Comparative whole genome analysis reveals re-emergence of human Wa-like and DS-1-like G3 rotaviruses after Rotarix vaccine introduction in Malawi by Mhango, Chimwemwe, Banda, Akuzike, Chinyama, End, Mandolo, Jonathan J, Kumwenda, Orpha, Malamba-Banda, Chikondi, Barnes, Kayla G, Kumwenda, Benjamin, Jambo, Kondwani C, Donato, Celeste M, Esona, Mathew D, Mwangi, Peter N, Steele, A Duncan, Iturriza-Gomara, Miren, Cunliffe, Nigel A, Ndze, Valentine N, Kamng’ona, Arox W, Dennis, Francis E, Nyaga, Martin M, Chaguza, Chrispin, Jere, Khuzwayo C

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Cost of wastewater-based environmental surveillance for SARS-CoV-2: Evidence from pilot sites in Blantyre, Malawi and Kathmandu, Nepal by Ngwira, Lucky G, Sharma, Bhawana, Shrestha, Kabita Bade, Dahal, Sushil, Tuladhar, Reshma, Manthalu, Gerald, Chilima, Ben, Ganizani, Allone, Rigby, Jonathan, Kanjerwa, Oscar, Barnes, Kayla, Anscombe, Catherine, Mfutso-Bengo, Joseph, Feasey, Nicholas, Mvundura, Mercy

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Human cerebral malaria and Plasmodium falciparum genotypes in Malawi by Milner, Jr, Danny A, Vareta, Jimmy, Valim, Clarissa, Montgomery, Jacqui, Daniels, Rachel F, Volkman, Sarah K, Neafsey, Daniel E, Park, Daniel J, Schaffner, Stephen F, Mahesh, Nira C, Barnes, Kayla G, Rosen, David M, Lukens, Amanda K, Van Tyne, Daria, Wiegand, Roger C, Sabeti, Pardis C, Seydel, Karl B, Glover, Simon J, Kamiza, Steve, Molyneux, Malcolm E, Taylor, Terrie E, Wirth, Dyann F

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Zika virus evolution and spread in the Americas by Metsky, Hayden C., Matranga, Christian B., Wohl, Shirlee, Schaffner, Stephen F., Freije, Catherine A., Winnicki, Sarah M., West, Kendra, Qu, James, Baniecki, Mary Lynn, Gladden-Young, Adrianne, Lin, Aaron E., Tomkins-Tinch, Christopher H., Ye, Simon H., Park, Daniel J., Luo, Cynthia Y., Barnes, Kayla G., Shah, Rickey R., Chak, Bridget, Barbosa-Lima, Giselle, Delatorre, Edson, Vieira, Yasmine R., Paul, Lauren M., Tan, Amanda L., Barcellona, Carolyn M., Porcelli, Mario C., Vasquez, Chalmers, Cannons, Andrew C., Cone, Marshall R., Hogan, Kelly N., Kopp, Edgar W., Anzinger, Joshua J., Garcia, Kimberly F., Parham, Leda A., Ramírez, Rosa M. Gélvez, Montoya, Maria C. Miranda, Rojas, Diana P., Brown, Catherine M., Hennigan, Scott, Sabina, Brandon, Scotland, Sarah, Gangavarapu, Karthik, Grubaugh, Nathan D., Oliveira, Glenn, Robles-Sikisaka, Refugio, Rambaut, Andrew, Gehrke, Lee, Smole, Sandra, Halloran, M. Elizabeth, Villar, Luis, Mattar, Salim, Lorenzana, Ivette, Cerbino-Neto, Jose, Valim, Clarissa, Degrave, Wim, Bozza, Patricia T., Gnirke, Andreas, Andersen, Kristian G., Isern, Sharon, Michael, Scott F., Bozza, Fernando A., Souza, Thiago M. L., Bosch, Irene, Yozwiak, Nathan L., MacInnis, Bronwyn L., Sabeti, Pardis C.

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Deployable CRISPR-Cas13a diagnostic tools to detect and report Ebola and Lassa virus cases in real-time by Barnes, Kayla G., Lachenauer, Anna E., Nitido, Adam, Siddiqui, Sameed, Gross, Robin, Beitzel, Brett, Siddle, Katherine J., Freije, Catherine A., Dighero-Kemp, Bonnie, Mehta, Samar B., Carter, Amber, Uwanibe, Jessica, Ajogbasile, Fehintola, Olumade, Testimony, Odia, Ikponmwosa, Sandi, John Demby, Momoh, Mambu, Metsky, Hayden C., Boehm, Chloe K., Lin, Aaron E., Kemball, Molly, Park, Daniel J., Branco, Luis, Boisen, Matt, Sullivan, Brian, Amare, Mihret F., Tiamiyu, Abdulwasiu B., Parker, Zahra F., Iroezindu, Michael, Grant, Donald S., Modjarrad, Kayvon, Myhrvold, Cameron, Garry, Robert F., Palacios, Gustavo, Hensley, Lisa E., Schaffner, Stephen F., Happi, Christian T., Colubri, Andres, Sabeti, Pardis C.

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Genomic epidemiology reveals multiple introductions of Zika virus into the United States by Grubaugh, Nathan D., Ladner, Jason T., Kraemer, Moritz U. G., Dudas, Gytis, Tan, Amanda L., Gangavarapu, Karthik, Wiley, Michael R., White, Stephen, Thézé, Julien, Magnani, Diogo M., Prieto, Karla, Reyes, Daniel, Bingham, Andrea M., Paul, Lauren M., Robles-Sikisaka, Refugio, Oliveira, Glenn, Pronty, Darryl, Barcellona, Carolyn M., Metsky, Hayden C., Baniecki, Mary Lynn, Barnes, Kayla G., Chak, Bridget, Freije, Catherine A., Gladden-Young, Adrianne, Gnirke, Andreas, Luo, Cynthia, MacInnis, Bronwyn, Matranga, Christian B., Park, Daniel J., Qu, James, Schaffner, Stephen F., Tomkins-Tinch, Christopher, West, Kendra L., Winnicki, Sarah M., Wohl, Shirlee, Yozwiak, Nathan L., Quick, Joshua, Fauver, Joseph R., Khan, Kamran, Brent, Shannon E., Reiner, Robert C., Lichtenberger, Paola N., Ricciardi, Michael J., Bailey, Varian K., Watkins, David I., Cone, Marshall R., Kopp, Edgar W., Hogan, Kelly N., Cannons, Andrew C., Jean, Reynald, Monaghan, Andrew J., Garry, Robert F., Loman, Nicholas J., Faria, Nuno R., Porcelli, Mario C., Vasquez, Chalmers, Nagle, Elyse R., Cummings, Derek A. T., Stanek, Danielle, Rambaut, Andrew, Sanchez-Lockhart, Mariano, Sabeti, Pardis C., Gillis, Leah D., Michael, Scott F., Bedford, Trevor, Pybus, Oliver G., Isern, Sharon, Palacios, Gustavo, Andersen, Kristian G.

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Capturing sequence diversity in metagenomes with comprehensive and scalable probe design by Metsky, Hayden C., Siddle, Katherine J., Gladden-Young, Adrianne, Qu, James, Yang, David K., Brehio, Patrick, Goldfarb, Andrew, Piantadosi, Anne, Wohl, Shirlee, Carter, Amber, Lin, Aaron E., Barnes, Kayla G., Tully, Damien C., Corleis, Bjӧrn, Hennigan, Scott, Barbosa-Lima, Giselle, Vieira, Yasmine R., Paul, Lauren M., Tan, Amanda L., Garcia, Kimberly F., Parham, Leda A., Odia, Ikponmwosa, Eromon, Philomena, Folarin, Onikepe A., Goba, Augustine, Simon-Lorière, Etienne, Hensley, Lisa, Balmaseda, Angel, Harris, Eva, Kwon, Douglas S., Allen, Todd M., Runstadler, Jonathan A., Smole, Sandra, Bozza, Fernando A., Souza, Thiago M. L., Isern, Sharon, Michael, Scott F., Lorenzana, Ivette, Gehrke, Lee, Bosch, Irene, Ebel, Gregory, Grant, Donald S., Happi, Christian T., Park, Daniel J., Gnirke, Andreas, Sabeti, Pardis C., Matranga, Christian B.

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Distinct clinical and immunological profiles of patients with evidence of SARS-CoV-2 infection in sub-Saharan Africa by Morton, Ben, Barnes, Kayla G., Anscombe, Catherine, Jere, Khuzwayo, Matambo, Prisca, Mandolo, Jonathan, Kamng’ona, Raphael, Brown, Comfort, Nyirenda, James, Phiri, Tamara, Banda, Ndaziona P., Van Der Veer, Charlotte, Mndolo, Kwazizira S., Mponda, Kelvin, Rylance, Jamie, Phiri, Chimota, Mallewa, Jane, Nyirenda, Mulinda, Katha, Grace, Kambiya, Paul, Jafali, James, Mwandumba, Henry C., Gordon, Stephen B., Cornick, Jennifer, Jambo, Kondwani C.

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Implementation of the Ebola Virus Persistence in Ocular Tissues and Fluids by Shantha, Jessica G, Crozier, Ian, Kraft, Colleen S, Grant, Donald G, Goba, Augustine, Hayek, Brent R, Hartley, Caleb, Barnes, Kayla G, Uyeki, Timothy M, Schieffelin, John, Garry, Robert F, Bausch, Daniel G, Farmer, Paul E, Mattia, John G, Vandy, Matthew J, Yeh, Steven

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A comparison of four epidemic waves of COVID-19 in Malawi; an observational cohort study by Anscombe, Catherine, Lissauer, Samantha, Thole, Herbert, Rylance, Jamie, Dula, Dingase, Menyere, Mavis, Kutambe, Belson, van der Veer, Charlotte, Phiri, Tamara, Banda, Ndaziona P, Mndolo, Kwazizira S, Mponda, Kelvin, Phiri, Chimota, Mallewa, Jane, Nyirenda, Mulinda, Katha, Grace, Mwandumba, Henry, Gordon, Stephen B, Jambo, Kondwani C, Cornick, Jennifer, Feasey, Nicholas, Barnes, Kayla G, Morton, Ben, Ashton, Philip M

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Field evaluation of a Pan-Lassa rapid diagnostic test during the 2018 Nigerian Lassa fever outbreak by Boisen, Matthew L., Uyigue, Eghosa, Aiyepada, John, Siddle, Katherine J., Oestereich, Lisa, Nelson, Diana K. S., Bush, Duane J., Rowland, Megan M., Heinrich, Megan L., Eromon, Philomena, Kayode, Adeyemi T., Odia, Ikponmwosa, Adomeh, Donatus I., Muoebonam, Ekene B., Akhilomen, Patience, Okonofua, Grace, Osiemi, Blessing, Omoregie, Omigie, Airende, Michael, Agbukor, Jacqueline, Ehikhametalor, Solomon, Aire, Chris Okafi, Duraffour, Sophie, Pahlmann, Meike, Böhm, Wiebke, Barnes, Kayla G., Mehta, Samar, Momoh, Mambu, Sandi, John Demby, Goba, Augustine, Folarin, Onikepe A., Ogbaini-Emovan, Ephraim, Asogun, Danny A., Tobin, Ekaete A., Akpede, George O., Okogbenin, Sylvanus A., Okokhere, Peter O., Grant, Donald S., Schieffelin, John S., Sabeti, Pardis C., Günther, Stephan, Happi, Christian T., Branco, Luis M., Garry, Robert F.

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Field validation of recombinant antigen immunoassays for diagnosis of Lassa fever by Boisen, Matthew L., Hartnett, Jessica N., Shaffer, Jeffrey G., Goba, Augustine, Momoh, Mambu, Sandi, John Demby, Fullah, Mohamed, Nelson, Diana K. S., Bush, Duane J., Rowland, Megan M., Heinrich, Megan L., Koval, Anatoliy P., Cross, Robert W., Barnes, Kayla G., Lachenauer, Anna E., Lin, Aaron E., Nekoui, Mahan, Kotliar, Dylan, Winnicki, Sarah M., Siddle, Katherine J., Gbakie, Michael, Fonnie, Mbalu, Koroma, Veronica J., Kanneh, Lansana, Kulakosky, Peter C., Hastie, Kathryn M., Wilson, Russell B., Andersen, Kristian G., Folarin, Onikepe O., Happi, Christian T., Sabeti, Pardis C., Geisbert, Thomas W., Saphire, Erica Ollmann, Khan, S. Humarr, Grant, Donald S., Schieffelin, John S., Branco, Luis M., Garry, Robert F.

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Identification and functional validation of the novel antimalarial resistance locus PF10_0355 in Plasmodium falciparum by Van Tyne, Daria, Park, Daniel J, Schaffner, Stephen F, Neafsey, Daniel E, Angelino, Elaine, Cortese, Joseph F, Barnes, Kayla G, Rosen, David M, Lukens, Amanda K, Daniels, Rachel F, Milner, Jr, Danny A, Johnson, Charles A, Shlyakhter, Ilya, Grossman, Sharon R, Becker, Justin S, Yamins, Daniel, Karlsson, Elinor K, Ndiaye, Daouda, Sarr, Ousmane, Mboup, Souleymane, Happi, Christian, Furlotte, Nicholas A, Eskin, Eleazar, Kang, Hyun Min, Hartl, Daniel L, Birren, Bruce W, Wiegand, Roger C, Lander, Eric S, Wirth, Dyann F, Volkman, Sarah K, Sabeti, Pardis C

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Cost of wastewater-based environmental surveillance for SARS-CoV-2: Evidence from pilot sites in Blantyre, Malawi and Kathmandu, Nepal by Lucky G. Ngwira, Bhawana Sharma, Kabita Bade Shrestha, Sushil Dahal, Reshma Tuladhar, Gerald Manthalu, Ben Chilima, Allone Ganizani, Jonathan Rigby, Oscar Kanjerwa, Kayla Barnes, Catherine Anscombe, Joseph Mfutso-Bengo, Nicholas Feasey, Mercy Mvundura

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Ebola Virus Persistence in Ocular Tissues and Fluids (EVICT) Study: Reverse Transcription-Polymerase Chain Reaction and Cataract Surgery Outcomes of Ebola Survivors in Sierra Leone by Shantha, Jessica G., Mattia, John G., Goba, Augustine, Barnes, Kayla G., Ebrahim, Faiqa K., Kraft, Colleen S., Hayek, Brent R., Hartnett, Jessica N., Shaffer, Jeffrey G., Schieffelin, John S., Sandi, John D., Momoh, Mambu, Jalloh, Simbirie, Grant, Donald S., Dierberg, Kerry, Chang, Joyce, Mishra, Sharmistha, Chan, Adrienne K., Fowler, Rob, O'Dempsey, Tim, Kaluma, Erick, Hendricks, Taylor, Reiners, Roger, Reiners, Melanie, Gess, Lowell A., ONeill, Kwame, Kamara, Sarian, Wurie, Alie, Mansaray, Mohamed, Acharya, Nisha R., Liu, William J., Bavari, Sina, Palacios, Gustavo, Teshome, Moges, Crozier, Ian, Farmer, Paul E., Uyeki, Timothy M., Bausch, Daniel G., Garry, Robert F., Vandy, Matthew J., Yeh, Steven

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Different clinical features in Malawian outpatients presenting with COVID-19 prior to and during Omicron variant dominance: A prospective observational study by Marah G Chibwana, Herbert W Thole, Cat Anscombe, Philip M Ashton, Edward Green, Kayla G Barnes, Jen Cornick, Ann Turner, Desiree Witte, Sharon Nthala, Chikondi Thom, Felistas Kanyandula, Anna Ainani, Natasha Mtike, Hope Tambala, Veronica N'goma, Dorah Mwafulirwa, Erick Asima, Ben Morton, Markus Gmeiner, Zaziwe Gundah, Gift Kawalazira, Neil French, Nicholas Feasey, Robert S Heyderman, Todd D Swarthout, Kondwani C Jambo

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Widespread Pyrethroid and DDT Resistance in the Major Malaria Vector Anopheles funestus in East Africa Is Driven by Metabolic Resistance Mechanisms: e110058 by Mulamba, Charles, Riveron, Jacob M, Ibrahim, Sulaiman S, Irving, Helen, Barnes, Kayla G, Mukwaya, Louis G, Birungi, Josephine, Wondji, Charles S

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Identification and Functional Validation of the Novel Antimalarial Resistance Locus PF10_0355 in Plasmodium falciparum: e1001383 by Tyne, Daria Van, Park, Daniel J, Schaffner, Stephen F, Neafsey, Daniel E, Angelino, Elaine, Cortese, Joseph F, Barnes, Kayla G, Rosen, David M, Lukens, Amanda K, Daniels, Rachel F, Jr, Danny AMilner, Johnson, Charles A, Shlyakhter, Ilya, Grossman, Sharon R, Becker, Justin S, Yamins, Daniel, Karlsson, Elinor K, Ndiaye, Daouda, Sarr, Ousmane, Mboup, Souleymane, Happi, Christian, Furlotte, Nicholas A, Eskin, Eleazar, Kang, Hyun Min, Hartl, Daniel L, Birren, Bruce W, Wiegand, Roger C, Lander, Eric S, Wirth, Dyann F, Volkman, Sarah K, Sabeti, Pardis C

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Spatially resolved single-cell atlas of the lung in fatal Covid19 in an African population reveals a distinct cellular signature and an interferon gamma dominated response by Nyirenda, James, Hardy, Olympia, Silva Filho, Joao Luiz, Herder, Vanessa, Attipa, Charalampos, Ndovi, Charles, Siwombo, Memory, Namalima, Takondwa, Suwedi, Leticia, Nyasulu, Watipenge, Ngulube, Thokozile, Nyirenda, Deborah, Mvaya, Leonard, Phiri, Joseph, Chasweka, Dennis, Eneya, Chisomo, Makwinja, Chikondi, Phiri, Chisomo, Ziwoya, Frank, Tembo, Abel, Kingsley Makwangwala, Khoswe, Stanely, Banda, Peter, Morton, Ben, Hilton, Orla, Lawrence, Sarah, Monique Frere Dos Reis, Gisely Cardoso Melo, Marcus Vinicious Guimaros De Lecerda, Fabio Trindande Maranhao Costa, Wuelta Marcelo Monteiro, Luiz Carlos De Lima Fereirra, Johnson, Carla, Mcguinness, Dagmara, Jambo, Kondwani, Haley, Michael J, Kumwenda, Benjamin, Palmarini, Massimo, Barnes, Kayla G, Denno, Donna M, Voskuijl, Wieger, Kamiza, Steve, Couper, Kevin, Marti, Matthias, Otto, Thomas D, Moxon, Christopher A

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Multiple Introductions of Zika Virus into the United States Revealed through Genomic Epidemiology by Grubaugh, Nathan D, Ladner,Jason T, Kraemer,Moritz U, Dudas,Gytis, Tan,Amanda L, Wiley,Michael R, White,Stephen, Theze,Julien, Magnani,Diogo M, Prieto,Karla, Reyes,Daniel, Bingham,Andrea, Paul,Lauren M, Oliveira,Glenn, Pronty,Darryl, Barnes,Kayla G, Chak,Bridget

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