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Nyakato, Patience; Schomaker, Michael; Boulle, Andrew; Euvrard, Jonathan; Wood, Robin; Eley, Brian; Prozesky, Hans; Christ, Benedikt; Anderegg, Nanina; Ayakaka, Irene; Rafael, Idiovino; Kunzekwenyika, Cordelia; Moore, Carolyn B; van Lettow, Monique; Chimbetete, Cleophas; Mbewe, Safari; Ballif, Marie; Egger, Matthias; Yiannoutsos, Constantin T; Cornell, Morna; ... (2024). Correcting mortality estimates among children and youth on antiretroviral therapy in southern Africa: A comparative analysis between a multi-country tracing study and linkage to a health information exchange. Tropical medicine & international health : TM & IH, 29(8), pp. 739-751. Wiley 10.1111/tmi.14030
Enane, Leslie A; Duda, Stephany N; Chanyachukul, Thida; Bolton-Moore, Carolyn; Navuluri, Neelima; Messou, Eugène; Mbonze, Nana; McDade, LaQuita R; Figueiredo, Marina Cruvinel; Ross, Jeremy; Evans, Denise; Diero, Lameck; Akpata, Robert; Zotova, Natalia; Freeman, Aimee; Pierre, Marie Flore; Rupasinghe, Dhanushi; Ballif, Marie; Byakwaga, Helen; de Castro, Nathalie; ... (2024). The Tuberculosis Sentinel Research Network (TB-SRN) of the International epidemiology Databases to Evaluate AIDS (IeDEA): protocol for a prospective cohort study in Africa, Southeast Asia and Latin America. BMJ open, 14(1), e079138. BMJ Publishing Group 10.1136/bmjopen-2023-079138
Skrivankova, Veronika; Hossmann, Stefanie; Cornell, Morna; Ballif, Marie; Dupont, Carole; Huwa, Jacqueline; Seintaridis, Konstantinos; Kalua, Thokozani; Wandeler, Gilles; Kassanjee, Reshma; Haas, Andreas D; Technau, Karl-Gunter; Fenner, Lukas; Low, Nicola; Davies, Mary-Ann; Egger, Matthias (2023). Authorship inequalities in global health research: the IeDEA Southern Africa collaboration. BMJ Global Health, 8(12), e013316. BMJ Publishing Group: Open Access 10.1136/bmjgh-2023-013316
Zwyer, Michaela; Rutaihwa, Liliana K; Windels, Etthel; Hella, Jerry; Menardo, Fabrizio; Sasamalo, Mohamed; Sommer, Gregor; Schmülling, Lena; Borrell, Sonia; Reinhard, Miriam; Dötsch, Anna; Hiza, Hellen; Stritt, Christoph; Sikalengo, George; Fenner, Lukas; De Jong, Bouke C; Kato-Maeda, Midori; Jugheli, Levan; Ernst, Joel D; Niemann, Stefan; ... (2023). Back-to-Africa introductions of Mycobacterium tuberculosis as the main cause of tuberculosis in Dar es Salaam, Tanzania. PLoS pathogens, 19(4), e1010893. Public Library of Science 10.1371/journal.ppat.1010893
Brazier, Ellen; Maruri, Fernanda; Wester, C William; Musick, Beverly; Freeman, Aimee; Parcesepe, Angela; Hossmann, Stefanie; Christ, Benedikt; Kimmel, April; Humphrey, John; Freeman, Esther; Enane, Leslie A; Lancaster, Kathryn E; Ballif, Marie; Golub, Jonathan E; Nash, Denis; Duda, Stephany N (2023). Design and implementation of a global site assessment survey among HIV clinics participating in the International epidemiology Databases to Evaluate AIDS (IeDEA) research consortium. PLoS ONE, 18(3), e0268167. Public Library of Science 10.1371/journal.pone.0268167
Nyakato, Patience; Christ, Benedikt; Anderegg, Nanina; Muhairwe, Josephine; Jefferys, Laura; van Dijk, Janneke; Vinikoor, Michael J; van Lettow, Monique; Chimbetete, Cleophas; Phiri, Sam J; Egger, Matthias; Ballif, Marie; Yiannoutsos, Constantin T; Schomaker, Michael; Kassanjee, Reshma; Davies, Mary-Ann; Cornell, Morna (2022). High unreported mortality in children and youth (<25 years) living with HIV who were lost to care from antiretroviral therapy programs in Southern Africa: results from a multi-country tracing study. Journal of acquired immune deficiency syndromes JAIDS, 91(5), pp. 429-433. Lippincott Williams & Wilkins 10.1097/QAI.0000000000003090
Marti, Mariana; Zürcher, Kathrin; Enane, Leslie A; Diero, Lameck; Marcy, Olivier; Tiendrebeogo, Thierry; Yotebieng, Marcel; Twizere, Christelle; Khusuwan, Suwimon; Yunihastuti, Evy; Reubenson, Gary; Shah, N Sarita; Egger, Matthias; Ballif, Marie; Fenner, Lukas (2022). Impact of the COVID-19 pandemic on TB services at ART programmes in low- and middle-income countries: a multi-cohort survey. Journal of the International AIDS Society, 25(10), e26018. BioMed Central 10.1002/jia2.26018
Christ, Benedikt; van Dijk, Janneke H; Nyandoro, Talent Y; Reichmuth, Martina L; Kunzekwenyika, Cordelia; Chammartin, Frédérique; Egger, Matthias; Wringe, Alison; Ballif, Marie (2022). Availability and experiences of differentiated antiretroviral therapy delivery at HIV care facilities in rural Zimbabwe: a mixed-method study. Journal of the International AIDS Society, 25(8), e25944. Wiley 10.1002/jia2.25944
Zürcher, Kathrin; Riou, Julien; Morrow, Carl; Ballif, Marie; Koch, Anastasia; Bertschinger, Simon; Warner, Digby F; Middelkoop, Keren; Wood, Robin; Egger, Matthias; Fenner, Lukas (2022). Estimating Tuberculosis Transmission Risks in a Primary Care Clinic in South Africa: Modeling of Environmental and Clinical Data. Journal of infectious diseases, 225(9), pp. 1642-1652. Oxford University Press 10.1093/infdis/jiab534
Zürcher, Kathrin; Cox, Samyra R; Ballif, Marie; Enane, Leslie A; Marcy, Olivier; Yotebieng, Marcel; Reubenson, Gary; Imsanguan, Worarat; Otero, Larissa; Suryavanshi, Nishi; Duda, Stephany N; Egger, Matthias; Tornheim, Jeffrey A; Fenner, Lukas (2022). Integrating services for HIV and multidrug-resistant tuberculosis: A global cross-sectional survey among ART clinics in low- and middle-income countries. PLoS Global Public Health, 2(3), e0000180. Public Library of Science 10.1371/journal.pgph.0000180
Ballif, Marie; Christ, Benedikt; Anderegg, Nanina; Chammartin, Frédérique; Muhairwe, Josephine; Jefferys, Laura; Hector, Jonas; van Dijk, Janneke; Vinikoor, Michael J; van Lettow, Monique; Chimbetete, Cleophas; Phiri, Sam J; Onoya, Dorina; Fox, Matthew P; Egger, Matthias (2022). Tracing people living with HIV who are lost to follow-up at ART programs in Southern Africa: A sampling-based cohort study in six countries. Clinical infectious diseases, 74(2), pp. 171-179. The University of Chicago Press 10.1093/cid/ciab428
Kassanjee, Reshma; Johnson, Leigh F; Zaniewski, Elizabeth; Ballif, Marie; Christ, Benedikt; Yiannoutsos, Constantin T; Nyakato, Patience; Desmonde, Sophie; Edmonds, Andrew; Sudjaritruk, Tavitiya; Pinto, Jorge; Vreeman, Rachel; Dahourou, Désiré Lucien; Twizere, Christelle; Kariminia, Azar; Carlucci, James G; Kasozi, Charles; Davies, Mary-Ann (2021). Global HIV mortality trends among children on antiretroviral treatment corrected for under-reported deaths: an updated analysis of the International epidemiology Databases to Evaluate AIDS collaboration. Journal of the International AIDS Society, 24(Suppl 5), e25780. BioMed Central 10.1002/jia2.25780
Zürcher, Kathrin; Reichmuth, Martina L.; Ballif, Marie; Loiseau, Chloé; Borrell, Sonia; Reinhard, Miriam; Skrivankova, Veronika; Hömke, Rico; Sander, Peter; Avihingsanon, Anchalee; Abimiku, Alash'le G; Marcy, Olivier; Collantes, Jimena; Carter, E Jane; Wilkinson, Robert J; Cox, Helen; Yotebieng, Marcel; Huebner, Robin; Fenner, Lukas; Böttger, Erik C; ... (2021). Mortality from drug-resistant tuberculosis in high-burden countries comparing routine drug susceptibility testing with whole-genome sequencing: a multicentre cohort study. The Lancet Microbe, 2(7), e320-e330. Elsevier 10.1016/S2666-5247(21)00044-6
Loiseau, Chloé; Brites, Daniela; Reinhard, Miriam; Zürcher, Kathrin; Borrell, Sonia; Ballif, Marie; Fenner, Lukas; Cox, Helen; Rutaihwa, Liliana K; Wilkinson, Robert J; Yotebieng, Marcel; Carter, E Jane; Abimiku, Alash'le; Marcy, Olivier; Gotuzzo, Eduardo; Avihingsanon, Anchalee; Zetola, Nicola; Doulla, Basra; Böttger, Erik C; Egger, Matthias; ... (2020). HIV coinfection is associated with low fitness rpoB variants in rifampicin-resistant Mycobacterium tuberculosis. Antimicrobial agents and chemotherapy, 64(10), e00782-20. American Society for Microbiology 10.1128/AAC.00782-20
Zürcher, Kathrin; Morrow, Carl; Riou, Julien; Ballif, Marie; Koch, Anastasia Sideris; Bertschinger, Simon; Liu, Xin; Sharma, Manuja; Middelkoop, Keren; Warner, Digby; Wood, Robin; Egger, Matthias; Fenner, Lukas (2020). Novel approach to estimate tuberculosis transmission in primary care clinics in sub-Saharan Africa: protocol of a prospective study. BMJ open, 10(8), e036214. BMJ Publishing Group 10.1136/bmjopen-2019-036214
Zürcher, Kathrin; Ballif, Marie; Kiertiburanakul, Sasisopin; Chenal, Henri; Yotebieng, Marcel; Grinsztejn, Beatriz; Michael, Denna; Sterling, Timothy R; Ngonyani, Kapella M; Mandalakas, Anna M; Egger, Matthias; Pettit, April C; Fenner, Lukas (2019). Diagnosis and clinical outcomes of extrapulmonary tuberculosis in antiretroviral therapy programmes in low- and middle-income countries: a multicohort study. Journal of the International AIDS Society, 22(9), e25392. BioMed Central 10.1002/jia2.25392
Gygli, Sebastian M; Keller, Peter M; Ballif, Marie; Blöchliger, Nicolas; Hömke, Rico; Reinhard, Miriam; Loiseau, Chloé; Ritter, Claudia; Sander, Peter; Borrell, Sonia; Loo, Jimena Collantes; Avihingsanon, Anchalee; Gnokoro, Joachim; Yotebieng, Marcel; Egger, Matthias; Gagneux, Sebastien; Böttger, Erik C (2019). Whole genome sequencing for drug resistance profile prediction in Mycobacterium tuberculosis. Antimicrobial agents and chemotherapy, 63(4), e02175-18. American Society for Microbiology 10.1128/AAC.02175-18
Rutaihwa, Liliana K.; Menardo, Fabrizio; Stucki, David; Gygli, Sebastian M.; Ley, Serej D.; Malla, Bijaya; Feldmann, Julia; Borrell, Sonia; Beisel, Christian; Middelkoop, Kerren; Carter, E. Jane; Diero, Lameck; Ballif, Marie; Jugheli, Levan; Reither, Klaus; Fenner, Lukas; Brites, Daniela; Gagneux, Sebastien (2019). Multiple Introductions of Mycobacterium tuberculosis Lineage 2–Beijing Into Africa Over Centuries (In Press). Frontiers in ecology and evolution, 7, p. 112. Frontiers Media 10.3389/fevo.2019.00112
Zürcher, Kathrin; Ballif, Marie; Fenner, Lukas; Borrell, Sonia; Keller, Peter M; Gnokoro, Joachim; Marcy, Olivier; Yotebieng, Marcel; Diero, Lameck; Carter, E Jane; Rockwood, Neesha; Wilkinson, Robert J; Cox, Helen; Ezati, Nicholas; Abimiku, Alash'le G; Collantes, Jimena; Avihingsanon, Anchalee; Kawkitinarong, Kamon; Reinhard, Miriam; Hömke, Rico; ... (2019). Drug susceptibility testing and mortality in patients treated for tuberculosis in high-burden countries: a multicentre cohort study. Lancet infectious diseases, 19(3), pp. 298-307. Elsevier 10.1016/S1473-3099(18)30673-X
Ballif, Marie; Zürcher, Kathrin; Reid, Stewart E; Boulle, Andrew; Fox, Matthew P; Prozesky, Hans W; Chimbetete, Cleophas; Zwahlen, Marcel; Egger, Matthias; Fenner, Lukas; IeDEA-SA, Int DB to Evaluate AIDS in Southern Africa (2018). Seasonal variations in tuberculosis diagnosis among HIV-positive individuals in Southern Africa: analysis of cohort studies at antiretroviral treatment programmes. BMJ open, 8(1), e017405. BMJ Publishing Group 10.1136/bmjopen-2017-017405
Fenner, Lukas; Atkinson, Andrew; Boulle, Andrew; Fox, Matthew P; Prozesky, Hans; Zürcher, Kathrin; Ballif, Marie; Furrer, Hansjakob; Zwahlen, Marcel; Davies, Mary-Ann; Egger, Matthias; eDEA-SA, Int. Epidemiology Database to Evaluate AIDS in Southern Africa (2017). HIV viral load as an independent risk factor for tuberculosis in South Africa: collaborative analysis of cohort studies. Journal of the International AIDS Society, 20(1), p. 21327. BioMed Central 10.7448/IAS.20.1.21327
Carlucci, James G; Blevins Peratikos, Meridith; Kipp, Aaron M; Lindegren, Mary L; Du, Quy T; Renner, Lorna; Reubenson, Gary; Ssali, John; Yotebieng, Marcel; Mandalakas, Anna M; Davies, Mary-Ann; Ballif, Marie; Fenner, Lukas; Pettit, April C (2017). Tuberculosis Treatment Outcomes Among HIV/TB-Coinfected Children in the International Epidemiology Databases to Evaluate AIDS (IeDEA) Network. Journal of acquired immune deficiency syndromes JAIDS, 75(2), pp. 156-163. Lippincott Williams & Wilkins 10.1097/QAI.0000000000001335
Stucki, David; Brites, Daniela; Jeljeli, Leïla; Coscolla, Mireia; Liu, Qingyun; Trauner, Andrej; Fenner, Lukas; Rutaihwa, Liliana; Borrell, Sonia; Luo, Tao; Gao, Qian; Kato-Maeda, Midori; Ballif, Marie; Egger, Matthias; Macedo, Rita; Mardassi, Helmi; Moreno, Milagros; Vilanova, Griselda Tudo; Fyfe, Janet; Globan, Maria; ... (2016). Mycobacterium tuberculosis lineage 4 comprises globally distributed and geographically restricted sublineages. Nature genetics, 48(12), pp. 1535-1543. Nature America 10.1038/ng.3704
Stucki, David; Ballif, Marie; Egger, Matthias; Furrer, Hansjakob; Altpeter, Ekkehardt; Battegay, Manuel; Droz, Sara Christine; Bruderer, Thomas; Coscolla, Mireia; Borrell, Sonia; Zürcher, Kathrin; Janssens, Jean-Paul; Calmy, Alexandra; Mazza Stalder, Jesica; Jaton, Katia; Rieder, Hans L; Pfyffer, Gaby E; Siegrist, Hans H; Hoffmann, Matthias; Fehr, Jan; ... (2016). Standard genotyping overestimates transmission of Mycobacterium tuberculosis among immigrants in a low incidence country. Journal of clinical microbiology, 54(7), pp. 1862-1870. American Society for Microbiology 10.1128/JCM.00126-16
Charles, M Katherine; Lindegren, Mary Lou; Wester, C William; Blevins, Meridith; Sterling, Timothy R; Dung, Nguyen Thi; Dusingize, Jean Claude; Avit-Edi, Divine; Durier, Nicolas; Castelnuovo, Barbara; Nakigozi, Gertrude; Cortes, Claudia P; Ballif, Marie; Fenner, Lukas (2016). Implementation of Tuberculosis Intensive Case Finding, Isoniazid Preventive Therapy, and Infection Control ("Three I's") and HIV-Tuberculosis Service Integration in Lower Income Countries. PLoS ONE, 11(4), e0153243. Public Library of Science 10.1371/journal.pone.0153243
Zürcher, Kathrin; Ballif, Marie; Zwahlen, Marcel; Rieder, Hans L; Egger, Matthias; Fenner, Lukas (2016). Tuberculosis Mortality and Living Conditions in Bern, Switzerland, 1856-1950. PLoS ONE, 11(2), e0149195. Public Library of Science 10.1371/journal.pone.0149195
Zürcher, Kathrin; Zwahlen, Marcel; Ballif, Marie; Rieder, Hans L; Egger, Matthias; Fenner, Lukas (2016). Influenza Pandemics and Tuberculosis Mortality in 1889 and 1918: Analysis of Historical Data from Switzerland. PLoS ONE, 11(10), e0162575. Public Library of Science 10.1371/journal.pone.0162575
Merker, Matthias; Blin, Camille; Mona, Stefano; Duforet-Frebourg, Nicolas; Lecher, Sophie; Willery, Eve; Blum, Michael G B; Rüsch-Gerdes, Sabine; Mokrousov, Igor; Aleksic, Eman; Allix-Béguec, Caroline; Antierens, Annick; Augustynowicz-Kopeć, Ewa; Ballif, Marie; Barletta, Francesca; Beck, Hans Peter; Barry, Clifton E; Bonnet, Maryline; Borroni, Emanuele; Campos-Herrero, Isolina; ... (2015). Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage. Nature genetics, 47(3), pp. 242-249. Nature America 10.1038/ng.3195
Stucki, David; Ballif, Marie; Bodmer, Thomas; Coscolla, Mireia; Maurer, Anne-Marie; Droz, Sara Christine; Butz, Christa; Borrell, Sonia; Längle, Christel; Feldmann, Julia; Furrer, Hansjakob; Mordasini, Carlo; Helbling, Peter; Rieder, Hans L; Egger, Matthias; Gagneux, Sébastien; Fenner, Lukas (2015). Tracking a tuberculosis outbreak over 21 years: strain-specific single nucleotide polymorphism-typing combined with targeted whole genome sequencing. Journal of infectious diseases, 211(8), pp. 1306-1316. Oxford University Press 10.1093/infdis/jiu601
Ballif, Marie; Renner, Lorna; Claude Dusingize, Jean; Leroy, Valeriane; Ayaya, Samuel; Wools-Kaloustian, Kara; Cortes, Claudia P; McGowan, Catherine C; Graber, Claire; Mandalakas, Anna M; Mofenson, Lynne M; Egger, Matthias; Kumara Wati, Ketut Dewi; Nallusamy, Revathy; Reubenson, Gary; Davies, Mary-Ann; Fenner, Lukas (2015). Tuberculosis in Pediatric Antiretroviral Therapy Programs in Low- and Middle-Income Countries: Diagnosis and Screening Practices. Journal of the Pediatric Infectious Diseases Society, 4(1), pp. 30-38. Oxford University Press 10.1093/jpids/piu020
Ballif, Marie; Nhandu, V; Wood, R; Dusingize, J C; Carter, E J; Cortes, C P; McGowan, C C; Diero, L; Graber, Claire; Renner, L; Hawerlander, D; Kiertiburanakul, S; Du, Q T; Sterling, T R; Egger, Matthias; Fenner, L (2014). Detection and management of drug-resistant tuberculosis in HIV-infected patients in lower-income countries. International journal of tuberculosis and lung disease, 18(11), pp. 1327-1336. International Union Against Tuberculosis and Lung Disease IUATLD 10.5588/ijtld.14.0106
Fenner, Lukas; Ballif, Marie; Graber, Claire; Nhandu, Venerandah; Dusingize, Jean Claude; Cortes, Claudia P; Carriquiry, Gabriela; Anastos, Kathryn; Garone, Daniela; Jong, Eefje; Gnokoro, Joachim Charles; Sued, Omar; Ajayi, Samuel; Diero, Lameck; Wools-Kaloustian, Kara; Kiertiburanakul, Sasisopin; Castelnuovo, Barbara; Lewden, Charlotte; Durier, Nicolas; Sterling, Timothy R; ... (2013). Tuberculosis in antiretroviral treatment programs in lower income countries: availability and use of diagnostics and screening. PLoS ONE, 8(10), e77697. Lawrence, Kans.: Public Library of Science 10.1371/journal.pone.0077697
Fenner, Lukas; Egger, Matthias; Bodmer, Thomas; Furrer, Hansjakob; Ballif, Marie; Battegay, Manuel; Helbling, Peter; Fehr, Jan; Gsponer, Thomas; Rieder, Hans L.; Zwahlen, Marcel; Hoffmann, Matthias; Bernasconi, Enos; Cavassini, Matthias; Calmy, Alexandra; Dolina, Marisa; Frei, Reno; Janssens, Jean-Paul; Borrell, Sonia; Stucki, David; ... (2013). HIV infection disrupts the sympatric host-pathogen relationship in human tuberculosis. PLoS genetics, 9(3), e1003318. Public Library of Science 10.1371/journal.pgen.1003318
