Fenner, Lukas

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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

Steiner, Andreas; Hella, Jerry; Grüninger, Servan; Mhalu, Grace; Mhimbira, Francis; Cercamondi, Colin I; Doulla, Basra; Maire, Nicolas; Fenner, Lukas (2016). Managing research and surveillance projects in real-time with a novel open-source eManagement tool designed for under-resourced countries. Journal of the American Medical Informatics Association, 23(5), pp. 916-923. Oxford University Press 10.1093/jamia/ocv185

Mhimbira, Francis; Hella, Jerry; Maroa, Thomas; Kisandu, Shadrack; Chiryamkubi, Magreth; Said, Khadija; Mhalu, Grace; Mkopi, Abdallah; Mutayoba, Beatrice; Reither, Klaus; Gagneux, Sébastien; Fenner, Lukas (2016). Home-Based and Facility-Based Directly Observed Therapy of Tuberculosis Treatment under Programmatic Conditions in Urban Tanzania. PLoS ONE, 11(8), e0161171. Public Library of Science 10.1371/journal.pone.0161171

Leuenberger, Andrea; Nassoro, Tatu; Said, Khadija; Fenner, Lukas; Sikalengo, George; Letang, Emilio; Montresor, Antonio; Zhou, Xiao-Nong; Steinmann, Peter; Marti, Hanspeter; Utzinger, Jürg; Knopp, Stefanie (2016). Assessing stool quantities generated by three specific Kato-Katz thick smear templates employed in different settings. Infectious diseases of poverty, 5(1), p. 58. BioMed Central 10.1186/s40249-016-0150-9

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


Mhalu, Grace; Hella, Jerry; Doulla, Basra; Mhimbira, Francis; Mtutu, Hawa; Hiza, Helen; Sasamalo, Mohamed; Rutaihwa, Liliana; Rieder, Hans L; Seimon, Tamsyn; Mutayoba, Beatrice; Weiss, Mitchell G; Fenner, Lukas (2015). Do Instructional Videos on Sputum Submission Result in Increased Tuberculosis Case Detection? A Randomized Controlled Trial. PLoS ONE, 10(9), e0138413. Public Library of Science 10.1371/journal.pone.0138413

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


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

Schomaker, Michael; Egger, Matthias; Maskew, Mhairi; Garone, Daniela; Prozesky, Hans; Hoffmann, Christopher J.; Boulle, Andrew; Fenner, Lukas (2013). Immune recovery after starting ART in HIV-infected patients presenting and not presenting with tuberculosis in South Africa. JAIDS-JOURNAL OF ACQUIRED IMMUNE DEFICIENCY SYNDROMES, 63(1), pp. 142-145. Lippincott Williams & Wilkins 10.1097/QAI.0b013e318288b39d

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

Fenner, Lukas; Reid, Stewart E; Fox, Matthew P; Garone, Daniela; Wellington, Maureen; Prozesky, Hans; Zwahlen, Marcel; Schomaker, Michael; Wandeler, Gilles; Kancheya, Nzali; Boulle, Andrew; Wood, Robin; Henostroza, German; Egger, Matthias (2013). Tuberculosis and the risk of opportunistic infections and cancers in HIV-infected patients starting ART in Southern Africa. Tropical medicine and international health TM&IH, 18(2), pp. 194-198. Oxford: Blackwell Science 10.1111/tmi.12026

Tweya, Hannock; Feldacker, Caryl; Phiri, Sam; Ben-Smith, Anne; Fenner, Lukas; Jahn, Andreas; Kalulu, Mike; Weigel, Ralf; Kamba, Chancy; Banda, Rabecca; Egger, Matthias; Keiser, Olivia (2013). Comparison of treatment outcomes of new smear-positive pulmonary tuberculosis patients by HIV and antiretroviral status in a TB/HIV clinic, Malawi. PLoS ONE, 8(2), e56248. Public Library of Science 10.1371/journal.pone.0056248


Fenner, Lukas; Gagneux, Sebastien; Janssens, Jean-Paul; Fehr, Jan; Cavassini, Matthias; Hoffmann, Matthias; Bernasconi, Enos; Schrenzel, Jacques; Bodmer, Thomas; Böttger, Erik C; Helbling, Peter; Egger, Matthias; for the Swiss HIV Cohort and Molecular Epidemiology of Tuberculo, (2012). Tuberculosis in HIV-Negative and HIV-Infected Patients in a Low-Incidence Country: Clinical Characteristics and Treatment Outcomes. PLoS ONE, 7(3), e34186. Lawrence, Kans.: Public Library of Science 10.1371/journal.pone.0034186

Fenner, Lukas; Egger, Matthias; Bodmer, Thomas; Altpeter, Ekkehardt; Zwahlen, Marcel; Jaton, Katia; Pfyffer, Gaby E; Borrell, Sonia; Dubuis, Olivier; Bruderer, Thomas; Siegrist, Hans H; Furrer, Hansjakob; Calmy, Alexandra; Fehr, Jan; Stalder, Jesica Mazza; Ninet, Béatrice; Böttger, Erik C; Gagneux, Sebastien; HIV Cohort Study, Swiss Molecular Epidemiol (2012). Effect of Mutation and Genetic Background on Drug Resistance in Mycobacterium tuberculosis. Antimicrobial agents and chemotherapy, 56(6), pp. 3047-3053. Washington, D.C.: American Society for Microbiology 10.1128/AAC.06460-11

Fenner, Lukas; Gagneux, Sebastien; Helbling, Peter; Battegay, Manuel; Rieder, Hans L; Pfyffer, Gaby E; Zwahlen, Marcel; Furrer, Hansjakob; Siegrist, Hans H; Fehr, Jan; Dolina, Marisa; Calmy, Alexandra; Stucki, David; Jaton, Katia; Janssens, Jean-Paul; Stalder, Jesica Mazza; Bodmer, Thomas; Ninet, Beatrice; Böttger, Erik C; Egger, Matthias; ... (2012). Mycobacterium tuberculosis transmission in a country with low tuberculosis incidence: role of immigration and HIV infection. Journal of clinical microbiology, 50(2), pp. 388-395. Washington, D.C.: American Society for Microbiology 10.1128/JCM.05392-11

Feldacker, C; Tweya, H; Keiser, O; Weigel, R; Kalulu, M; Fenner, L; Egger, M; Manda, E; Mwafilaso, J B; Kamba, C; Phiri, S (2012). Characteristics of adults and children diagnosed with tuberculosis in Lilongwe, Malawi: findings from an integrated HIV/TB clinic. Tropical medicine and international health TM&IH, 17(9), pp. 1108-16. Oxford: Blackwell Science 10.1111/j.1365-3156.2012.03041.x

Malla, Bijaya; Stucki, David; Borrell, Sonia; Feldmann, Julia; Maharjan, Bhagwan; Shrestha, Bhawana; Fenner, Lukas; Gagneux, Sebastien (2012). First insights into the phylogenetic diversity of Mycobacterium tuberculosis in Nepal. PLoS ONE, 7(12), e52297. Lawrence, Kans.: Public Library of Science 10.1371/journal.pone.0052297

Stucki, David; Malla, Bijaya; Hostettler, Simon; Huna, Thembela; Feldmann, Julia; Yeboah-Manu, Dorothy; Borrell, Sonia; Fenner, Lukas; Comas, Iñaki; Coscollà, Mireia; Gagneux, Sebastien (2012). Two new rapid SNP-typing methods for classifying Mycobacterium tuberculosis complex into the main phylogenetic lineages. PLoS ONE, 7(7), e41253. Lawrence, Kans.: Public Library of Science 10.1371/journal.pone.0041253

Ballif, M; Harino, P; Ley, S; Carter, R; Coulter, C; Niemann, S; Borrell, S; Fenner, L; Siba, P; Phuanukoonnon, S; Gagneux, S; Beck, H-P (2012). Genetic diversity of Mycobacterium tuberculosis in Madang, Papua New Guinea. International journal of tuberculosis and lung disease, 16(8), pp. 1100-1107. Paris: International Union Against Tuberculosis and Lung Disease IUATLD 10.5588/ijtld.11.0779


Fenner, L.; Gagneux, S.; Kabuya, G.; Stucki, D.; Kabuayi, J. P.; Borrell, S.; Frei, R.; Burri, C.; Kalemwa, D.; Egger, M.; Okiata, J. P. (2011). Mycobacterium Tuberculosis Genetic Diversity and Drug Resistance Conferring Mutations in the Democratic Republic of the Congo. East African Medical Journal, 88(12), pp. 409-415. Kenya Medical Association

Fenner, L; Forster, M; Boulle, A; Phiri, S; Braitstein, P; Lewden, C; Schechter, M; Kumarasamy, N; Pascoe, M; Sprinz, E; Bangsberg, D R; Sow, P S; Dickinson, D; Fox, M P; McIntyre, J; Khongphatthanayothin, M; Dabis, F; Brinkhof, M W G; Wood, R and Egger, M (2011). Tuberculosis in HIV programmes in lower-income countries: practices and risk factors. International journal of tuberculosis and lung disease, 15(5), pp. 620-627. Paris: International Union Against Tuberculosis and Lung Disease IUATLD 10.5588/ijtld.10.0249

Fenner, Lukas; Malla, Bijaya; Ninet, Béatrice; Dubuis, Olivier; Stucki, David; Borrell, Sonia; Huna, Thembela; Bodmer, Thomas; Egger, Matthias; Gagneux, Sebastien (2011). "Pseudo-Beijing": evidence for convergent evolution in the direct repeat region of Mycobacterium tuberculosis. PLoS ONE, 6(9), e24737. Lawrence, Kans.: Public Library of Science 10.1371/journal.pone.0024737

Fenner, L; Rieder, H L (2011). Isoniazid preventive therapy for all: are we ready? International journal of tuberculosis and lung disease, 15(10), pp. 1281-1282. Paris: International Union Against Tuberculosis and Lung Disease IUATLD 10.5588/ijtld.11.0011


Fenner, Lukas; Brinkhof, Martin W G; Keiser, Olivia; Weigel, Ralf; Cornell, Morna; Moultrie, Harry; Prozesky, Hans; Technau, Karl; Eley, Brian; Vaz, Paula; Pascoe, Margaret; Giddy, Janet; Van Cutsem, Gilles; Wood, Robin; Egger, Matthias; Davies, Mary-Ann (2010). Early mortality and loss to follow-up in HIV-infected children starting antiretroviral therapy in Southern Africa. Journal of acquired immune deficiency syndromes JAIDS, 54(5), pp. 524-532. Philadelphia, Pa.: Lippincott Williams & Wilkins 10.1097/QAI.0b013e3181e0c4cf


Fenner, Lukas; Egger, Matthias; Gagneux, Sebastien (2009). Annie Darwin's death, the evolution of tuberculosis and the need for systems epidemiology. International journal of epidemiology, 38(6), pp. 1425-1428. Oxford: Oxford University Press 10.1093/ije/dyp367


Fenner, Lukas; Egger, Matthias (2008). Preventing HIV in resource-limited settings: evidence for action, from cross-sectional surveys. International journal of epidemiology, 37(6), pp. 1201-3. Oxford: Oxford University Press 10.1093/ije/dyn264

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