COVID-profiler: a webserver for the analysis of SARS-CoV-2 sequencing data by Jody Phelan, Wouter Deelder, Daniel Ward, Susana Campino, Martin L. Hibberd, Taane G. Clark

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EthA/R-Independent Killing of Mycobacterium tuberculosis by Ethionamide by Sylvie Alonso, Sylvie Alonso, Michelle L. T. Ang, Michelle L. T. Ang, Siti Z. Zainul Rahim, Siti Z. Zainul Rahim, Paola Florez de Sessions, Wenwei Lin, Wenwei Lin, Vanessa Koh, Vanessa Koh, Kevin Pethe, Martin L. Hibberd, Martin L. Hibberd

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Gene expression responses to anti-tuberculous drugs in a whole blood model by Philip Kam Weng Kwan, Wenwei Lin, Ahmad Nazri Mohamed Naim, Balamurugan Periaswamy, Paola Florez De Sessions, Martin L. Hibberd, Nicholas I. Paton

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Continuous Circulation of Chikungunya Virus during COVID-19 Pandemic in Jambi, Sumatra, Indonesia by Marsha Sinditia Santoso, Sotianingsih Haryanto, Fadil Rulian, Rahma F. Hayati, Amanda Kristiani, Rini Kartika, Benediktus Yohan, Martin L. Hibberd, R. Tedjo Sasmono

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Functional genetic variation in pe/ppe genes contributes to diversity in Mycobacterium tuberculosis lineages and potential interactions with the human host by Paula Josefina Gómez-González, Anna D. Grabowska, Leopold D. Tientcheu, Anthony G. Tsolaki, Martin L. Hibberd, Susana Campino, Jody E. Phelan, Taane G. Clark, Taane G. Clark

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Genetic Diversity and Dispersal of DENGUE Virus among Three Main Island Groups of the Philippines during 2015–2017 by Ava Kristy Sy, Carmen Koo, Kristine J. R. Privaldos, Mary Ann T. Quinones, Mary A. U. Igoy, Sharon Y. A. M. Villanueva, Martin L. Hibberd, Lee Ching Ng, Hapuarachchige C. Hapuarachchi

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Exploring the mode of action of bioactive compounds by microfluidic transcriptional profiling in mycobacteria. by Paul Murima, Paola Florez de Sessions, Vivian Lim, Ahmad Nazri Mohamed Naim, Pablo Bifani, Helena I M Boshoff, Vasan K Sambandamurthy, Thomas Dick, Martin L Hibberd, Mark Schreiber, Srinivasa P S Rao

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Case-area targeted interventions (CATI) for reactive dengue control: Modelling effectiveness of vector control and prophylactic drugs in Singapore. by Oliver J Brady, Adam J Kucharski, Sebastian Funk, Yalda Jafari, Marnix Van Loock, Guillermo Herrera-Taracena, Joris Menten, W John Edmunds, Shuzhen Sim, Lee-Ching Ng, Stéphane Hué, Martin L Hibberd

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Genomic analysis of Salmonella enterica from Metropolitan Manila abattoirs and markets reveals insights into circulating virulence and antimicrobial resistance genotypes by Jonah Feliza B. Mora, Vanessa Yvonne B. Meclat, Alyzza Marie B. Calayag, Susana Campino, Julius C. R. Hafalla, Martin L. Hibberd, Jody E. Phelan, Taane G. Clark, Taane G. Clark, Windell L. Rivera

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Emergence of multidrug-resistant Mycobacterium tuberculosis of the Beijing lineage in Portugal and Guinea-Bissau: a snapshot of moving clones by whole-genome sequencing by João Perdigão, Carla Silva, Fernando Maltez, Diana Machado, Anabela Miranda, Isabel Couto, Paulo Rabna, Paola Florez de Sessions, Jody Phelan, Arnab Pain, Ruth McNerney, Martin L. Hibberd, Igor Mokrousov, Taane G. Clark, Miguel Viveiros, Isabel Portugal

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Genome-wide expression profiling identifies type 1 interferon response pathways in active tuberculosis. by Tom H M Ottenhoff, Ranjeeta Hari Dass, Ninghan Yang, Mingzi M Zhang, Mingzi M Zhang, Hazel E E Wong, Edhyana Sahiratmadja, Chiea Chuen Khor, Bachti Alisjahbana, Reinout van Crevel, Sangkot Marzuki, Mark Seielstad, Esther van de Vosse, Martin L Hibberd

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Evaluating methods for identifying and quantifying Streptococcus pneumoniae co-colonization using next-generation sequencing data by Jada Hackman, Martin L. Hibberd, Todd D. Swarthout, Jason Hinds, James Ashall, Carmen Sheppard, Gerry Tonkin-Hill, Kate Gould, Comfort Brown, Jacquline Msefula, Andrew A. Mataya, Michiko Toizumi, Lay-Myint Yoshida, Neil French, Robert S. Heyderman, Stefan Flasche, Brenda Kwambana, Stéphane Hué

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Ross River Virus Antibody Prevalence, Fiji Islands, 2013–2015 by Maite Aubry, Mike Kama, Jessica Vanhomwegen, Anita Teissier, Teheipuaura Mariteragi-Helle, Stephane Hue, Martin L. Hibberd, Jean-Claude Manuguerra, Ketan Christi, Conall H. Watson, Eric J. Nilles, Colleen L. Lau, John Aaskov, Didier Musso, Adam J. Kucharski, Van-Mai Cao-Lormeau

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Whole genome sequencing of an African American family highlights toll like receptor 6 variants in Kawasaki disease susceptibility. by Jihoon Kim, Chisato Shimizu, Stephen F Kingsmore, Stephen F Kingsmore, Narayanan Veeraraghavan, Eric Levy, Andre M Ribeiro Dos Santos, Hai Yang, Jay Flatley, Long Truong Hoang, Martin L Hibberd, Adriana H Tremoulet, Olivier Harismendy, Lucila Ohno-Machado, Jane C Burns

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Using paired serology and surveillance data to quantify dengue transmission and control during a large outbreak in Fiji by Adam J Kucharski, Mike Kama, Conall H Watson, Maite Aubry, Sebastian Funk, Alasdair D Henderson, Oliver J Brady, Jessica Vanhomwegen, Jean-Claude Manuguerra, Colleen L Lau, W John Edmunds, John Aaskov, Eric James Nilles, Van-Mai Cao-Lormeau, Stéphane Hué, Martin L Hibberd

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Genome-wide host-pathogen analyses reveal genetic interaction points in tuberculosis disease by Jody Phelan, Paula Josefina Gomez-Gonzalez, Nuria Andreu, Yosuke Omae, Licht Toyo-Oka, Hideki Yanai, Reiko Miyahara, Supalert Nedsuwan, Paola Florez de Sessions, Susana Campino, Neneh Sallah, Julian Parkhill, Nat Smittipat, Prasit Palittapongarnpim, Taisei Mushiroda, Michiaki Kubo, Katsushi Tokunaga, Surakameth Mahasirimongkol, Martin L. Hibberd, Taane G. Clark

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Could prophylactic antivirals reduce dengue incidence in a high-prevalence endemic area? by Yalda Jafari, Oliver J Brady, Joseph R Biggs, Le Thuy Lien, Huynh Kim Mai, Hien Anh Thi Nguyen, Marnix Van Loock, Guillermo Herrera-Taracena, Joris Menten, Chihiro Iwasaki, Mizuki Takegata, Noriko Kitamura, Hung Do Thai, Bui Xuan Minh, Kouichi Morita, Dang Duc Anh, Sam Clifford, Kiesha Prem, Julius Hafalla, W John Edmunds, Lay Myint Yoshida, Martin L Hibberd, Stéphane Hué

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Whole genome sequencing analysis of Mycobacterium tuberculosis reveals circulating strain types and drug-resistance mutations in the Philippines by Linfeng Wang, Dodge R. Lim, Jody E. Phelan, Lorenzo T. Reyes, Alma G. Palparan, Maria Guileane C. Sanchez, Louella Abigail A. Asuncion, Ma. Angelica A. Tujan, Inez Andrea P. Medado, Chona Mae A. Daga, Jo-Hannah S. Llames, Satoshi Mitarai, Yoshiro Murase, Yuta Morishige, Concepcion F. Ang, John Carlo M. Malabad, Jaime C. Montoya, Julius C. Hafalla, Susana Campino, Martin L. Hibberd, Cecilia G. Ama, Ramon P. Basilio, Eva Maria Cutiongoco-De La Paz, Taane G. Clark

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Combining rapid diagnostic tests to estimate primary and post-primary dengue immune status at the point of care. by Joseph R Biggs, Ava Kristy Sy, James Ashall, Marsha S Santoso, Oliver J Brady, Mary Anne Joy Reyes, Mary Ann Quinones, William Jones-Warner, Amadou O Tandoc, Nemia L Sucaldito, Huynh Kim Mai, Le Thuy Lien, Hung Do Thai, Hien Anh Thi Nguyen, Dang Duc Anh, Chihiro Iwasaki, Noriko Kitamura, Marnix Van Loock, Guillermo Herrera-Taracena, Joris Menten, Freya Rasschaert, Liesbeth Van Wesenbeeck, Sri Masyeni, Sotianingsih Haryanto, Benediktus Yohan, Eva Cutiongco-de la Paz, Lay-Myint Yoshida, Stephane Hue, Maria Rosario Z Capeding, Carmencita D Padilla, R Tedjo Sasmono, Julius Clemence R Hafalla, Martin L Hibberd

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Febrile Illness Evaluation in a Broad Range of Endemicities (FIEBRE): protocol for a multisite prospective observational study of the causes of fever in Africa and Asia by David Mabey, Quique Bassat, David G Lalloo, David Bell, Stephen R Graves, Katharina Kranzer, John Bradley, Christopher M Parry, Mayfong Mayxay, Yoel Lubell, Paul N Newton, Heidi Hopkins, Chrissy H Roberts, Rashida A Ferrand, Felicity C Fitzgerald, Jayne Jones, Clare IR Chandler, John A Crump, Nicholas A Feasey, Benjamin Amos, Stuart D Blacksell, Vilada Chansamouth, Mabvuto Chimenya, Scott B Craig, David AB Dance, Ethel Dauya, Xavier de Lamballerie, Edward W Green, Kate A Haigh, Becca L Handley, Martin L Hibberd, Coll D Hutchison, Kevin C Kain, Pankaj Lal, Eleanor MacPherson, Tegwen Marlais, Florian P Maurer, Ioana D Olaru, John Stenos, Nelson Tembe, James E Ussher, Marta Valente, Pio Vitorino, Marie A Voice, L Joseph Wheat, Audrey Dubot-Pérès, Michelle M Durkin, Colin Fink

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