2017 Publications

Lessells, R. J., Cooke, G. S., McGrath, N., Nicol, M. P., Newell, M. L., & Godfrey-Faussett, P. (2017) Impact of Point-of-care Xpert MTB/RIF on Tuberculosis Treatment Initiation: A Cluster Randomised Trial. Am J Respir Crit Care Med. doi: 10.1164/rccm.201702-0278OC

Maheu-Giroux, M., Tanser, F., Boily, M.-C., Pillay, D., Joseph, S. A., & Bärnighausen, T. (2017) Determinants of time from HIV infection to linkage-to-care in rural KwaZulu-Natal, South Africa Aids, 31(7), 1017-1024.

Lessells, D. R. J., Cooke, D. G. S., McGrath, D. N., Nicol, D. M. P., Newell, P. M.-L., & Godfrey-Faussett, D. P. (2017) Impact of Point-of-care Xpert MTB/RIF on Tuberculosis Treatment Initiation: A Cluster Randomised Trial American Journal of Respiratory and Critical Care Medicine, doi: 10.1164/rccm.201702-0278OC

Lee, G. Q., Orlova-Fink, N., Einkauf, K., Chowdhury, F. Z., Sun, X., Harrington, S., Kuo, H. H., Hua, S., Chen, H. R., Ouyang, Z., Reddy, K., Dong, K., Ndung'u, T., Walker, B. D., Rosenberg, E. S., Yu, X. G., & Lichterfeld, M. (2017) Clonal expansion of genome-intact HIV-1 in functionally polarized Th1 CD4+ T cells J Clin Invest. doi: 10.1172/jci93289

Laher, F., Ranasinghe, S., Porichis, F., Mewalal, N., Pretorius, K., Ismail, N., Buus, S., Stryhn, A., Carrington, M., Walker, B. D., Ndung'u, T., & Ndhlovu, Z. M. (2017) HIV controllers exhibit enhanced frequencies of MHC class II tetramer+ Gag-specific CD4+ T cells in chronic clade C HIV-1 infection J Virol. doi: 10.1128/jvi.02477-16

Kiguoya, M. W., Mann, J. K., Chopera, D., Gounder, K., Lee, G. Q., Hunt, P. W., Martin, J. N., Ball, T. B., Kimani, J., Brumme, Z. L., Brockman, M. A., & Ndung'u, T. (2017) Subtype-Specific Differences in Gag-Protease-Driven Replication Capacity are Consistent with Inter-Subtype Differences in HIV-1 Disease Progression  J Virol. doi: 10.1128/jvi.00253-17

Karat, A. S., Tlali, M., Fielding, K. L., Charalambous, S., Chihota, V. N., Churchyard, G. J., Hanifa, Y., Johnson, S., McCarthy, K., Martinson, N. A., Omar, T., Kahn, K., Chandramohan, D., & Grant, A. D. (2017) Measuring mortality due to HIV-associated tuberculosis among adults in South Africa: Comparing verbal autopsy, minimally-invasive autopsy, and research data PLoS One, 12(3), e0174097. doi: 10.1371/journal.pone.0174097

Jardim, T. V., Reiger, S., Abrahams-Gessel, S., Gomez-Olive, F. X., Wagner, R. G., Wade, A., Bärnighausen, T. W., Salomon, J., Tollman, S., & Gaziano, T. A.(2017) Hypertension management in a population of older adults in rural South Africa Journal of Hypertension, 35(6), 1283-1289. doi: 10.1097/hjh.0000000000001312

Bommer, C., Heesemann, E., Sagalova, V., Manne-Goehler, J., Atun, R., Bärnighausen, T., & Vollmer, S. (2017) The global economic burden of diabetes in adults aged 20–79 years: a cost-of-illness study Lancet Diabetes & Endocrinology, 5(6), 423-430. doi:

Barnighausen, T. (2017) Population health intervention research: three important advancements Int J Public Health. doi: 10.1007/s00038-017-0985-2

Barichievy, S., Naidoo, J., Boulle, M., Scholefield, J., Parihar, S. P., Coussens, A. K., Brombacher, F., Sigal, A., & Mhlanga, M. M. (2017) Viral apoptosis evasion via the MAPK pathway by use of a host long noncoding RNA bioRxiv. doi: 10.1101/153130

Akullian, A., Bershteyn, A., Klein, D., Vandormael, A., Barnighausen, T., & Tanser, F. (2017) Sexual partnership age-pairings and risk of HIV acquisition in rural South Africa: a population-based cohort study Aids. doi: 10.1097/qad.0000000000001553

Naidoo, V. L., Mann, J. K., Noble, C., Adland, E., Carlson, J. M., Thomas, J., Brumme, C. J., Thobakgale-Tshabalala, C. F., Brumme, Z. L., Brockman, M. A., Goulder, P. J. R., & Ndung'u, T (2017) Mother-to-Child HIV Transmission Bottleneck Selects for Consensus Virus with Lower Gag-Protease-driven Replication Capacity J Virol. doi: 10.1128/jvi.00518-17

Titanji, B. K., Pillay, D., & Jolly, C. (2017) Combination Antiretroviral Therapy (cART) and Cell-cell spread of Wild-type and Drug-Resistant HIV-1. . J Gen Virol. doi: 10.1099/jgv.0.000728

Mudzengi, D., Sweeney, S., Hippner, P., Kufa, T., Fielding, K., Grant, A. D., Churchyard, G., & Vassall, A. (2017) The patient costs of care for those with TB and HIV: a cross-sectional study from South Africa. Health Policy Plan. doi: 10.1093/heapol/czw183

Mlcochova, P., Sutherland, K. A., Watters, S. A., Bertoli, C., de Bruin, R. A., Rehwinkel, J., Neil, S. J., Lenzi, G. M., Kim, B., Khwaja, A & Gupta, R.K. (2017) A G1‐like state allows HIV‐1 to bypass SAMHD1 restriction in macrophages The EMBO journal, e201696025.

Maskew, M., Bor, J., Hendrickson, C., MacLeod, W., Barnighausen, T., Pillay, D., Sanne, I., Carmona, S., Stevens, W., & Fox, M. P. (2017) Imputing HIV treatment start dates from routine laboratory data in South Africa: a validation study. BMC Health Serv Res, 17(1), 41. doi: 10.1186/s12913-016-1940-2

Manson, A. L., Cohen, K. A., Abeel, T., Desjardins, C. A., Armstrong, D. T., Barry Iii, C. E., Brand, J., Consortium, T. B. G. G., Chapman, S. B., Cho, S.-N., Gabrielian, A. & Pym, A. S. et al (2017) Genomic analysis of globally diverse Mycobacterium tuberculosis strains provides insights into the emergence and spread of multidrug resistance. Nat Genet, advance online publication. doi: 10.1038/ng.3767

Mahamed, D., Boulle, M., Ganga, Y., Mc Arthur, C., Skroch, S., Oom, L., Catinas, O., Pillay, K., Naicker, M., & Rampersad, S., Mathonsi, C., Hunter, J., Sreejit, G., Pym, A. S., Lustig, G., & Sigal, A.(2017) Intracellular growth of Mycobacterium tuberculosis after macrophage cell death leads to serial killing of host cells. eLife, 6, e22028.

Haber, N., Tanser, F., Bor, J., Naidu, K., Mutevedzi, T., Herbst, K., Porter, K., Pillay, D., & Bärnighausen, T. (2017) From HIV infection to therapeutic response: a population-based longitudinal HIV cascade-of-care study in KwaZulu-Natal, South Africa. The Lancet HIV.

Goodall, R. L., Dunn, D. T., Nkurunziza, P., Mugarura, L., Pattery, T., Munderi, P., Kityo, C., Gilks, C., Kaleebu, P., Pillay, D., & Gupta, R. K. (2017) Rapid accumulation of HIV-1 thymidine analogue mutations and phenotypic impact following prolonged viral failure on zidovudine-based first-line ART in sub-Saharan Africa. J Antimicrob Chemother. doi: 10.1093/jac/dkw583

De Neve, J.-W., & Harling, G. (2017) Offspring schooling associated with increased parental survival in rural KwaZulu-Natal, South Africa. Social Science & Medicine, 176, 149-157. doi:

Cox, H., Dickson-Hall, L., Ndjeka, N., Grant, A. & Van't Hoog, A. (2017) Delays and loss to follow-up before treatment of drug-resistant tuberculosis following implementation of Xpert MTB/RIF in South Africa: A retrospective cohort study. 14(2), e1002238. doi: 10.1371/journal.pmed.1002238

Wong, E. B., Ndung'u, T., & Kasprowicz, V. O. (2017) The role of mucosal-associated invariant T cells in infectious diseases. Immunology, 150(1), 45-54. doi: 10.1111/imm.12673

Thobakgale, C., Naidoo, K., McKinnon, L. R., Werner, L., Samsunder, N., Karim, S. A., Ndung'u, T., Altfeld, M., & Naidoo, K. (2017) Interleukin 1-Beta (IL-1beta) Production by Innate Cells Following TLR Stimulation Correlates With TB Recurrence in ART-Treated HIV-Infected Patients. J Acquir Immune Defic Syndr, 74(2), 213-220. doi: 10.1097/qai.0000000000001181

Suthar, A. B., Nagata, J. M., Nsanzimana, S., Bärnighausen, T., Negussie, E. K., & Doherty, M. C. (2017) Performance-based financing for improving HIV/AIDS service delivery: a systematic review. BMC Health Services Research, 17(1), 6.

Rosenberg, M. S., GÓMez-OlivÉ, F. X., Rohr, J. K., Houle, B. C., Kabudula, C. W., Wagner, R. G., Salomon, J. A., Kahn, K., Berkman, L. F., Tollman, S. M., & , Bärnighausen, T. (2017) Sexual behaviors and HIV status: a population-based study among older adults in rural South Africa. J Acquir Immune Defic Syndr, 74(1), e9-e17. doi: 10.1097/QAI.0000000000001173

Manne-Goehler, J., Geldsetzer, P., & Bärnighausen, T. ((2017) The causal impact of ART on NCDs: leveraging quasi-experiments. The Lancet Diabetes & Endocrinology, 5(1), 14.

Laher, F., Ranasinghe, S., Porichis, F., Mewalal, N., Pretorius, K., Ismail, N., Buus, S., Stryhn, A., Carrington, M., Walker, B. D., Ndung'u, T., & Ndhlovu, Z. M.(2017) HIV controllers exhibit enhanced frequencies of MHC class II tetramer+ Gag-specific CD4+ T cells in chronic clade C HIV-1 infection. J Virol. doi: 10.1128/jvi.02477-16

Gounder, K., Oyaro, M., Padayachi, N., Zulu, T. M., de Oliveira, T., Wylie, J., & Ndung'u, T. (2017) Complex subtype diversity of HIV-1 among drug users in major Kenyan cities. AIDS Res Hum Retroviruses. doi: 10.1089/aid.2016.0321

Gosmann, C., Anahtar, M. N., Handley, S. A., Farcasanu, M., Abu-Ali, G., Bowman, B. A., Padavattan, N., Desai, C., Droit, L., Moodley, A., Dong, M., Chen, Y., Ismail, N., Ndung'u, T., Ghebremichael, M. S., Wesemann, D. R., Mitchell, C., Dong, K. L., Huttenhower, C., Walker, B. D., Virgin, H. W., & Kwon, D. S.(2017) Lactobacillus-Deficient Cervicovaginal Bacterial Communities Are Associated with Increased HIV Acquisition in Young South African Women. Immunity. doi: 10.1016/j.immuni.2016.12.013

Geldsetzer, P., Feigl, A. B., Tanser, F., Gareta, D., Pillay, D., & Bärnighausen, T. (2017) Population‐level decline in BMI and systolic blood pressure following mass HIV treatment: Evidence from rural KwaZulu‐Natal. Obesity, 25(1), 200-206.

Dobra, A., Bärnighausen, T., Vandormael, A., & Tanser, F. (2017) Space-time migration patterns and risk of HIV acquisition in rural South Africa. AIDS (London, England), 31(1), 137.

Brennan, A. T., Davies, M.-A., Bor, J., Wandeler, G., Stinson, K., Wood, R., Prozesky, H., Tanser, F., Fatti, G., & Boulle, A. (2017) Has the phasing out of stavudine in accordance with changes in WHO guidelines led to a decrease in single-drug substitutions in first-line antiretroviral therapy for HIV in sub-Saharan Africa? Aids, 31(1), 147-157.

2016 Publications

Hennig, S., Svensson, E. M., Niebecker, R., Fourie, P. B., Weiner, M. H., Bonora, S., Peloquin, C. A., Gallicano, K., Flexner, C., & Pym, A. (2016) Population pharmacokinetic drug–drug interaction pooled analysis of existing data for rifabutin and HIV PIs J Antimicrob Chemother, 71(5), 1330-1340. doi: 10.1093/jac/dkv470

Hennig, S., Naiker, S., Reddy, T., Egan, D., Kellerman, T., Wiesner, L., Owen, A., McIlleron, H., & Pym, A. (2016) Effect of SLCO1B1 polymorphisms on rifabutin pharmacokinetics in African HIV-infected patients with tuberculosis Antimicrobial agents and chemotherapy, 60(1), 617-620

Heidebrecht, C. L., Podewils, L. J., Pym, A. S., Cohen, T., Mthiyane, T., & Wilson, D. (2016) Assessing the utility of Xpert® MTB/RIF as a screening tool for patients admitted to medical wards in South Africa Scientific reports, 6

Heidebrecht, C. L., Podewils, L. J., Pym, A., Mthiyane, T., & Cohen, T. (2016) Assessing Local Risk of Rifampicin-Resistant Tuberculosis in KwaZulu-Natal, South Africa Using Lot Quality Assurance Sampling PLoS One, 11(4), e0153143

Cohen, K. A., El-Hay, T., Wyres, K. L., Weissbrod, O., Munsamy, V., Yanover, C., Aharonov, R., Shaham, O., Conway, T. C., Goldschmidt, Y., Bishai, W. R., & Pym, A. S. (2016) Paradoxical Hypersusceptibility of Drug-resistant Mycobacteriumtuberculosis to beta-lactam Antibiotics EBioMedicine, 9, 170-179. doi: 10.1016/j.ebiom.2016.05.041

Simoni, Y., Fehlings, M., Kloverpris, H. N., McGovern, N., Koo, S. L., Loh, C. Y., Lim, S., Kurioka, A., Fergusson, J. R., Tang, C. L., Kam, M. H., Dennis, K., Lim, T. K., Fui, A. C., Hoong, C. W., Chan, J. K., Curotto de Lafaille, M., Narayanan, S., Baig, S., Shabeer, M., Toh, S. E., Tan, H. K., Anicete, R., Tan, E. H., Takano, A., Klenerman, P., Leslie, A., Tan, D. S., Tan, I. B., Ginhoux, F., & Newell, E. W. (2016) Human Innate Lymphoid Cell Subsets Possess Tissue-Type Based Heterogeneity in Phenotype and Frequency. Immunity. doi: 10.1016/j.immuni.2016.11.005

Geldsetzer, P., & Bärnighausen, T. (2016) Late-stage research for diabetes and related NCDs receives little funding: evidence from the NIH RePORTER tool. The Lancet Diabetes & Endocrinology.

Barnhart, D., Hertzmark, E., Liu, E., Mungure, E., Muya, A. N., Sando, D., Chalamilla, G., Ulenga, N., Bärnighausen, T., & Fawzi, W. (2016) Intra-cluster correlation estimates for HIV-related outcomes from care and treatment clinics in Dar es Salaam, Tanzania. Contemporary Clinical Trials Communications, 4, 161-169.

Zuma, T., Wight, D., Rochat, T., & Moshabela, M. (2016) The role of traditional health practitioners in Rural KwaZulu-Natal, South Africa: generic or mode specific? BMC Complementary and Alternative Medicine, 16(1).

Vollmer, S., Harttgen, K., Alfven, T., Padayachy, J., Ghys, P., & Bärnighausen, T.(2016) The HIV Epidemic in Sub-Saharan Africa is Aging: Evidence from the Demographic and Health Surveys in Sub-Saharan Africa. AIDS and Behavior.

Sutherland KA, Collier DA, Claiborne DT, Prince JL, Deymier MJ, Goldstein RA, Hunter E, Gupta RK.(2016) Wide variation in susceptibility of HIV-1 subtype C Isolates to protease inhibitors and association with in vitro replication efficiency. Scientific Reports 2016; 6: 38153 doi: 10.1038/srep38153

Simon, Y., Fehlings, M., Kløverpris, H., Leslie, A., et al. (2016) Human Innate Lymphoid Cell Subsets Possess Tissue-Type Based Heterogeneity in Phenotype and Frequency. Immunity.

Rochat, T. J., Mitchell, J., Lubbe, A. M., Stein, A., Tomlinson, M., & Bland, R. M. (2016) Communication about HIV and death: Maternal reports of primary school-aged children’s questions after maternal HIV disclosure in rural South Africa. Social Science & Medicine.

Reniers, G., Blom, S., Calvert, C., Martin-Onraet, A., Herbst, A. J., Eaton, J. W., Bärnighausen, T., … Hosegood, V. (2016) Trends in the burden of HIV mortality after roll-out of antiretroviral therapy in KwaZulu-Natal, South Africa: an observational community cohort study. The Lancet HIV, 0(0).

Power, R. A., Parkhill, J., & de Oliveira, T. (2016b). (2016) Microbial genome-wide association studies: lessons from human GWAS. Nature Reviews. Genetics.

Gregson, J., Kaleebu, P., Marconi, V. C., van Vuuren, C., Ndembi, N., Hamers, R. L., Pillay, D., … Gupta, R. K. (2016) Occult HIV-1 drug resistance to thymidine analogues following failure of first-line tenofovir combined with a cytosine analogue and nevirapine or efavirenz in sub Saharan Africa: a retrospective multi-centre cohort study. The Lancet. Infectious Diseases.

Geldsetzer, P., Ortblad, K., & Bärnighausen, T. (2016) The efficiency of chronic disease care in sub-Saharan Africa. BMC Medicine, 14(1).

Geldsetzer, P., Fink, G., Vaikath, M., & Bärnighausen, T(2016) Sampling for Patient Exit Interviews: Assessment of Methods Using Mathematical Derivation and Computer Simulations. Health Services Research.

Geldsetzer, P., Feigl, A. B., Tanser, F., Gareta, D., Pillay, D., & Bärnighausen, T. (2016) Population-level decline in BMI and systolic blood pressure following mass HIV treatment: Evidence from rural KwaZulu-Natal. Obesity (Silver Spring, Md.).

El Bouzidi, K., White, E., Mbisa, J. L., Sabin, C. A., Phillips, A. N., Mackie, N., Pillay, D.,… Dunn, D. T.(2016) HIV-1 drug resistance mutations emerging on darunavir therapy in PI-naive and -experienced patients in the UK. Journal of Antimicrobial Chemotherapy, 71(12), 3487–3494.

D’Ambruoso, L., Boerma, J. T., Byass, P., Fottrell, E., Herbst, K., Källander, K., & Mullan, Z. (2016) The case for verbal autopsy in health systems strengthening. Lancet Global Health.

Chikovore, J., Gillespie, N., McGrath, N., Orne-Gliemann, J., Zuma, T & on behalf of the ANRS 12249 TasP Study Group, T. (2016) Men, masculinity, and engagement with treatment as prevention in KwaZulu-Natal, South Africa. AIDS Care, 28(Suppl 3), 74–82.

Moshabela, M., Zuma, T., Orne-Gliemann, J., Iwuji, C., Larmarange, J., McGrath, N., & on behalf of the ANRS 12249 TasP Study Group, N.(2016) “It is better to die”: experiences of traditional health practitioners within the HIV treatment as prevention trial communities in rural South Africa (ANRS 12249 TasP trial). AIDS Care, 28(Suppl 3), 24–32.

White, E., Smit, E., Churchill, D., Collins, S., Booth, C., Tostevin, A., … Pillay, D., Dunn, D. T. (2016) No Evidence That HIV-1 Subtype C Infection Compromises the Efficacy of Tenofovir-Containing Regimens: Cohort Study in the United Kingdom. The Journal of Infectious Diseases, 214(9), 1302–1308.

Ngo-Giang-Huong, N., Wittkop, L., Judd, A., Reiss, P., Goetghebuer, T., Duiculescu, D., Pillay, D … The EuroCoord-CHAIN-EPPICC joint project study group. (2016) Prevalence and effect of pre-treatment drug resistance on the virological response to antiretroviral treatment initiated in HIV-infected children – a EuroCoord-CHAIN-EPPICC joint project. BMC Infectious Diseases, 16, 654.

Boyer, S., Iwuji, C., Gosset, A., Protopopescu, C., Okesola, N., Plazy, M., … McGrath, N, Pillay, D, Larmarangec, J. on behalf of the ANRS 12249 TasP study group, J. (2016) Factors associated with antiretroviral treatment initiation amongst HIV-positive individuals linked to care within a universal test and treat programme: early findings of the ANRS 12249 TasP trial in rural South Africa. AIDS Care, 28(Suppl 3), 39–

Noor, R. A., Geldsetzer, P., Bärnighausen, T., & Fawzi, W. (2016) Do countries rely on the World Health Organization for translating research findings into clinical guidelines? A case study. Globalization and Health, 12(1), 58.

Manne-Goehler, J., Atun, R., Stokes, A., Goehler, A., Houinato, D., Houehanou, C, Hambou, M.M., Mbenza, B.L., Sobngwi, E., Balde, N., Mwangi, J.K., Gathecha, G., Ngugi, P.W., Wesseh, C.S., Damasceno, A., Lunet, N., Bovet, P., Labadarios, D., Zuma, K., Mayige, M., Kagaruki, G., Ramaiya, K., Agoudavi, K., Guwatudde, D., Bahendeka, S.K., Mutungi, G., Geldsetzer, P., Levitt, N.S., Salomon, J.A., Yudkin, J.S., Vollmer, S., Bärnighausen, T. (2016) Diabetes diagnosis and care in sub-Saharan Africa: pooled analysis of individual data from 12 countries. The Lancet. Diabetes & Endocrinology, 4(11), 903–912.

Chetty, T., Thorne, C., Tanser, F., Bärnighausen, T., & Coutsoudis, A.(2016) Cohort profile: the Hlabisa pregnancy cohort, KwaZulu-Natal, South Africa. BMJ Open, 6(10).

Barnhart, D., Hertzmark, E., Liu, E., Mungure, E., Muya, A. N., Sando, D., Chalamilla, G., Ulenga,N., Bärnighausen, T., Fawzi, W., and Spiegelman, D. (2016) Intra-Cluster Correlation Estimates for HIV-related Outcomes from Care and Treatment Clinics in Dar es Salaam, Tanzania. Contemporary Clinical Trials Communications, 4, 161–169.

Boullé M, Müller TG, Dähling S, Ganga Y, Jackson L, Mahamed D, Oom L, Lustig G, Neher R, Sigal A. (2016) HIV Cell-to-Cell Spread Results in Earlier Onset of Viral Gene Expression by Multiple Infections per Cell. PLoS Pathogens. 12(11): e1005964. doi: 10.1371/journal.ppat.1005964

Karat AS, Omar T, von Gottberg A, Tlali M, Chihota VN, Churchyard G, Fielding K, Johnson S, Martinson N, McCarthy K, Wolter N, Wong E, Charalambous S, Grant A. (2016) Autopsy Prevalence of Tuberculosis and Other Potentially Treatable Infections among Adults with Advanced HIV Enrolled in Out-Patient Care in South Africa. PLoS ONE 11(11): e0166158. doi: 10.1371/journal.pone.0166158

Grant A, Chihotaa V. (2016) Verbal autopsy-assigned causes of death among adults being investigated for TB in South Africa. Transactions of the Royal Society of Tropical Medicine and Hygiene. 110(9):510-516.

Wong E, Ndung'u T, Kasprowicz V. (2016) The role of mucosal-associated invariant T cells in infectious diseases. Immunology.

2015 Publications

McGovern, ME., Herbst, K., Tanser, F., Mutevedzi, T., Canning, D., Gareta, D., Pillay, D., Bärnighausen, T. (2015) Do gifts increase consent to home-based HIV testing? A difference-in-differences study in rural KwaZulu-Natal, South Africa. Int. J. Epidemiol. doi:10.1093/ije/dyw122

Iwuji CC, McGrath N, de Oliveira T, Porter K, Pillay D, et al. (2015) The Art of HIV Elimination: Past and Present Science. . J AIDS Clin Res 6:525.