Search | Virtual Health Library

1.

The origins of SARS-CoV-2: A critical review.

Holmes, Edward C; Goldstein, Stephen A; Rasmussen, Angela L; Robertson, David L; Crits-Christoph, Alexander; Wertheim, Joel O; Anthony, Simon J; Barclay, Wendy S; Boni, Maciej F; Doherty, Peter C; Farrar, Jeremy; Geoghegan, Jemma L; Jiang, Xiaowei; Leibowitz, Julian L; Neil, Stuart J D; Skern, Tim; Weiss, Susan R; Worobey, Michael; Andersen, Kristian G; Garry, Robert F; Rambaut, Andrew.

Cell ; 184(19): 4848-4856, 2021 09 16.

Article in English | MEDLINE | ID: mdl-34480864

2.

Generation and transmission of interlineage recombinants in the SARS-CoV-2 pandemic.

Jackson, Ben; Boni, Maciej F; Bull, Matthew J; Colleran, Amy; Colquhoun, Rachel M; Darby, Alistair C; Haldenby, Sam; Hill, Verity; Lucaci, Anita; McCrone, John T; Nicholls, Samuel M; O'Toole, Áine; Pacchiarini, Nicole; Poplawski, Radoslaw; Scher, Emily; Todd, Flora; Webster, Hermione J; Whitehead, Mark; Wierzbicki, Claudia; Loman, Nicholas J; Connor, Thomas R; Robertson, David L; Pybus, Oliver G; Rambaut, Andrew.

Cell ; 184(20): 5179-5188.e8, 2021 09 30.

Article in English | MEDLINE | ID: mdl-34499854

3.

Rapid epidemic expansion of the SARS-CoV-2 Omicron variant in southern Africa.

Viana, Raquel; Moyo, Sikhulile; Amoako, Daniel G; Tegally, Houriiyah; Scheepers, Cathrine; Althaus, Christian L; Anyaneji, Ugochukwu J; Bester, Phillip A; Boni, Maciej F; Chand, Mohammed; Choga, Wonderful T; Colquhoun, Rachel; Davids, Michaela; Deforche, Koen; Doolabh, Deelan; du Plessis, Louis; Engelbrecht, Susan; Everatt, Josie; Giandhari, Jennifer; Giovanetti, Marta; Hardie, Diana; Hill, Verity; Hsiao, Nei-Yuan; Iranzadeh, Arash; Ismail, Arshad; Joseph, Charity; Joseph, Rageema; Koopile, Legodile; Kosakovsky Pond, Sergei L; Kraemer, Moritz U G; Kuate-Lere, Lesego; Laguda-Akingba, Oluwakemi; Lesetedi-Mafoko, Onalethatha; Lessells, Richard J; Lockman, Shahin; Lucaci, Alexander G; Maharaj, Arisha; Mahlangu, Boitshoko; Maponga, Tongai; Mahlakwane, Kamela; Makatini, Zinhle; Marais, Gert; Maruapula, Dorcas; Masupu, Kereng; Matshaba, Mogomotsi; Mayaphi, Simnikiwe; Mbhele, Nokuzola; Mbulawa, Mpaphi B; Mendes, Adriano; Mlisana, Koleka.

Nature ; 603(7902): 679-686, 2022 03.

Article in English | MEDLINE | ID: mdl-35042229

4.

Natural selection in the evolution of SARS-CoV-2 in bats created a generalist virus and highly capable human pathogen.

MacLean, Oscar A; Lytras, Spyros; Weaver, Steven; Singer, Joshua B; Boni, Maciej F; Lemey, Philippe; Kosakovsky Pond, Sergei L; Robertson, David L.

PLoS Biol ; 19(3): e3001115, 2021 03.

Article in English | MEDLINE | ID: mdl-33711012

5.

Repeatability and timing of tropical influenza epidemics.

Servadio, Joseph L; Thai, Pham Quang; Choisy, Marc; Boni, Maciej F.

PLoS Comput Biol ; 19(7): e1011317, 2023 07.

Article in English | MEDLINE | ID: mdl-37467254

6.

Selection Analysis Identifies Clusters of Unusual Mutational Changes in Omicron Lineage BA.1 That Likely Impact Spike Function.

Martin, Darren P; Lytras, Spyros; Lucaci, Alexander G; Maier, Wolfgang; Grüning, Björn; Shank, Stephen D; Weaver, Steven; MacLean, Oscar A; Orton, Richard J; Lemey, Philippe; Boni, Maciej F; Tegally, Houriiyah; Harkins, Gordon W; Scheepers, Cathrine; Bhiman, Jinal N; Everatt, Josie; Amoako, Daniel G; San, James Emmanuel; Giandhari, Jennifer; Sigal, Alex; Williamson, Carolyn; Hsiao, Nei-Yuan; von Gottberg, Anne; De Klerk, Arne; Shafer, Robert W; Robertson, David L; Wilkinson, Robert J; Sewell, B Trevor; Lessells, Richard; Nekrutenko, Anton; Greaney, Allison J; Starr, Tyler N; Bloom, Jesse D; Murrell, Ben; Wilkinson, Eduan; Gupta, Ravindra K; de Oliveira, Tulio; Kosakovsky Pond, Sergei L.

Mol Biol Evol ; 39(4)2022 04 11.

Article in English | MEDLINE | ID: mdl-35325204

7.

Benefits of near-universal vaccination and treatment access to manage COVID-19 burden in the United States.

Yang, Fuhan; Tran, Thu Nguyen-Anh; Howerton, Emily; Boni, Maciej F; Servadio, Joseph L.

BMC Med ; 21(1): 321, 2023 08 24.

Article in English | MEDLINE | ID: mdl-37620926

8.

Using NS1 Flavivirus Protein Microarray to Infer Past Infecting Dengue Virus Serotype and Number of Past Dengue Virus Infections in Vietnamese Individuals.

Thao, Tran Thi Nhu; de Bruin, Erwin; Phuong, Huynh Thi; Thao Vy, Nguyen Ha; van den Ham, Henk-Jan; Wills, Bridget A; Tien, Nguyen Thi Hanh; Le Duyen, Huynh Thi; Trung, Dinh The; Whitehead, Stephen S; Boni, Maciej F; Koopmans, Marion; Clapham, Hannah E.

J Infect Dis ; 223(12): 2053-2061, 2021 06 15.

Article in English | MEDLINE | ID: mdl-31967302

9.

Viral CpG Deficiency Provides No Evidence That Dogs Were Intermediate Hosts for SARS-CoV-2.

Pollock, David D; Castoe, Todd A; Perry, Blair W; Lytras, Spyros; Wade, Kristen J; Robertson, David L; Holmes, Edward C; Boni, Maciej F; Kosakovsky Pond, Sergei L; Parry, Rhys; Carlton, Elizabeth J; Wood, James L N; Pennings, Pleuni S; Goldstein, Richard A.

Mol Biol Evol ; 37(9): 2706-2710, 2020 09 01.

Article in English | MEDLINE | ID: mdl-32658964

10.

Optimal SARS-CoV-2 vaccine allocation using real-time attack-rate estimates in Rhode Island and Massachusetts.

Tran, Thu Nguyen-Anh; Wikle, Nathan B; Albert, Emmy; Inam, Haider; Strong, Emily; Brinda, Karel; Leighow, Scott M; Yang, Fuhan; Hossain, Sajid; Pritchard, Justin R; Chan, Philip; Hanage, William P; Hanks, Ephraim M; Boni, Maciej F.

BMC Med ; 19(1): 162, 2021 07 13.

Article in English | MEDLINE | ID: mdl-34253200

11.

Improved Algorithmic Complexity for the 3SEQ Recombination Detection Algorithm.

Lam, Ha Minh; Ratmann, Oliver; Boni, Maciej F.

Mol Biol Evol ; 35(1): 247-251, 2018 01 01.

Article in English | MEDLINE | ID: mdl-29029186

12.

Multilocus sequence typing of Cryptococcus neoformans var. grubii from Laos in a regional and global context.

Thanh, Lam Tuan; Phan, Trieu Hai; Rattanavong, Sayaphet; Nguyen, Trinh Mai; Duong, Anh Van; Dacon, Cherrelle; Hoang, Thu Nha; Nguyen, Lan Phu Huong; Tran, Chau Thi Hong; Davong, Viengmon; Nguyen, Chau Van Vinh; Thwaites, Guy E; Boni, Maciej F; Dance, David; Ashton, Philip M; Day, Jeremy N.

Med Mycol ; 57(5): 557-565, 2019 Jul 01.

Article in English | MEDLINE | ID: mdl-30339200

13.

Poultry population dynamics and mortality risks in smallholder farms of the Mekong river delta region.

Delabouglise, Alexis; Nguyen-Van-Yen, Benjamin; Thanh, Nguyen Thi Le; Xuyen, Huynh Thi Ai; Tuyet, Phung Ngoc; Lam, Ha Minh; Boni, Maciej F.

BMC Vet Res ; 15(1): 205, 2019 Jun 17.

Article in English | MEDLINE | ID: mdl-31208467

14.

The decline of malaria in Vietnam, 1991-2014.

Goldlust, Sandra M; Thuan, Phung Duc; Giang, Dang Duy Hoang; Thang, Ngo Duc; Thwaites, Guy E; Farrar, Jeremy; Thanh, Ngo Viet; Nguyen, Tran Dang; Grenfell, Bryan T; Boni, Maciej F; Hien, Tran Tinh.

Malar J ; 17(1): 226, 2018 Jun 07.

Article in English | MEDLINE | ID: mdl-29880051

15.

Modeling tuberculosis dynamics with the presence of hyper-susceptible individuals for Ho Chi Minh City from 1996 to 2015.

Vinh, Dao Nguyen; Ha, Dang Thi Minh; Hanh, Nguyen Thi; Thwaites, Guy; Boni, Maciej F; Clapham, Hannah E; Thuong, Nguyen Thuy Thuong.

BMC Infect Dis ; 18(1): 494, 2018 Oct 01.

Article in English | MEDLINE | ID: mdl-30285633

16.

Impact of human mobility on the emergence of dengue epidemics in Pakistan.

Wesolowski, Amy; Qureshi, Taimur; Boni, Maciej F; Sundsøy, Pål Roe; Johansson, Michael A; Rasheed, Syed Basit; Engø-Monsen, Kenth; Buckee, Caroline O.

Proc Natl Acad Sci U S A ; 112(38): 11887-92, 2015 Sep 22.

Article in English | MEDLINE | ID: mdl-26351662

17.

K13 Propeller Mutations in Plasmodium falciparum Populations in Regions of Malaria Endemicity in Vietnam from 2009 to 2016.

Thuy-Nhien, Nguyen; Tuyen, Nguyen Kim; Tong, Nguyen Thanh; Vy, Nguyen Tuong; Thanh, Ngo Viet; Van, Huynh Thuy; Huong-Thu, Pham; Quang, Huynh Hong; Boni, Maciej F; Dolecek, Christiane; Farrar, Jeremy; Thwaites, Guy E; Miotto, Olivo; White, Nicholas J; Hien, Tran Tinh.

Antimicrob Agents Chemother ; 61(4)2017 04.

Article in English | MEDLINE | ID: mdl-28137815

18.

Mathematical epidemiology for a later age.

Rosenberg, Noah A; Boni, Maciej F.

Theor Popul Biol ; 144: 81-83, 2022 Apr.

Article in English | MEDLINE | ID: mdl-35247319

19.

Towards malaria elimination in Savannakhet, Lao PDR: mathematical modelling driven strategy design.

Tun, Sai Thein Than; von Seidlein, Lorenz; Pongvongsa, Tiengkham; Mayxay, Mayfong; Saralamba, Sompob; Kyaw, Shwe Sin; Chanthavilay, Phetsavanh; Celhay, Olivier; Nguyen, Tran Dang; Tran, Thu Nguyen-Anh; Parker, Daniel M; Boni, Maciej F; Dondorp, Arjen M; White, Lisa J.

Malar J ; 16(1): 483, 2017 Nov 28.

Article in English | MEDLINE | ID: mdl-29183370

20.

The Community As the Patient in Malaria-Endemic Areas: Preempting Drug Resistance with Multiple First-Line Therapies.

Boni, Maciej F; White, Nicholas J; Baird, J Kevin.

PLoS Med ; 13(3): e1001984, 2016 Mar.

Article in English | MEDLINE | ID: mdl-27022739

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