Unbiased Deep Sequencing of RNA Viruses from Clinical Samples

door Matranga, Christian B., Gladden-Young, Adrianne, Qu, James, Winnicki, Sarah, Nosamiefan, Dolo, Levin, Joshua Z., Sabeti, Pardis C.
Gepubliceerd in J Vis Exp (2016)

Evidence of Ebola Virus Replication and High Concentration in Semen of a Patient During Recovery

door Barnes, Kayla G, Kindrachuk, Jason, Lin, Aaron E, Wohl, Shirlee, Qu, James, Tostenson, Samantha D, Dorman, William R, Busby, Michele, Siddle, Katherine J, Luo, Cynthia Y, Matranga, Christian B, Davey, Richard T, Sabeti, Pardis C, Chertow, Daniel S
Gepubliceerd in Clin Infect Dis (2017)

Rapid Detection of Powassan Virus in a Patient With Encephalitis by Metagenomic Sequencing

door Piantadosi, Anne, Kanjilal, Sanjat, Ganesh, Vijay, Khanna, Arjun, Hyle, Emily P, Rosand, Jonathan, Bold, Tyler, Metsky, Hayden C, Lemieux, Jacob, Leone, Michael J, Freimark, Lisa, Matranga, Christian B, Adams, Gordon, McGrath, Graham, Zamirpour, Siavash, Telford, Sam, Rosenberg, Eric, Cho, Tracey, Frosch, Matthew P, Goldberg, Marcia B, Mukerji, Shibani S, Sabeti, Pardis C
Gepubliceerd in Clin Infect Dis (2018)

Enhanced methods for unbiased deep sequencing of Lassa and Ebola RNA viruses from clinical and biological samples

door Matranga, Christian B, Andersen, Kristian G, Winnicki, Sarah, Busby, Michele, Gladden, Adrianne D, Tewhey, Ryan, Stremlau, Matthew, Berlin, Aaron, Gire, Stephen K, England, Eleina, Moses, Lina M, Mikkelsen, Tarjei S, Odia, Ikponmwonsa, Ehiane, Philomena E, Folarin, Onikepe, Goba, Augustine, Kahn, S Humarr, Grant, Donald S, Honko, Anna, Hensley, Lisa, Happi, Christian, Garry, Robert F, Malboeuf, Christine M, Birren, Bruce W, Gnirke, Andreas, Levin, Joshua Z, Sabeti, Pardis C
Gepubliceerd in Genome Biol (2014)

Ebola Virus Epidemiology and Evolution in Nigeria

door Folarin, Onikepe A., Ehichioya, Deborah, Schaffner, Stephen F., Winnicki, Sarah M., Wohl, Shirlee, Eromon, Philomena, West, Kendra L., Gladden-Young, Adrianne, Oyejide, Nicholas E., Matranga, Christian B., Deme, Awa Bineta, James, Ayorinde, Tomkins-Tinch, Christopher, Onyewurunwa, Kenneth, Ladner, Jason T., Palacios, Gustavo, Nosamiefan, Iguosadolo, Andersen, Kristian G., Omilabu, Sunday, Park, Daniel J., Yozwiak, Nathan L., Nasidi, Abdusallam, Garry, Robert F., Tomori, Oyewale, Sabeti, Pardis C., Happi, Christian T.
Gepubliceerd in J Infect Dis (2016)

Chikungunya Arthritis Mechanisms in the Americas: A cross-sectional analysis of chikungunya arthritis patients 22-months post-infection demonstrate no detectable viral persistence...

door Chang, Aileen Y., Martins, Karen A.O., Encinales, Liliana, Reid, Patrick, Acuña, Marlon, Encinales, Carlos, Matranga, Christian B., Pacheco, Nelly, Cure, Carlos, Shukla, Bhavarth, Arteta, Teofilo Ruiz, Amdur, Richard, Cazares, Lisa H., Gregory, Melissa, Ward, Michael D., Porras, Alexandra, Mendoza, Alejandro Rico, Dong, Lian, Kenny, Tara, Brueggemann, Ernie, Downey, Lydia G., Kamalapathy, Priyanka, Lichtenberger, Paola, Falls, Orlando, Simon, Gary L., Bethony, Jeffrey, Firestein, Gary S.
Gepubliceerd in Arthritis Rheumatol (2018)

Discovery of Novel Rhabdoviruses in the Blood of Healthy Individuals from West Africa

door Stremlau, Matthew H., Andersen, Kristian G., Folarin, Onikepe A., Grove, Jessica N., Odia, Ikponmwonsa, Ehiane, Philomena E., Omoniwa, Omowunmi, Omoregie, Omigie, Jiang, Pan-Pan, Yozwiak, Nathan L., Matranga, Christian B., Yang, Xiao, Gire, Stephen K., Winnicki, Sarah, Tariyal, Ridhi, Schaffner, Stephen F., Okokhere, Peter O., Okogbenin, Sylvanus, Akpede, George O., Asogun, Danny A., Agbonlahor, Dennis E., Walker, Peter J., Tesh, Robert B., Levin, Joshua Z., Garry, Robert F., Sabeti, Pardis C., Happi, Christian T.
Gepubliceerd in PLoS Negl Trop Dis (2015)

Combining genomics and epidemiology to track mumps virus transmission in the United States

door Wohl, Shirlee, Metsky, Hayden C., Schaffner, Stephen F., Piantadosi, Anne, Burns, Meagan, Lewnard, Joseph A., Chak, Bridget, Krasilnikova, Lydia A., Siddle, Katherine J., Matranga, Christian B., Bankamp, Bettina, Hennigan, Scott, Sabina, Brandon, Byrne, Elizabeth H., McNall, Rebecca J., Shah, Rickey R., Qu, James, Park, Daniel J., Gharib, Soheyla, Fitzgerald, Susan, Barreira, Paul, Fleming, Stephen, Lett, Susan, Rota, Paul A., Madoff, Lawrence C., Yozwiak, Nathan L., MacInnis, Bronwyn L., Smole, Sandra, Grad, Yonatan H., Sabeti, Pardis C.
Gepubliceerd in PLoS Biol (2020)

Capturing sequence diversity in metagenomes with comprehensive and scalable probe design

door 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.
Gepubliceerd in Nat Biotechnol (2019)

Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak

door Gire, Stephen K., Goba, Augustine, Andersen, Kristian G., Sealfon, Rachel S. G., Park, Daniel J., Kanneh, Lansana, Jalloh, Simbirie, Momoh, Mambu, Fullah, Mohamed, Dudas, Gytis, Wohl, Shirlee, Moses, Lina M., Yozwiak, Nathan L., Winnicki, Sarah, Matranga, Christian B., Malboeuf, Christine M., Qu, James, Gladden, Adrianne D., Schaffner, Stephen F., Yang, Xiao, Jiang, Pan-Pan, Nekoui, Mahan, Colubri, Andres, Coomber, Moinya Ruth, Fonnie, Mbalu, Moigboi, Alex, Gbakie, Michael, Kamara, Fatima K., Tucker, Veronica, Konuwa, Edwin, Saffa, Sidiki, Sellu, Josephine, Jalloh, Abdul Azziz, Kovoma, Alice, Koninga, James, Mustapha, Ibrahim, Kargbo, Kandeh, Foday, Momoh, Yillah, Mohamed, Kanneh, Franklyn, Robert, Willie, Massally, James L. B., Chapman, Sinéad B., Bochicchio, James, Murphy, Cheryl, Nusbaum, Chad, Young, Sarah, Birren, Bruce W., Grant, Donald S., Scheiffelin, John S., Lander, Eric S., Happi, Christian, Gevao, Sahr M., Gnirke, Andreas, Rambaut, Andrew, Garry, Robert F., Khan, S. Humarr, Sabeti, Pardis C.
Gepubliceerd in Science (2014)

Clinical sequencing uncovers origins and evolution of Lassa virus

door Andersen, Kristian G., Shapiro, B. Jesse, Matranga, Christian B., Sealfon, Rachel, Lin, Aaron E., Moses, Lina M., Folarin, Onikepe A., Goba, Augustine, Odia, Ikponmwonsa, Ehiane, Philomena E., Momoh, Mambu, England, Eleina M., Winnicki, Sarah, Branco, Luis M., Gire, Stephen K., Phelan, Eric, Tariyal, Ridhi, Tewhey, Ryan, Omoniwa, Omowunmi, Fullah, Mohammed, Fonnie, Richard, Fonnie, Mbalu, Kanneh, Lansana, Jalloh, Simbirie, Gbakie, Michael, Saffa, Sidiki, Karbo, Kandeh, Gladden, Adrianne D., Qu, James, Stremlau, Matthew, Nekoui, Mahan, Finucane, Hilary K., Tabrizi, Shervin, Vitti, Joseph J., Birren, Bruce, Fitzgerald, Michael, McCowan, Caryn, Ireland, Andrea, Berlin, Aaron M., Bochicchio, James, Tazon-Vega, Barbara, Lennon, Niall J., Ryan, Elizabeth M., Bjornson, Zach, Milner, Danny A., Lukens, Amanda K., Broodie, Nisha, Rowland, Megan, Heinrich, Megan, Akdag, Marjan, Schieffelin, John S., Levy, Danielle, Akpan, Henry, Bausch, Daniel G., Rubins, Kathleen, McCormick, Joseph B., Lander, Eric S., Günther, Stephan, Hensley, Lisa, Okogbenin, Sylvanus, Schaffner, Stephen F., Okokhere, Peter O., Khan, S. Humarr, Grant, Donald S., Akpede, George O., Asogun, Danny A., Gnirke, Andreas, Levin, Joshua Z., Happi, Christian T., Garry, Robert F., Sabeti, Pardis C.
Gepubliceerd in Cell (2015)

Genomic epidemiology reveals multiple introductions of Zika virus into the United States

door Grubaugh, Nathan D, Ladner, Jason T, Kraemer, Moritz UG, Dudas, Gytis, Tan, Amanda L, Gangavarapu, Karthik, Wiley, Michael R, White, Stephen, Thézé, Julien, Magnani, Diogo M, Prieto, Karla, Reyes, Daniel, Bingham, Andrea, 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, 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 AT, 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
Gepubliceerd in Nature (2017)

Zika virus evolution and spread in the Americas

door 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., Gélvez Ramírez, Rosa M., Miranda Montoya, Maria C., 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.
Gepubliceerd in Nature (2017)

Ebola Virus Epidemiology, Transmission, and Evolution during Seven Months in Sierra Leone

door Park, Daniel J., Dudas, Gytis, Wohl, Shirlee, Goba, Augustine, Whitmer, Shannon L.M., Andersen, Kristian G., Sealfon, Rachel S., Ladner, Jason T., Kugelman, Jeffrey R., Matranga, Christian B., Winnicki, Sarah M., Qu, James, Gire, Stephen K., Gladden-Young, Adrianne, Jalloh, Simbirie, Nosamiefan, Dolo, Yozwiak, Nathan L., Moses, Lina M., Jiang, Pan-Pan, Lin, Aaron E., Schaffner, Stephen F., Bird, Brian, Towner, Jonathan, Mamoh, Mambu, Gbakie, Michael, Kanneh, Lansana, Kargbo, David, Massally, James L.B., Kamara, Fatima K., Konuwa, Edwin, Sellu, Josephine, Jalloh, Abdul A., Mustapha, Ibrahim, Foday, Momoh, Yillah, Mohamed, Erickson, Bobbie R., Sealy, Tara, Blau, Dianna, Paddock, Christopher, Brault, Aaron, Amman, Brian, Basile, Jane, Bearden, Scott, Belser, Jessica, Bergeron, Eric, Campbell, Shelley, Chakrabarti, Ayan, Dodd, Kimberly, Flint, Mike, Gibbons, Aridth, Goodman, Christin, Klena, John, McMullan, Laura, Morgan, Laura, Russell, Brandy, Salzer, Johanna, Sanchez, Angela, Wang, David, Jungreis, Irwin, Tomkins-Tinch, Christopher, Kislyuk, Andrey, Lin, Michael F., Chapman, Sinead, MacInnis, Bronwyn, Matthews, Ashley, Bochicchio, James, Hensley, Lisa E., Kuhn, Jens H., Nusbaum, Chad, Schieffelin, John S., Birren, Bruce W., Forget, Marc, Nichol, Stuart T., Palacios, Gustavo F., Ndiaye, Daouda, Happi, Christian, Gevao, Sahr M., Vandi, Mohamed A., Kargbo, Brima, Holmes, Edward C., Bedford, Trevor, Gnirke, Andreas, Ströher, Ute, Rambaut, Andrew, Garry, Robert F., Sabeti, Pardis C.
Gepubliceerd in Cell (2015)

Virus genomes reveal factors that spread and sustained the Ebola epidemic

door Dudas, Gytis, Carvalho, Luiz Max, Bedford, Trevor, Tatem, Andrew J., Baele, Guy, Faria, Nuno R., Park, Daniel J., Ladner, Jason T., Arias, Armando, Asogun, Danny, Bielejec, Filip, Caddy, Sarah L., Cotten, Matthew, D’Ambrozio, Jonathan, Dellicour, Simon, Di Caro, Antonino, Diclaro, JosephW., Duraffour, Sophie, Elmore, Michael J., Fakoli, Lawrence S., Faye, Ousmane, Gilbert, Merle L., Gevao, Sahr M., Gire, Stephen, Gladden-Young, Adrianne, Gnirke, Andreas, Goba, Augustine, Grant, Donald S., Haagmans, Bart L., Hiscox, Julian A., Jah, Umaru, Kargbo, Brima, Kugelman, Jeffrey R., Liu, Di, Lu, Jia, Malboeuf, Christine M., Mate, Suzanne, Matthews, David A., Matranga, Christian B., Meredith, Luke W., Qu, James, Quick, Joshua, Pas, Suzan D., Phan, My VT, Pollakis, Georgios, Reusken, Chantal B., Sanchez-Lockhart, Mariano, Schaffner, Stephen F., Schieffelin, John S., Sealfon, Rachel S., Simon-Loriere, Etienne, Smits, Saskia L., Stoecker, Kilian, Thorne, Lucy, Tobin, Ekaete Alice, Vandi, Mohamed A., Watson, Simon J., West, Kendra, Whitmer, Shannon, Wiley, Michael R., Winnicki, Sarah M., Wohl, Shirlee, Wölfel, Roman, Yozwiak, Nathan L., Andersen, Kristian G., Blyden, Sylvia O., Bolay, Fatorma, Carroll, MilesW., Dahn, Bernice, Diallo, Boubacar, Formenty, Pierre, Fraser, Christophe, Gao, George F., Garry, Robert F., Goodfellow, Ian, Günther, Stephan, Happi, Christian T., Holmes, Edward C., Kargbo, Brima, Keïta, Sakoba, Kellam, Paul, Koopmans, Marion P. G., Kuhn, Jens H., Loman, Nicholas J., Magassouba, N’Faly, Naidoo, Dhamari, Nichol, Stuart T., Nyenswah, Tolbert, Palacios, Gustavo, Pybus, Oliver G., Sabeti, Pardis C., Sall, Amadou, Ströher, Ute, Wurie, Isatta, Suchard, Marc A., Lemey, Philippe, Rambaut, Andrew
Gepubliceerd in Nature (2017)