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Eckerle, Lance D, Becker, Michelle M, Halpin, Rebecca A, Li, Kelvin, Venter, Eli, Lu, Xiaotao, Scherbakova, Sana, Graham, Rachel L, Baric, Ralph S, Stockwell, Timothy B, Spiro, David J, Denison, Mark R
Published in PLoS pathogens (01.05.2010)
Published in PLoS pathogens (01.05.2010)
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Avian Influenza Viruses in Wild Birds: Virus Evolution in a Multihost Ecosystem
Venkatesh, Divya, Poen, Marjolein J, Bestebroer, Theo M, Scheuer, Rachel D, Vuong, Oanh, Chkhaidze, Mzia, Machablishvili, Anna, Mamuchadze, Jimsher, Ninua, Levan, Fedorova, Nadia B, Halpin, Rebecca A, Lin, Xudong, Ransier, Amy, Stockwell, Timothy B, Wentworth, David E, Kriti, Divya, Dutta, Jayeeta, van Bakel, Harm, Puranik, Anita, Slomka, Marek J, Essen, Steve, Brown, Ian H, Fouchier, Ron A M, Lewis, Nicola S
Published in Journal of virology (01.08.2018)
Published in Journal of virology (01.08.2018)
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The soft palate is an important site of adaptation for transmissible influenza viruses
Lakdawala, Seema S., Jayaraman, Akila, Halpin, Rebecca A., Lamirande, Elaine W., Shih, Angela R., Stockwell, Timothy B., Lin, Xudong, Simenauer, Ari, Hanson, Christopher T., Vogel, Leatrice, Paskel, Myeisha, Minai, Mahnaz, Moore, Ian, Orandle, Marlene, Das, Suman R., Wentworth, David E., Sasisekharan, Ram, Subbarao, Kanta
Published in Nature (London) (01.10.2015)
Published in Nature (London) (01.10.2015)
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Deep Sequencing of Influenza A Virus from a Human Challenge Study Reveals a Selective Bottleneck and Only Limited Intrahost Genetic Diversification
Sobel Leonard, Ashley, McClain, Micah T, Smith, Gavin J D, Wentworth, David E, Halpin, Rebecca A, Lin, Xudong, Ransier, Amy, Stockwell, Timothy B, Das, Suman R, Gilbert, Anthony S, Lambkin-Williams, Robert, Ginsburg, Geoffrey S, Woods, Christopher W, Koelle, Katia
Published in Journal of virology (15.12.2016)
Published in Journal of virology (15.12.2016)
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Evaluation of next generation sequencing platforms for population targeted sequencing studies
Harismendy, Olivier, Ng, Pauline C, Strausberg, Robert L, Wang, Xiaoyun, Stockwell, Timothy B, Beeson, Karen Y, Schork, Nicholas J, Murray, Sarah S, Topol, Eric J, Levy, Samuel, Frazer, Kelly A
Published in Genome biology (27.03.2009)
Published in Genome biology (27.03.2009)
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Universal influenza B virus genomic amplification facilitates sequencing, diagnostics, and reverse genetics
Zhou, Bin, Lin, Xudong, Wang, Wei, Halpin, Rebecca A, Bera, Jayati, Stockwell, Timothy B, Barr, Ian G, Wentworth, David E
Published in Journal of clinical microbiology (01.05.2014)
Published in Journal of clinical microbiology (01.05.2014)
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Genetic variation in an individual human exome
Ng, Pauline C, Levy, Samuel, Huang, Jiaqi, Stockwell, Timothy B, Walenz, Brian P, Li, Kelvin, Axelrod, Nelson, Busam, Dana A, Strausberg, Robert L, Venter, J Craig
Published in PLoS genetics (01.08.2008)
Published in PLoS genetics (01.08.2008)
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Molecular Evolution and Intraclade Recombination of Enterovirus D68 during the 2014 Outbreak in the United States
Tan, Yi, Hassan, Ferdaus, Schuster, Jennifer E, Simenauer, Ari, Selvarangan, Rangaraj, Halpin, Rebecca A, Lin, Xudong, Fedorova, Nadia, Stockwell, Timothy B, Lam, Tommy Tsan-Yuk, Chappell, James D, Hartert, Tina V, Holmes, Edward C, Das, Suman R
Published in Journal of virology (15.02.2016)
Published in Journal of virology (15.02.2016)
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Characterization of uncultivable bat influenza virus using a replicative synthetic virus
Zhou, Bin, Ma, Jingjiao, Liu, Qinfang, Bawa, Bhupinder, Wang, Wei, Shabman, Reed S, Duff, Michael, Lee, Jinhwa, Lang, Yuekun, Cao, Nan, Nagy, Abdou, Lin, Xudong, Stockwell, Timothy B, Richt, Juergen A, Wentworth, David E, Ma, Wenjun
Published in PLoS pathogens (01.10.2014)
Published in PLoS pathogens (01.10.2014)
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Respiratory Syncytial Virus whole-genome sequencing identifies convergent evolution of sequence duplication in the C-terminus of the G gene
Schobel, Seth A., Stucker, Karla M., Moore, Martin L., Anderson, Larry J., Larkin, Emma K., Shankar, Jyoti, Bera, Jayati, Puri, Vinita, Shilts, Meghan H., Rosas-Salazar, Christian, Halpin, Rebecca A., Fedorova, Nadia, Shrivastava, Susmita, Stockwell, Timothy B., Peebles, R. Stokes, Hartert, Tina V., Das, Suman R.
Published in Scientific reports (23.05.2016)
Published in Scientific reports (23.05.2016)
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The contrasting phylodynamics of human influenza B viruses
Vijaykrishna, Dhanasekaran, Holmes, Edward C, Joseph, Udayan, Fourment, Mathieu, Su, Yvonne C F, Halpin, Rebecca, Lee, Raphael T C, Deng, Yi-Mo, Gunalan, Vithiagaran, Lin, Xudong, Stockwell, Timothy B, Fedorova, Nadia B, Zhou, Bin, Spirason, Natalie, Kühnert, Denise, Bošková, Veronika, Stadler, Tanja, Costa, Anna-Maria, Dwyer, Dominic E, Huang, Q Sue, Jennings, Lance C, Rawlinson, William, Sullivan, Sheena G, Hurt, Aeron C, Maurer-Stroh, Sebastian, Wentworth, David E, Smith, Gavin J D, Barr, Ian G
Published in eLife (16.01.2015)
Published in eLife (16.01.2015)
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North Atlantic migratory bird flyways provide routes for intercontinental movement of avian influenza viruses
Dusek, Robert J, Hallgrimsson, Gunnar T, Ip, Hon S, Jónsson, Jón E, Sreevatsan, Srinand, Nashold, Sean W, TeSlaa, Joshua L, Enomoto, Shinichiro, Halpin, Rebecca A, Lin, Xudong, Fedorova, Nadia, Stockwell, Timothy B, Dugan, Vivien G, Wentworth, David E, Hall, Jeffrey S
Published in PloS one (19.03.2014)
Published in PloS one (19.03.2014)
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Temporally structured metapopulation dynamics and persistence of influenza A H3N2 virus in humans
Bahl, Justin, Nelson, Martha I, Chan, Kwok H, Chen, Rubing, Vijaykrishna, Dhanasekaran, Halpin, Rebecca A, Stockwell, Timothy B, Lin, Xudong, Wentworth, David E, Ghedin, Elodie, Guan, Yi, Peiris, J. S. Malik, Riley, Steven, Rambaut, Andrew, Holmes, Edward C, Smith, Gavin J. D
Published in Proceedings of the National Academy of Sciences - PNAS (29.11.2011)
Published in Proceedings of the National Academy of Sciences - PNAS (29.11.2011)
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VIGOR extended to annotate genomes for additional 12 different viruses
Wang, Shiliang, Sundaram, Jaideep P, Stockwell, Timothy B
Published in Nucleic Acids Research (01.07.2012)
Published in Nucleic Acids Research (01.07.2012)
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Deep sequencing identifies noncanonical editing of Ebola and Marburg virus RNAs in infected cells
Shabman, Reed S, Jabado, Omar J, Mire, Chad E, Stockwell, Timothy B, Edwards, Megan, Mahajan, Milind, Geisbert, Thomas W, Basler, Christopher F
Published in mBio (04.11.2014)
Published in mBio (04.11.2014)
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Nanoliter reactors improve multiple displacement amplification of genomes from single cells
Marcy, Yann, Ishoey, Thomas, Lasken, Roger S, Stockwell, Timothy B, Walenz, Brian P, Halpern, Aaron L, Beeson, Karen Y, Goldberg, Susanne M D, Quake, Stephen R
Published in PLoS genetics (01.09.2007)
Published in PLoS genetics (01.09.2007)
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Evolution and spread of Venezuelan equine encephalitis complex alphavirus in the Americas
Forrester, Naomi L, Wertheim, Joel O, Dugan, Vivian G, Auguste, Albert J, Lin, David, Adams, A Paige, Chen, Rubing, Gorchakov, Rodion, Leal, Grace, Estrada-Franco, Jose G, Pandya, Jyotsna, Halpin, Rebecca A, Hari, Kumar, Jain, Ravi, Stockwell, Timothy B, Das, Suman R, Wentworth, David E, Smith, Martin D, Kosakovsky Pond, Sergei L, Weaver, Scott C
Published in PLoS neglected tropical diseases (01.08.2017)
Published in PLoS neglected tropical diseases (01.08.2017)
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Ecosystem Interactions Underlie the Spread of Avian Influenza A Viruses with Pandemic Potential
Bahl, Justin, Pham, Truc T, Hill, Nichola J, Hussein, Islam T M, Ma, Eric J, Easterday, Bernard C, Halpin, Rebecca A, Stockwell, Timothy B, Wentworth, David E, Kayali, Ghazi, Krauss, Scott, Schultz-Cherry, Stacey, Webster, Robert G, Webby, Richard J, Swartz, Michael D, Smith, Gavin J D, Runstadler, Jonathan A
Published in PLoS pathogens (01.05.2016)
Published in PLoS pathogens (01.05.2016)
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The Ebola virus VP35 protein binds viral immunostimulatory and host RNAs identified through deep sequencing
Dilley, Kari A, Voorhies, Alexander A, Luthra, Priya, Puri, Vinita, Stockwell, Timothy B, Lorenzi, Hernan, Basler, Christopher F, Shabman, Reed S
Published in PloS one (21.06.2017)
Published in PloS one (21.06.2017)
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