jaja C., Katoto C., Nyirenda T., Parry C., Seedat S., Sliwa K., Stein D., Tanser F., Useh U., Zar H., Zuhlke L., Mayosi B., Hay S., Murray C., Naghavi M. |
| Journal of Global Health Reports 2022 | Evaluation of a health systems strengthening intervention to improve Ebola Virus Disease infection prevention and control in the Democratic Republic of the Congo Ousman K., Thumath M., Kckay G., Niyukuri D., Ombeni M., Kabego L., Banzua B., Mangala S., Tatabod R., Mirindi P., Talisuna A., Houndjo B., Baller A., Keã¯Ta M. |
| Journal of Medical Virology 2022 | Usefulness of high-risk HPV early oncoprotein (E6 and E7) serological markers in the detection of cervical cancer: a systematic review and meta-analysis Singini M., Singh E., Bradshaw D., Ramaliba T., Chen W., Motlhale M., Kamiza A., De V.C., Muchengeti M., Mathew C., Newton R., Bender N., Waterboer T., Sitas F. |
| Journal of Travel Medicine 2022; 29(8):taac134, 6 pages. | Shifts in global mobility dictate the synchrony of SARS-CoV-2 epidemic waves TEGALLY H, KHAN K, HUBER C, DE OLIVEIRA T, KRAEMER MUG. |
| Lancet 2022; 399:2249-2250. | Infectious diseases science in Africa takes a leading place in the world DE PAIVA NAZARETH ANDRADE DE O T. |
| Lancet 2022; 22:941-942. | Tracking the 2022 monkeypox outbreak with epidemiological data in real-time KRAEMER MUG, TEGALLY H, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Lancet Global Health 2022; 10:e1855?59. | Ethics and governance challenges related to genomic data sharing in southern Africa: the case of SARS-CoV-2 MOODLEY K, CENGIZ N, DOMINGO A, NAIR G, OBASA AEA, LESSELLS R, DE PAIVA NAZARETH ANDRADE DE O T. |
| medRxiv 2022 | Estimates of prevalence of anti-SARS-CoV-2 antibodies among blood donors in eight provinces of South Africa in November 2021 Cable R., Coleman C., Glatt T., Grebe P., Mhlanga L., Nyano C., Pieterson N., Swanevelder R., Swarts A., Sykes W., Van D.B.K., Vermeulen M., Welte A. |
| medRxiv 2022 | Use of HIV Recency Assays for HIV Incidence Estimation and Other Surveillance Use Cases: Systematic Review Facente S., Grebe P., Maher A., Fox D., Sheer S., Mahy M., Dalal S., Lowrance D., Marsh K. |
| medRxiv 2022 | Estimates of prevalence of anti-SARS-CoV-2 antibodies among blood donors in South Africa in March 2022 Bingham J., Cable R., Coleman C., Glatt T., Grebe P., Mhlanga L., Nyano C., Pieterson N., Swanevelder R., Swarts A., Sykes W., Van D.B.K., Vermeulen M., Welte A. |
| medRxiv 2022 | Models and modelling practices for assessing the impact of outbreak response interventions to human vaccine-preventable diseases (1970-2019) - A systematic review Azam J., Pang X., Are E., Pulliam J., Ferrari M. |
| medRxiv 2022 | A leap to non-communicable diseases epidemic in Burundi: overall trends of the disproportionate burden Niyukuri D., Nyandwi J., Kamatari O., Uwizeyimana C., Mikaza C., Barengayabo M. |
| Microbial Genomics 2022; 8(3):000774:8pp. | Targeted Sanger sequencing to recover key mutations in SARS-CoV-2 variant genome assemblies produced by next-generation sequencing SINGH L, SAN JE, BRZOSKA PM, TEGALLY H, WILKINSON E, DE PAIVA NAZARETH ANDRADE DE O T, ET AL. |
| Microbiology Spectrum 2022; 10(2):e02481-21, 10 p. | A Retrospective Overview of Zika Virus Evolution in the Americas GIOVANETTI M, PEREIRA LA, ADELINO TER, DE OLIVEIRA T, ET AL. |
| Molecular Biology and Evolution 2022; 39(4):msac061, 19 pages. | Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function MARTIN D, LYTRAS S, LUCACI AG, MAIER W, GRUNEWALD B, KOMOROWSKI M A, O'TOOLE A, HILL V, MCCRONE J T, TEGALLY H, DE OLIVEIRA T, ET AL. |
| Nanomaterials 2022; 12(6):968. | Effects of Damping Constant of Electron and Size on Quantum-Based Frequency-dependent Dielectric Function of Small Metallic Nanoparticles AKINYEMI L, OLADEJO SO, EKWE S, IMOIZE AL, OJO SA. |
| Nature 2022; 602:654-656. | Omicron extensively but incompletely escapes Pfizer BNT162b2 neutralization CELE S, JACKSON L, KHOURY DS, KHAN K, RODEL H, GANGA Y, JARCHOW-MACDONALD AA, GIOVANETTI M, TEGALLY H, SAN JE, WILKINSON E, DE PAIVA NAZARETH ANDRADE DE O T, ET AL ET. |
| Nature 2022; 603:488-492. | T cell responses to SARS-CoV-2 spike cross-recognize Omicron KEETON R, TINCHO MB, NGOMTI A, BAGWA R, BENEDIKT N, SUZUKI A, KHAN K, CELE S, BERNSTEIN M, KARIM F, GANGA Y, DE OLIVEIRA T, ET AL ET. |
| Nature 2022; 605:326-331. | Omicron infection enhances Delta antibody immunity in vaccinated persons KHAN K, KARIM F, CELE SC, REEDOY K, SAN JE, LUSTIG G, TEGALLY H, ROSENBERG Y, BERNSTEIN M, JARCHOW-MACDONALD AA, DE OLIVEIRA T, ET AL ET. |
| Nature 2022; 603:679-686. | Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa VIANA R, MOYO S, AMOAKO DG, TEGALLY H, SCHEEPERS C, ALCANTARA LCJ, GIOVANETTI M, FONSECA V, ALLAM M, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Nature Communications 2022; 13:7003, 11 pages. | Global disparities in SARS-CoV-2 genomic surveillance BRITO AF, SEMENOVA E, DUDAS G, HASSLER G W, KALINICH C C, KRAEMER MUG, HO J, TEGALLY H, GIOVANETTI M, NELSON L, WILKINSON E, DE OLIVEIRA T, ET AL ET. |
| Nature Communications 2022; 13:4686, 7 pages. | Omicron BA.4/BA.5 escape neutralizing immunity elicited by BA.1 infection KHAN K, KARIM F, GANGA Y, BERNSTEIN M, JARCHOW-MACDONALD AA, ALCANTARA LCJ, TEGALLY H, WILKINSON E, SAN JE, LUSTIG G, DE OLIVEIRA T, ET AL ET. |
| Nature Medicine 2022; 28:1564-1569. | Emergence and spread of SARS-CoV-2 lineages B.1.1.7 and B.1.351 in South Africa SCHEEPERS C, EVERATT J, AMOAKO DG, TEGALLY H, WIBMER CK, MNGUNI A, ISMAIL A, MAHLANGU BA, JOSEPH R, MANAMELA N, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Nature Medicine 2022; 28:1110-1115. | An early warning system for emerging SARS-CoV-2 variants SUBISSI L, VON GOTTBERG A, THUKRAL L, WAPNER R, LANDENBACHER M, OTOH I O, AMICARELLI A, MTEKEKWA T, HORNISI N, DE OLIVEIRA T, ET AL. |
| Nature Medicine 2022; 28:1785-1790. | Emergence of SARS-CoV-2 Omicron lineages BA.4 and BA.5 in South Africa TEGALLY H, MOIR MI, EVERATT J, GIOVANETTI M, SCHEEPERS C, WILKINSON E, BAXTER C, MAPONGA TG, SANKO TJ, PREISER W, DE PAIVA NAZARETH ANDRADE DE O T. |
| Nature Microbiology 2022; 7:1179-1188. | Genomic epidemiology of the SARS-CoV-2 epidemic in Brazil GIOVANETTI M, FONSECA V, WILKINSON E, TEGALLY H, SAN JE, ALCANTARA LCJ, DE OLIVEIRA T, ET AL. |
| Perspectives in Education 2022; 40:70-87. | Entrenching Internationalisation in African Higher Education Institutions OPARINDE KM, GOVENDER V, MOYO S. |
| Physical Review A 2022; 106:012438, 9 pages. | Measure of invertible dynamical maps under convex combinations of noninvertible dynamical maps JAGADISH V, SRIKANTH R, PETRUCCIONE F. |
| Physical Review Research 2022; 4:033175, 12 pages. | Machine learning for excitation energy transfer dynamics NAICKER K, SINAYSKIY I, PETRUCCIONE F. |
| PLoS Biology 2022; 20(6):e3001682, 6 pages. | Urgent need for a non-discriminatory and non-stigmatizing nomenclature for monkeypox virus MBALA-KINGEBENI P, NEHER RA, TEGALLY H, DE OLIVEIRA T, ET AL. |
| PLoS Biology 2022 | Cost-effectiveness of community-based gender-transformative interventions for HIV prevention in schools and communities in the Eastern Cape, South Africa Torres-Rueda S., Jewkes R., Chirwa E., Dunkle K., Khumalo T., Eggers S.M., Shai N., Sikweyiya Y., Vassall A. |
| PLoS ONE 2022 | Knowledge, attitudes, and practices of COVID-19 prevention and control in Burundi Niyukuri D., Havyarimana E., Cishahayo E., Niyongabo T. |
| PLoS ONE 2022 | Impact of non-pharmaceutical interventions on the burden of influenza and other respiratory viruses in South Africa, 2017-2021 Tempia S., Walaza S., Moyes J., Cohen A., von Gottberg A., Hellferscee O., Wolter N., Du P., Treurnicht F., Venter M., Lebina L., Martinson N., Nguweneza A., McAnerney J., Cohen C. |
| Quantum Science and Technology 2022; 7:045007, 13 pages. | Compact quantum kernel-based binary classifier BLANK C, DA SILVA AJ, DE ALBUQUERQUE LP, PETRUCCIONE F. |
| Research in International Business and Finance 2022 | The low-volatility effect in African frontier equity markets Strugnell D., Gilbert E., Kruger R. |
| Science 2022; 377:807-810. | Tracking the 2022 monkeypox outbreak with epidemiological data in real-time KRAEMER MUG, TEGALLY H, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Science 2022; 378:eabq5358, 12 pages. | The evolving SARS-CoV-2 epidemic in Africa: Insights from rapidly expanding genomic surveillance TEGALLY H, BAXTER C, MAPONGA TG, SAN JE, GIOVANETTI M, DU PLESSIS L, LESSELLS RJ, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Scientific African 2022; 16:e10242; 9pp. | Effects of Damping Constant of Electron and Size on Quantum-Based Frequency-dependent Dielectric Function of Small Metallic Plasmonic Devices AKINYEMI L, OLADEJO SO, EKWE S, IMOIZE AL, OJO SA. |
| Scientific Reports 2022; 12:16929, 14 pages. | Quantum tunnelling in the context of SARS‑CoV‑2 infection ADAMS B, SINAYSKIY I, VAN GRONDELLE R, PETRUCCIONE F. |
| The International Journal of Tuberculosis and Lung Disease 2022 | Use of interactive messaging to reduce pre-diagnosis loss to follow-up for TB care Nthane T., Van D.B.K., Hoddinott G., Taderera E., Mbhele S., Roelofse A., Hesseling A., Marais B., Dunbar R. |
| The Lancet 2022; 399:2249-2250. | Infectious diseases science in Africa takes a leading place in the world DE PAIVA NAZARETH ANDRADE DE O T. |
| The Lancet Global Health 2022; 10(2):e1855–e1859. | Ethics and governance challenges related to genomic data sharing in southern Africa: the case of SARS-CoV-2 MOODLEY K, CENGIZ N, DOMINGO A, NAIR G, OBASA AEA, LESSELLS R, DE PAIVA NAZARETH ANDRADE DE O T. |
| The Lancet Microbe 2022; 3:e960-e970. | Genomic surveillance of Rift Valley fever virus: from sequencing to lineage assignment JUMA J, FONSECA V, VAN HEUSDEN P, ROETS C, BETT B, DE OLIVEIRA T, ET AL. |
| Tropical Medicine and International Health 2022 | Determinants of health insurance ownership in Jordan: a cross-sectional study of population-based surveys Ameen N., Alaba O., Tamandjou T.C. |
| Tropical Medicine and International Health 2022 | Towards universal health coverage in Jordan: a decomposition analysis of inequalities in out-of-pocket health expenditures Ameen N., Alaba O. |
| Vaccines 2022; 10(9):1506, 17 pages. | SARS-CoV-2 Genetic Diversity and Lineage Dynamics in Egypt during the First 18 Months of the Pandemic ROSHDY WH, KHALIFA MK, SAN JE, TEGALLY H, WILKINSON E, DE OLIVEIRA T, ET AL. |
| Virus Evolution 2022; 8(1):veac024, 10 pages. | Replacement of the Gamma by the Delta variant in Brazil: Impact of lineage displacement on the ongoing epidemic GIOVANETTI M, FONSECA V, WILKINSON E, TEGALLY H, SAN JE, ALCANTARA LCJ, DE OLIVEIRA T, ET AL. |
| Virus Evolution 2022; 8(2):veac078, 9 pages. | Molecular epidemiology and trends in HIV-1 transmitted drug resistance in Mozambique 1999-2018 ISHMAEL N, WILKINSON E, MAHUMANE I, TEGALLY H, DE OLIVEIRA T, ET AL. |
| Wellcome Open Research 2022 | Evaluation of the effectiveness of the national prevention of mother-to-child transmission programme in 21 prioritized countries in sub-Saharan Africa: a systematic review protocol Mmotsa T., Ngandu N., Adetokunboh O., Nyasulu P. |
| Journal / Source | Publication Details |
|---|---|
| AIDS Patient Care and STDs 2021 | An Emerging Substance Use Epidemic: Recreational Use of HIV Pre-Exposure Prophylaxis and Treatment in South Africa Kuo C, Dietrich J, Slingers N, Beauclair RN, Lombard CJ, Mathews C |
| BMC Medicine 2021 | Mapping subnational HIV mortality in six Latin American countries with incomplete vital registration systems Cork MA, Henry NJ, Watson S, Adetokunboh OO, et al |
| BMC Public Health 2021 | Targeting screening and treatment for latent tuberculosis infection towards asylum seekers from high-incidence countries - a model-based cost-effectiveness analysis Marx FM, Hauer B, Menzies NA, Haas W, Perumal N |
| BMJ Global Health 2021 | Stark choices: exploring health sector costs of policy responses to COVID-19 in low-income and middle-income countries Torres-Rueda S, Sweeney S, Bozzani F, Naylor NR, Baker T, Pearson CAB, Eggo R, Procter SR, Davies N, Quaife M, Kitson N, Keogh-Brown MR, Jensen HT, Saadi N, Khan M, Huda M, Kairu A, Zaidi R, Barasa E, Jit M, Vassall A |
| Bulletin of Mathematical Biology 2021 | Does counting different life stages impact estimates for extinction probabilities for tsetse (Glossina spp)? Are EB, Hargrove JW, Dushoff J |
| Current Opinion in Immunology 2021 | Missed opportunities for vaccination in Africa Adetokunboh OO, JulianaIwu-Jaja CC, Nnaji CA, Ndwandwe D |
| eLife 2021 | A mechanistic model for long-term immunological outcomes in South African HIV-infected children and adults receiving ART Ujeneza EL, Ndifon W, Sawry S, Fatti GL, Riou J, Davies MA, Nieuwoudt M, IeDEA-Southern African Collaboration |
| Epidemics 2021 | Influence of sexual risk behaviour and STI co-infection dynamics on the evolution of HIV set point viral load in MSM Hendrickx DM, Delva W, Hens N |
| Frontiers in Microbiology Vol 11 | Genome-Wide Analyses of Repeat-Induced Point Mutations in the Ascomycota Van Wyk S, Wingfield BD, De Vos L, et al. |
| Global Health Action 2021 | Community-led cross-sectional study of social and employment circumstances, HIV and associated factors amongst female sex workers in South Africa: study protocol Milovanovic M, Jewkes R, Otwombe KN, Jaffera M, Hopkins K, Hlongwe KE, Mathaludi M, Mbowane V, Graya H, Dunkle K, Huntg G, Welte A, Kassanjee R, Slingersj N, Vanleeuwj L, Pureng A, Kinghorna A, Martinsona N, Abdullahj F, Coetzee J |
| International Journal of Cancer 2021 | Modelling the impact of prevention strategies on cervical cancer incidence in South Africa van Schalkwyk C, Moodley J, Welte A, Johnson LF |
| International Journal of Infectious Diseases 2021 | Tuberculosis in persons with sudden unexpected death, in Cape Town, South Africa Osman M, Verster J, Dempers JJ, Du Preez K, Von Delft A, Dunbar R, Welte A, Naidoo P, Hesseling AC |
| International Journal of Tuberculosis and Lung Disease 2021 | Persistent chronic respiratory symptoms despite TB cure is poorly correlated with lung function Allwood BW, Stolbrink M, Baines Na, Louw EH, Wademan DT, Lupton-Smith AR, Nel S, Maree DM, Mpagama S, Osman M, Marx FM, Hoddinott G, Lesosy M, Rylance J, Mortimer K |
| Journal of Illicit Economies and Development Vol 2(2) | Theorising MSMEs in contexts of urban violence Ganson BC, Hoelscher K. |
| MC Pregnancy & Childbirth 2021 | Inferring HIV transmission network determinants using agent-based models calibrated to multi-data sources Niyukuri D, Chibawara T, Nyasulu PS, Delva W |
| Medical And Veterinary Entomology 2021 | Negative density-dependent dispersal in tsetse (Glossina spp): red flag or red herring? Hargrove JW, Vale GA |
| medRxiv 2021 | Projected spread of COVID-19's second wave in South Africa 2 under different levels of lockdown Are EB, Colijn C |
| medRxiv 2021 | SARS CoV-2 infection fatality rate estimates for South Africa Mhlanga L, Vermeulen M, Grebe PE, Welte A |
| medRxiv 2021 | Four-week forecasts of COVID-19 epidemic trajectories in South Africa, Chile, Peru and Brazil: a model evaluation Delva W, Dominic EM, Beauclair RN, Ouifki R, Kroon M, Volmink H, Dorkin E |
| medRxiv 2021 | Smoothing age/time structure of HIV prevalence, for optimal use in synthetic cohort based incidence estimation Mhlanga L, Grebe PE, Welte A |
| medRxiv 2021 | Bounding the levels of transmissibility & immune evasion of the Omicron variant in South Africa Pearson CAB, Silal SP, Li MWZ, Dushoff J, Bolker BM, Abbott S, van Schalkwyk C, Davies NG, Barnard RC, Edmunds WJ, Bingham JL, Meyer-Rath G, Glass A, Wolter N, Govender N, Stevens W, Scott L, Mlisana K, Moultrie H, Pulliam JRC |
| Nature Vol 600 | Africa: tackle HIV and COVID-19 together Msomi N, Lessells R, de Oliveira T. |
| Nature 2021 | Mapping routine measles vaccination in low- and middle-income countries Sbarra AN, Rolfe S, Nguyen JQ, Earl L, Galles NC, Marks A, Abbas KM, Abbasi-Kangevari M, Abbastabar H, Abd-Allah F, Abdelalim A, Abdollahi M, Abegaz KH, Abiy HAA, Abolhassani H, Abreu LG, Abrigo MRM, Abushouk AI, Accrombessi MMK, Adabi M, Adebayo OM, Adekanmbi V, Adetokunboh OO, et al |
| Nature Medicine 2021 | Anemia prevalence in women of reproductive age in low- and middle-income countries between 2000 and 2018 Kinyoki D, Osgood-Zimmerman AE, Bhattacharjee NV, Kassebaum NJ, Hay SI, et al |
| Open Forum Infectious Diseases 2021 | Cost-effectiveness of Remdesivir and Dexamethasone for COVID-19 treatment in South Africa Youngji J, Jamieson L, Edoka I, Long L, Silal SP, Pulliam JRC, Moultrie H, Sanne I, Meyer-Rath G, Nichols BE |
| PLOS ONE 2021 | Early mortality in tuberculosis patients initially lost to follow up following diagnosis in provincial hospitals and primary health care facilities in Western Cape, South Africa Osman M, Meehan S, Von Delft A, Du Preez K, Dunbar R, Marx FM, Boulle A, Welte A, Naidoo P, Hesseling AC |
| PLoS Biology 2021 | Strategic testing approaches for targeted disease monitoring can be used to inform pandemic decision-making Nichols JD, Bogich TL, Howerton E, Bjørnstad ON, Borchering RK, Ferrari MJ, Haran M, Jewell C, Pepin KM, Probert WJM, Pulliam JRC, Runge MC, Tildesley MJ, Viboud C, Shea K |
| PLoS Medicine 2021 | COVID-19 vaccination in Sindh Province, Pakistan: a modelling study of health impact and cost-effectiveness Pearson CAB, Bozzani F, Procter SR, Davies NG, HudaI M, Jensen HT, Keogh-Brown M, Khalid M, Sweeney S, Torres-Rueda S, CHiL COVID-19 Working Group, CMMID COVID-19 Working Group, Eggo RM, Vassall A, Jit M |
| PLoS Neglected Tropical Diseases 2021 | Negative density-dependent dispersal in tsetse (Glossina spp.): an artefact of inappropriate analysis Hargrove JW, van Sickle J, Vale GA, Lucas ER |
| PLoS Neglected Tropical Diseases 2021 | Predicting the environmental suitability for onchocerciasis in Africa as an aid to elimination planning Cromwell EA, Osborne JCP, Unnasch TR, Basáñez M, Gass KM, Barbre KA, Hill E, Johnson KB, Donkers KM, Shirude S, Schmidt CA, Adekanmbi V, Adetokunboh OO, et al |
| PLoS One 2021 | Assessing the uncertainty around age-mixing patterns in HIV transmission inferred from phylogenetic trees Niyukuri D, Nyasulu PS, Delva W |
| PLoS One 2021 | African based researchers' output on models for the transmission dynamics of infectious diseases and public health interventions: A scoping review Adetokunboh OO, Mthombothi ZE, Dominic EM, Djomba-Njankou S, Pulliam JRC |
| PNAS 2021 | Large age shifts in HIV-1 incidence patterns in KwaZulu-Natal, South Africa Akullian A, Vandormael A, Miller JC, Tanser FC |
| Remote Sensing in Ecology and Conservation Vol 7(3) | Automated detection of Hainan gibbon calls for passive acoustic monitoring Dufourq E, Durbach IN, Hansford JP, et al. |
| Research Square 2021 | Prevalence of anti-SARS-CoV-2 antibodies among blood donors in Northern Cape, KwaZulu-Natal, Eastern Cape, and Free State provinces of South Africa in January 2021 Sykes W, Mhlanga L, Swanevelder R, Glatt TN, Grebe PE, Coleman C, Pieterson N, Cable R, Welte A, van den Berg K, Vermeulen M |
| SACMC Technical Report 2021 | COVID-19 modelling update: considerations for the third wave, including the impact of the Delta variant of concern South African COVID-19 Modelling Consortium |
| Science Vol 374(6566) | A year of genomic surveillance reveals how the SARS-CoV-2 pandemic unfolded in Africa Wilkinson E, Giovanetti M, Tegally H, et al. |
| Scientific Reports 2021 | Comparison of two simulators for individual based models in HIV epidemiology in a population with HSV 2 in Yaoundé (Cameroon) Hendrickx DM, Sousa JD, Libin PJK, Delva W, Liesenborgs J, Hens N, Müller V, van Damme A |
| Scientific Reports 2021 | Modelling of HIV prevention and treatment progress in five South African metropolitan districts van Schalkwyk C, Dorrington R, Seatlhodi T, Velasquez C, Feizzadeh A, Johnson LF |
| Scientific Reports 2021 | Mortality during tuberculosis treatment in South Africa using an 8-year analysis of the national tuberculosis treatment register Osman M, van Schalkwyk C, Naidoo P, et al |
| South African Journal of Science 2021 | Opening the floor for discussion: A perspective on how scholars perceive attitudes to science in policymaking in South Africa Czachu MV, Todd M, Loureiro GT, Azam JM, Nyeleka S, Alblas A, Davies SJ |
| South African Medical Journal 2021 | HIV care coverage among HIV-positive adolescent girls and young women in South Africa: Results from the HERStory Study Mathews C, Cheyip M, Beauclair RN, Puren A, Lombard C, Jonas K, Ayalew KA, Govindasamy D, Kuo C, Dietrich J, Abdullah F, Gray G |
| Systematic Reviews 2021 | Effect of community-based interventions targeting female sex workers along the HIV care cascade in sub-Saharan Africa: a systematic review and meta-analysis Atuhaire L, Adetokunboh OO, Shumba CS, Nyasulu PS |
| The International Journal of Tuberculosis and Lung Disease 2021 | Clinical standards for the assessment, management and rehabilitation of post-TB lung disease Migliori GB, Marx FM, Ambrosino N, Zampogna E, Schaaf HS, van der Zalm MM, Allwood BW, Byrne AL, Mortimer K, Wallis RS, Fox GJ, Leung CC, Chakaya JM, Seaworth B, Rachow A, Marais BJ, Furin J, Akkerman OW, Al Yaquobi F, Amaral AFS, Borisov S, Caminero JA, Carvalho ACC, Chesov D, Codecasa LR, Teixeira RC, Dalcolmo MP, Datta S, Dinh-Xuan AT, Duarte R, Evans CA, Garcia Calleja JM, Günther G, Hoddinott G, Huddart S, Ivanova O, Laniado-LaborÃn R, Manga S, Manika K, Mariandyshev A, Mello FCQ, Mpagama SG, Muñoz-Torrico M, Nahid P, Ong CWM, Palmero DJ, Piubello A, Pontali E, Silva DR, Singla R, Spanevello A, Tiberi S, Udwadia ZF, Vitacca M, Centis R, D´Ambrosio L, Sotgiu G, Lange C, Visca D |
| The Lancet 2021 | Measuring routine childhood vaccination coverage in 204 countries and territories, 1980 - 2019: a systematic analysis for the Global Burden of Disease Study 2020, Release 1 Galles NC, Liu PY, Updike RL, Fullman N, Nguyen JQ, Rolfe S, Sbarra AN, Schipp MF, Marks A, Abady GG, Abbas KM, Abbasi SW, Abbastabar H, Abd-Allah F, Abdoli A, Abolhassani H, Abosetugn AE, Adabi M, Adamu AA, Adetokunboh OO, Adnani QES, et al |
| The Lancet 2021 | Global, regional, and national progress towards Sustainable Development Goal 3.2 for neonatal and child health: all-cause and cause-specific mortality findings from the Global Burden of Disease Study 2019 Paulson KR, Kamath AM, Alam T, Bienhoff K, Abady GG, Abbas J, Abbasi-Kangevari M, Adetokunboh OO, et al |
| The Lancet HIV 2021 | Isoniazid preventive therapy plus antiretroviral therapy for the prevention of tuberculosis: a systematic review and meta-analysis of individual participant data Ross JM, Badje A, Rangaka MX, Walker AS, Shapiro AE, Thomas KK, Anglaret X, Eholie S, Gabillard D, Boulle A, Maartens G, Wilkinson RJ, Ford N, Golub JE, Williams BG, Barnabas RV |
| The Lancet Respiratory Medicine 2021 | Face masks in the post-COVID-19 era: a silver lining for the damaged tuberculosis public health response? van den Driessche K, Mahlobo PZ, Venter R, Caldwell J, Jennings K, Diacon AH, Cotton MF, de Groot R, Hens N, Marx FM, Warren RM, Mishra H, Theron GDV |
| The South African Medical Journal 2021 | Mind the gap: patterns of red blood cell product usage in South Africa, 2014 - 2019 Bolton L, van den Berg K, Swanevelder R, Pulliam JRC |
| Vaccine 2021 | Modelling the relative benefits of using the measles vaccine outside cold chain for outbreak response Azam JM, Saitta B, Bonner K, Ferrari MJ, Pulliam JRC |
| Vaccine 2021 | The impact of rubella vaccine introduction on rubella infection and congenital rubella syndrome: a systematic review of mathematical modelling studies Motaze NV, Mthombothi ZE, Adetokunboh OO, Hazelbag CM, Saldarriaga EM, Mbuagbaw L, Wiysonge CS |
| Viruses Vol 13(3) | Multiple Early Introductions of SARS-CoV-2 to Cape Town, South Africa Engelbrecht S, Delaney KE, Kleinhans B, et al. |
| Wellcome Open Research 2021 | Pre-vaccination testing could expand coverage of two-dose COVID vaccines Pearson CAB, Pulliam JRC, Eggo RM |