High-fat diet determines the composition of the murine gut microbiome independently of obesity
Hildebrandt, Marie A, Hoffmann, Christian, Sherrill-Mix, Scott A, Keilbaugh, Sue A, Hamady, Micah, Chen, Ying-Yu, Knight, Rob, Ahima, Rexford S, Bushman, Frederic, Wu, Gary D
Published in Gastroenterology (New York, N.Y. 1943) (01.11.2009)
Published in Gastroenterology (New York, N.Y. 1943) (01.11.2009)
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Journal Article
Hepatitis C Virus Transmission Bottlenecks Analyzed by Deep Sequencing
Wang, Gary P, Sherrill-Mix, Scott A, Chang, Kyong-Mi, Quince, Chris, Bushman, Frederic D
Published in Journal of Virology (01.06.2010)
Published in Journal of Virology (01.06.2010)
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Journal Article
Engineering HIV-resistant human CD4+ T cells with CXCR4-specific zinc-finger nucleases
Wilen, Craig B, Wang, Jianbin, Tilton, John C, Miller, Jeffrey C, Kim, Kenneth A, Rebar, Edward J, Sherrill-Mix, Scott A, Patro, Sean C, Secreto, Anthony J, Jordan, Andrea P O, Lee, Gary, Kahn, Joshua, Aye, Pyone P, Bunnell, Bruce A, Lackner, Andrew A, Hoxie, James A, Danet-Desnoyers, Gwenn A, Bushman, Frederic D, Riley, James L, Gregory, Philip D, June, Carl H, Holmes, Michael C, Doms, Robert W
Published in PLoS pathogens (01.04.2011)
Published in PLoS pathogens (01.04.2011)
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Journal Article
Power and sample-size estimation for microbiome studies using pairwise distances and PERMANOVA
Kelly, Brendan J, Gross, Robert, Bittinger, Kyle, Sherrill-Mix, Scott, Lewis, James D, Collman, Ronald G, Bushman, Frederic D, Li, Hongzhe
Published in Bioinformatics (01.08.2015)
Published in Bioinformatics (01.08.2015)
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Journal Article
The stepwise assembly of the neonatal virome is modulated by breastfeeding
Liang, Guanxiang, Zhao, Chunyu, Zhang, Huanjia, Mattei, Lisa, Sherrill-Mix, Scott, Bittinger, Kyle, Kessler, Lyanna R., Wu, Gary D., Baldassano, Robert N., DeRusso, Patricia, Ford, Eileen, Elovitz, Michal A., Kelly, Matthew S., Patel, Mohamed Z., Mazhani, Tiny, Gerber, Jeffrey S., Kelly, Andrea, Zemel, Babette S., Bushman, Frederic D.
Published in Nature (London) (01.05.2020)
Published in Nature (London) (01.05.2020)
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Journal Article
Optimizing methods and dodging pitfalls in microbiome research
Kim, Dorothy, Hofstaedter, Casey E, Zhao, Chunyu, Mattei, Lisa, Tanes, Ceylan, Clarke, Erik, Lauder, Abigail, Sherrill-Mix, Scott, Chehoud, Christel, Kelsen, Judith, Conrad, Máire, Collman, Ronald G, Baldassano, Robert, Bushman, Frederic D, Bittinger, Kyle
Published in Microbiome (05.05.2017)
Published in Microbiome (05.05.2017)
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Journal Article
DNA binding to TLR9 expressed by red blood cells promotes innate immune activation and anemia
Lam, L K Metthew, Murphy, Sophia, Kokkinaki, Dimitra, Venosa, Alessandro, Sherrill-Mix, Scott, Casu, Carla, Rivella, Stefano, Weiner, Aaron, Park, Jeongho, Shin, Sunny, Vaughan, Andrew E, Hahn, Beatrice H, Odom John, Audrey R, Meyer, Nuala J, Hunter, Christopher A, Worthen, G Scott, Mangalmurti, Nilam S
Published in Science translational medicine (20.10.2021)
Published in Science translational medicine (20.10.2021)
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Journal Article
Detection of SARS-CoV-2 RNA using RT-LAMP and molecular beacons
Sherrill-Mix, Scott, Hwang, Young, Roche, Aoife M, Glascock, Abigail, Weiss, Susan R, Li, Yize, Haddad, Leila, Deraska, Peter, Monahan, Caitlin, Kromer, Andrew, Graham-Wooten, Jevon, Taylor, Louis J, Abella, Benjamin S, Ganguly, Arupa, Collman, Ronald G, Van Duyne, Gregory D, Bushman, Frederic D
Published in Genome Biology (03.06.2021)
Published in Genome Biology (03.06.2021)
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Journal Article
Lack of detection of a human placenta microbiome in samples from preterm and term deliveries
Leiby, Jacob S, McCormick, Kevin, Sherrill-Mix, Scott, Clarke, Erik L, Kessler, Lyanna R, Taylor, Louis J, Hofstaedter, Casey E, Roche, Aoife M, Mattei, Lisa M, Bittinger, Kyle, Elovitz, Michal A, Leite, Rita, Parry, Samuel, Bushman, Frederic D
Published in Microbiome (30.10.2018)
Published in Microbiome (30.10.2018)
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Journal Article
Resistance to type 1 interferons is a major determinant of HIV-1 transmission fitness
Iyer, Shilpa S., Bibollet-Ruche, Frederic, Sherrill-Mix, Scott, Learn, Gerald H., Plenderleith, Lindsey, Smith, Andrew G., Barbian, Hannah J., Russell, Ronnie M., Gondim, Marcos V. P., Bahari, Catherine Y., Shaw, Christiana M., Li, Yingying, Decker, Timothy, Haynes, Barton F., Shaw, George M., Sharp, Paul M., Borrow, Persephone, Hahn, Beatrice H.
Published in Proceedings of the National Academy of Sciences - PNAS (24.01.2017)
Published in Proceedings of the National Academy of Sciences - PNAS (24.01.2017)
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Journal Article
Single-cell transcriptional landscapes reveal HIV-1-driven aberrant host gene transcription as a potential therapeutic target
Liu, Runxia, Yeh, Yang-Hui Jimmy, Varabyou, Ales, Collora, Jack A, Sherrill-Mix, Scott, Talbot, Jr, C Conover, Mehta, Sameet, Albrecht, Kristen, Hao, Haiping, Zhang, Hao, Pollack, Ross A, Beg, Subul A, Calvi, Rachela M, Hu, Jianfei, Durand, Christine M, Ambinder, Richard F, Hoh, Rebecca, Deeks, Steven G, Chiarella, Jennifer, Spudich, Serena, Douek, Daniel C, Bushman, Frederic D, Pertea, Mihaela, Ho, Ya-Chi
Published in Science translational medicine (13.05.2020)
Published in Science translational medicine (13.05.2020)
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Journal Article
Predictors of Nonseroconversion after SARS-CoV-2 Infection
Liu, Weimin, Russell, Ronnie M, Bibollet-Ruche, Frederic, Skelly, Ashwin N, Sherrill-Mix, Scott, Freeman, Drew A, Stoltz, Regina, Lindemuth, Emily, Lee, Fang-Hua, Sterrett, Sarah, Bar, Katharine J, Erdmann, Nathaniel, Gouma, Sigrid, Hensley, Scott E, Ketas, Thomas, Cupo, Albert, Cruz Portillo, Victor M, Moore, John P, Bieniasz, Paul D, Hatziioannou, Theodora, Massey, Greer, Minyard, Mary-Beth, Saag, Michael S, Davis, Randall S, Shaw, George M, Britt, William J, Leal, Jr, Sixto M, Goepfert, Paul, Hahn, Beatrice H
Published in Emerging infectious diseases (01.09.2021)
Published in Emerging infectious diseases (01.09.2021)
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Journal Article
Dynamic regulation of HIV-1 mRNA populations analyzed by single-molecule enrichment and long-read sequencing
Ocwieja, Karen E, Sherrill-Mix, Scott, Mukherjee, Rithun, Custers-Allen, Rebecca, David, Patricia, Brown, Michael, Wang, Susana, Link, Darren R, Olson, Jeff, Travers, Kevin, Schadt, Eric, Bushman, Frederic D
Published in Nucleic acids research (01.11.2012)
Published in Nucleic acids research (01.11.2012)
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Journal Article
Multiple Introductions of SARS-CoV-2 Alpha and Delta Variants into White-Tailed Deer in Pennsylvania
Marques, Andrew D, Sherrill-Mix, Scott, Everett, John K, Adhikari, Hriju, Reddy, Shantan, Ellis, Julie C, Zeliff, Haley, Greening, Sabrina S, Cannuscio, Carolyn C, Strelau, Katherine M, Collman, Ronald G, Kelly, Brendan J, Rodino, Kyle G, Bushman, Frederic D, Gagne, Roderick B, Anis, Eman
Published in mBio (26.10.2022)
Published in mBio (26.10.2022)
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Journal Article
Associations of the vaginal microbiota with HIV infection, bacterial vaginosis, and demographic factors
Chehoud, Christel, Stieh, Daniel J, Bailey, Aubrey G, Laughlin, Alice L, Allen, Shannon A, McCotter, Kerrie L, Sherrill-Mix, Scott A, Hope, Thomas J, Bushman, Frederic D
Published in AIDS (London) (24.04.2017)
Published in AIDS (London) (24.04.2017)
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Journal Article
Structural Basis for Inhibitor-Induced Aggregation of HIV Integrase
Gupta, Kushol, Turkki, Vesa, Sherrill-Mix, Scott, Hwang, Young, Eilers, Grant, Taylor, Louis, McDanal, Charlene, Wang, Ping, Temelkoff, David, Nolte, Robert T, Velthuisen, Emile, Jeffrey, Jerry, Van Duyne, Gregory D, Bushman, Frederic D
Published in PLoS biology (09.12.2016)
Published in PLoS biology (09.12.2016)
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Journal Article
Virome in immunodeficiency: what we know currently
Wang, Hu, Xu, Siqi, Li, Shuang, Su, Bin, Sherrill-Mix, Scott, Liang, Guanxiang
Published in Chinese medical journal (20.11.2023)
Published in Chinese medical journal (20.11.2023)
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Journal Article
Tracking gut microbiome and bloodstream infection in critically ill adults
Gu, Christopher H, Khatib, Layla A, Fitzgerald, Ayannah S, Graham-Wooten, Jevon, Ittner, Caroline A, Sherrill-Mix, Scott, Chuang, YuChung, Glaser, Laurel J, Meyer, Nuala J, Bushman, Frederic D, Collman, Ronald G
Published in PloS one (10.10.2023)
Published in PloS one (10.10.2023)
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Journal Article
Post-release survival of loggerhead sea turtles (Caretta caretta) incidentally hooked in a North Atlantic pelagic longline fishery
James, Michael C., Hall, Kelly E., Bond, Emily P., Sherrill-Mix, Scott, Plot, Virginie
Published in Frontiers in Marine Science (19.09.2024)
Published in Frontiers in Marine Science (19.09.2024)
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Journal Article
Wild bonobos host geographically restricted malaria parasites including a putative new Laverania species
Liu, Weimin, Sherrill-Mix, Scott, Learn, Gerald H., Scully, Erik J., Li, Yingying, Avitto, Alexa N., Loy, Dorothy E., Lauder, Abigail P., Sundararaman, Sesh A., Plenderleith, Lindsey J., Ndjango, Jean-Bosco N., Georgiev, Alexander V., Ahuka-Mundeke, Steve, Peeters, Martine, Bertolani, Paco, Dupain, Jef, Garai, Cintia, Hart, John A., Hart, Terese B., Shaw, George M., Sharp, Paul M., Hahn, Beatrice H.
Published in Nature communications (21.11.2017)
Published in Nature communications (21.11.2017)
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Journal Article