Advances and opportunities in malaria population genomics

por Neafsey, Daniel E., Taylor, Aimee R., MacInnis, Bronwyn L.
Publicado 2021

Detection of low-density Plasmodium falciparum infections using amplicon deep sequencing

por Early, Angela M., Daniels, Rachel F., Farrell, Timothy M., Grimsby, Jonna, Volkman, Sarah K., Wirth, Dyann F., MacInnis, Bronwyn L., Neafsey, Daniel E.
Publicado 2019

SnoopCGH: software for visualizing comparative genomic hybridization data

por Almagro-Garcia, Jacob, Manske, Magnus, Carret, Celine, Campino, Susana, Auburn, Sarah, MacInnis, Bronwyn L, Maslen, Gareth, Pain, Arnab, Newbold, Christopher I, Kwiatkowski, Dominic P, Clark, Taane G
Publicado 2009

Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness

por Obermeyer, Fritz, Jankowiak, Martin, Barkas, Nikolaos, Schaffner, Stephen F., Pyle, Jesse D., Yurkovetskiy, Lonya, Bosso, Matteo, Park, Daniel J., Babadi, Mehrtash, MacInnis, Bronwyn L., Luban, Jeremy, Sabeti, Pardis C., Lemieux, Jacob E.
Publicado 2022

Analysis of 6.4 million SARS-CoV-2 genomes identifies mutations associated with fitness

por Obermeyer, Fritz, Jankowiak, Martin, Barkas, Nikolaos, Schaffner, Stephen F., Pyle, Jesse D., Yurkovetskiy, Leonid, Bosso, Matteo, Park, Daniel J., Babadi, Mehrtash, MacInnis, Bronwyn L., Luban, Jeremy, Sabeti, Pardis C., Lemieux, Jacob E.
Publicado 2022

High-depth sequencing characterization of viral dynamics across tissues in fatal COVID-19 reveals compartmentalized infection

por Normandin, Erica, Rudy, Melissa, Barkas, Nikolaos, Schaffner, Stephen F., Levine, Zoe, Padera, Robert F., Babadi, Mehrtash, Mukerji, Shibani S., Park, Daniel J., MacInnis, Bronwyn L., Siddle, Katherine J., Sabeti, Pardis C., Solomon, Isaac H.
Publicado 2023

Viral Kinetics of Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Omicron Infection in mRNA-Vaccinated Individuals Treated and Not Treated with Nirmatrelvir-Ritonavir

por Dai, Eric Y., Lee, Kannon A., Nathanson, Audrey B., Leonelli, Ariana T., Petros, Brittany A., Brock-Fisher, Taylor, Dobbins, Sabrina T., MacInnis, Bronwyn L., Capone, Amelia, Littlehale, Nancy, Boucau, Julie, Marino, Caitlin, Barczak, Amy K., Sabeti, Pardis C., Springer, Michael, Stephenson, Kathryn E.
Publicado 2022

Inferring Viral Transmission Pathways from Within-Host Variation

por Specht, Ivan O. A., Petros, Brittany A., Moreno, Gage K., Brock-Fisher, Taylor, Krasilnikova, Lydia A., Schifferli, Mark, Yang, Katherine, Cronan, Paul, Glennon, Olivia, Schaffner, Stephen F., Park, Daniel J., MacInnis, Bronwyn L., Ozonoff, Al, Fry, Ben, Mitzenmacher, Michael D., Varilly, Patrick, Sabeti, Pardis C.
Publicado 2023

DNA spike-ins enable confident interpretation of SARS-CoV-2 genomic data from amplicon-based sequencing

por Lagerborg, Kim A., Normandin, Erica, Bauer, Matthew R., Adams, Gordon, Figueroa, Katherine, Loreth, Christine, Gladden-Young, Adrianne, Shaw, Bennett, Pearlman, Leah, Shenoy, Erica S., Hooper, David, Pierce, Virginia M., Zachary, Kimon C., Park, Daniel J., MacInnis, Bronwyn L., Lemieux, Jacob E., Sabeti, Pardis C., Reilly, Steven K, Siddle, Katherine J.
Publicado 2021

A Genome Wide Association Study of Plasmodium falciparum Susceptibility to 22 Antimalarial Drugs in Kenya

por Wendler, Jason P., Okombo, John, Amato, Roberto, Miotto, Olivo, Kiara, Steven M., Mwai, Leah, Pole, Lewa, O'Brien, John, Manske, Magnus, Alcock, Dan, Drury, Eleanor, Sanders, Mandy, Oyola, Samuel O., Malangone, Cinzia, Jyothi, Dushyanth, Miles, Alistair, Rockett, Kirk A., MacInnis, Bronwyn L., Marsh, Kevin, Bejon, Philip, Nzila, Alexis, Kwiatkowski, Dominic P.
Publicado 2014

Host-mediated selection impacts the diversity of Plasmodium falciparum antigens within infections

por Early, Angela M., Lievens, Marc, MacInnis, Bronwyn L., Ockenhouse, Christian F., Volkman, Sarah K., Adjei, Samuel, Agbenyega, Tsiri, Ansong, Daniel, Gondi, Stacey, Greenwood, Brian, Hamel, Mary, Odero, Chris, Otieno, Kephas, Otieno, Walter, Owusu-Agyei, Seth, Asante, Kwaku Poku, Sorgho, Hermann, Tina, Lucas, Tinto, Halidou, Valea, Innocent, Wirth, Dyann F., Neafsey, Daniel E.
Publicado 2018

The 2022 RSV surge was driven by multiple viral lineages

por Adams, Gordon, Moreno, Gage K., Petros, Brittany A., Uddin, Rockib, Levine, Zoe, Kotzen, Ben, Messer, Katelyn, Dobbins, Sabrina T., DeRuff, Katherine C., Loreth, Christine, Brock-Fisher, Taylor, Schaffner, Stephen F., Chaluvadi, Sushma, Kanjilal, Sanjat, Luban, Jeremy, Ozonoff, Al, Park, Daniel, Turbett, Sarah, Siddle, Katherine J., MacInnis, Bronwyn L., Sabeti, Pardis, Lemieux, Jacob
Publicado 2023

RSV Surge in the USA and Viral Lineages, 2022

por Adams, Gordon, Moreno, Gage K., Petros, Brittany A., Uddin, Rockib, Levine, Zoe, Kotzen, Ben, Messer, Katelyn, Dobbins, Sabrina T., DeRuff, Katherine C., Loreth, Christine, Brock-Fisher, Taylor, Schaffner, Stephen F., Chaluvadi, Sushma, Kanjilal, Sanjat, Luban, Jeremy, Ozonoff, Al, Park, Daniel, Turbett, Sarah, Siddle, Katie J., MacInnis, Bronwyn L., Sabeti, Pardis, Lemieux, Jacob E.
Publicado 2023

Integrated sample inactivation, amplification, and Cas13-based detection of SARS-CoV-2

por Arizti-Sanz, Jon, Freije, Catherine A., Stanton, Alexandra C., Boehm, Chloe K., Petros, Brittany A., Siddiqui, Sameed, Shaw, Bennett M., Adams, Gordon, Kosoko-Thoroddsen, Tinna-Solveig F., Kemball, Molly E., Gross, Robin, Wronka, Loni, Caviness, Katie, Hensley, Lisa E., Bergman, Nicholas H., MacInnis, Bronwyn L., Lemieux, Jacob E., Sabeti, Pardis C., Myhrvold, Cameron
Publicado 2020

Real-time Metagenomic Analysis of Undiagnosed Fever Cases Unveils a Yellow Fever Outbreak in Edo State, Nigeria

por Ajogbasile, Fehintola V., Oguzie, Judith U., Oluniyi, Paul E., Eromon, Philomena E., Uwanibe, Jessica N., Mehta, Samar B., Siddle, Katherine J., Odia, Ikponmwosa, Winnicki, Sarah M., Akpede, Nosa, Akpede, George, Okogbenin, Sylvanus, Ogbaini-Emovon, Ephraim, MacInnis, Bronwyn L., Folarin, Onikepe A., Modjarrad, Kayvon, Schaffner, Stephen F., Tomori, Oyewale, Ihekweazu, Chikwe, Sabeti, Pardis C., Happi, Christian T.
Publicado 2020

Streamlined inactivation, amplification, and Cas13-based detection of SARS-CoV-2

por Arizti-Sanz, Jon, Freije, Catherine A., Stanton, Alexandra C., Petros, Brittany A., Boehm, Chloe K., Siddiqui, Sameed, Shaw, Bennett M., Adams, Gordon, Kosoko-Thoroddsen, Tinna-Solveig F., Kemball, Molly E., Uwanibe, Jessica N., Ajogbasile, Fehintola V., Eromon, Philomena E., Gross, Robin, Wronka, Loni, Caviness, Katie, Hensley, Lisa E., Bergman, Nicholas H., MacInnis, Bronwyn L., Happi, Christian T., Lemieux, Jacob E., Sabeti, Pardis C., Myhrvold, Cameron
Publicado 2020

Distinguishing Severe Acute Respiratory Syndrome Coronavirus 2 Persistence and Reinfection: A Retrospective Cohort Study

por Turbett, Sarah E, Tomkins-Tinch, Christopher H, Anahtar, Melis N, Dugdale, Caitlin M, Hyle, Emily P, Shenoy, Erica S, Shaw, Bennett, Egbuonu, Kenechukwu, Bowman, Kathryn A, Zachary, Kimon C, Adams, Gordon C, Hooper, David C, Ryan, Edward T, LaRocque, Regina C, Bassett, Ingrid V, Triant, Virginia A, Siddle, Katherine J, Rosenberg, Eric, Sabeti, Pardis C, Schaffner, Stephen F, MacInnis, Bronwyn L, Lemieux, Jacob E, Charles, Richelle C
Publicado 2022

Determining the Incidence of Asymptomatic SARS-CoV-2 Among Early Recipients of COVID-19 Vaccines (DISCOVER-COVID-19): A Prospective Cohort Study of Healthcare Workers Before, Durin...

por North, Crystal M, Barczak, Amy, Goldstein, Robert H, Healy, Brian C, Finkelstein, Dianne M, Ding, Delaney D, Kim, Andy, Boucau, Julie, Shaw, Bennett, Gilbert, Rebecca F, Vyas, Tammy, Reynolds, Zahra, Siddle, Katherine J, MacInnis, Bronwyn L, Regan, James, Flynn, James P, Choudhary, Manish C, Vyas, Jatin M, Laskowski, Karl, Dighe, Anand S, Lemieux, Jacob E, Li, Jonathan Z, Baden, Lindsey R, Siedner, Mark J, Woolley, Ann E, Sacks, Chana A
Publicado 2021

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

por 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.
Publicado 2020

Early Introduction and Rise of the Omicron Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) Variant in Highly Vaccinated University Populations

por Petros, Brittany A, Turcinovic, Jacquelyn, Welch, Nicole L, White, Laura F, Kolaczyk, Eric D, Bauer, Matthew R, Cleary, Michael, Dobbins, Sabrina T, Doucette-Stamm, Lynn, Gore, Mitch, Nair, Parvathy, Nguyen, Tien G, Rose, Scott, Taylor, Bradford P, Tsang, Daniel, Wendlandt, Erik, Hope, Michele, Platt, Judy T, Jacobson, Karen R, Bouton, Tara, Yune, Seyho, Auclair, Jared R, Landaverde, Lena, Klapperich, Catherine M, Hamer, Davidson H, Hanage, William P, MacInnis, Bronwyn L, Sabeti, Pardis C, Connor, John H, Springer, Michael
Publicado 2022