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"Transmission from vaccinated individuals in a large SARS-CoV-2 Delta variant outbreak." Cell, vol. 185, no. 3, 2022, pp. 485-492.e10.
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Gaye, Amy, Ndiaye, Tolla, Sy, Mouhamad, Deme, Awa B., Thiaw, Alphonse B., Sene, Aita, Ndiaye, Cheikh, Diedhiou, Younouss, Mbaye, Amadou M., Ndiaye, Ibrahima, Tomkins-Tinch, Christopher, Gomis, Jules F., Badiane, Aida S., MacInnis, Bronwyn, Park, Daniel J., Ndiaye, Mouhamadou, Sy, Ngayo, Sabeti, Pardis C., Siddle, Katherine J., Ndiaye, Daouda.
"Genomic investigation of a dengue virus outbreak in Thiès, Senegal, in 2018." Scientific Reports, vol. 11, no. 1, 2021.
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Lemieux, Jacob E., Siddle, Katherine J., Shaw, Bennett M., Loreth, Christine, Schaffner, Stephen F., Gladden-Young, Adrianne, Adams, Gordon, Fink, Timelia, Tomkins-Tinch, Christopher H., Krasilnikova, Lydia A., DeRuff, Katherine C., Rudy, Melissa, Bauer, Matthew R., Lagerborg, Kim A., Normandin, Erica, Chapman, Sinéad B., Reilly, Steven K., Anahtar, Melis N., Lin, Aaron E., Carter, Amber, Myhrvold, Cameron, Kemball, Molly E., Chaluvadi, Sushma, Cusick, Caroline, Flowers, Katelyn, Neumann, Anna, Cerrato, Felecia, Farhat, Maha, Slater, Damien, Harris, Jason B., Branda, John A., Hooper, David, Gaeta, Jessie M., Baggett, Travis P., O’Connell, James, Gnirke, Andreas, Lieberman, Tami D., Philippakis, Anthony, Burns, Meagan, Brown, Catherine M., Luban, Jeremy, Ryan, Edward T., Turbett, Sarah E., LaRocque, Regina C., Hanage, William P., Gallagher, Glen R., Madoff, Lawrence C., Smole, Sandra, Pierce, Virginia M., Rosenberg, Eric, Sabeti, Pardis C., Park, Daniel J., MacInnis, Bronwyn L.
"Phylogenetic analysis of SARS-CoV-2 in Boston highlights the impact of superspreading events." Science, vol. 371, no. 6529, 2021.
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Lagerborg, Kim A., Normandin, Erica, Bauer, Matthew R., Adams, Gordon, Figueroa, Katherine, Loreth, Christine, Gladden-Young, Adrianne, Shaw, Bennett M., Pearlman, Leah R., Berenzy, Daniel, Dewey, Hannah B., Kales, Susan, Dobbins, Sabrina T., Shenoy, Erica S., Hooper, David, Pierce, Virginia M., Zachary, Kimon C., Park, Daniel J., MacInnis, Bronwyn L., Tewhey, Ryan, Lemieux, Jacob E., Sabeti, Pardis C., Reilly, Steven K., Siddle, Katherine J.
"Synthetic DNA spike-ins (SDSIs) enable sample tracking and detection of inter-sample contamination in SARS-CoV-2 sequencing workflows." Nature Microbiology, vol. 7, no. 1, 2021, pp. 108-119.
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Metsky, Hayden C., None, None, 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.
"Capturing sequence diversity in metagenomes with comprehensive and scalable probe design." Nature Biotechnology, vol. 37, no. 2, 2019, pp. 160-168.
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Siddle, Katherine J., Eromon, Philomena, Barnes, Kayla G., Mehta, Samar, Oguzie, Judith U., Odia, Ikponmwosa, Schaffner, Stephen F., Winnicki, Sarah M., Shah, Rickey R., Qu, James, Wohl, Shirlee, Brehio, Patrick, Iruolagbe, Christopher, Aiyepada, John, Uyigue, Eghosa, Akhilomen, Patience, Okonofua, Grace, Ye, Simon, Kayode, Tolulope, Ajogbasile, Fehintola, Uwanibe, Jessica, Gaye, Amy, Momoh, Mambu, Chak, Bridget, Kotliar, Dylan, Carter, Amber, Gladden-Young, Adrianne, Freije, Catherine A., Omoregie, Omigie, Osiemi, Blessing, Muoebonam, Ekene B., Airende, Michael, Enigbe, Rachael, Ebo, Benevolence, Nosamiefan, Iguosadolo, Oluniyi, Paul, Nekoui, Mahan, Ogbaini-Emovon, Ephraim, Garry, Robert F., Andersen, Kristian G., Park, Daniel J., Yozwiak, Nathan L., Akpede, George, Ihekweazu, Chikwe, Tomori, Oyewale, Okogbenin, Sylvanus, Folarin, Onikepe A., Okokhere, Peter O., MacInnis, Bronwyn L., Sabeti, Pardis C., Happi, Christian T.
"Genomic Analysis of Lassa Virus during an Increase in Cases in Nigeria in 2018." New England Journal of Medicine, vol. 379, no. 18, 2018, pp. 1745-1753.
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Siddle, Katherine J., Tailleux, Ludovic, Deschamps, Matthieu, Loh, Yong-Hwee Eddie, Deluen, Cécile, Gicquel, Brigitte, Antoniewski, Christophe, Barreiro, Luis B., Farinelli, Laurent, Quintana-Murci, Lluís.
"Bacterial Infection Drives the Expression Dynamics of microRNAs and Their isomiRs." PLOS Genetics, vol. 11, no. 3, 2015, pp. e1005064.
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Siddle, Katherine J., Deschamps, Matthieu, Tailleux, Ludovic, Nédélec, Yohann, Pothlichet, Julien, Lugo-Villarino, Geanncarlo, Libri, Valentina, Gicquel, Brigitte, Neyrolles, Olivier, Laval, Guillaume, Patin, Etienne, Barreiro, Luis B., Quintana-Murci, Lluís.
"A genomic portrait of the genetic architecture and regulatory impact of microRNA expression in response to infection." Genome Research, vol. 24, no. 5, 2014, pp. 850-859.
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Siddle, K. J., Goodship, J. A., Keavney, B., Santibanez-Koref, M. F.
"Bases adjacent to mononucleotide repeats show an increased single nucleotide polymorphism frequency in the human genome." Bioinformatics, vol. 27, no. 7, 2011, pp. 895-898.
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