Infidelity of SARS-CoV Nsp14-exonuclease mutant virus replication is revealed by complete genome sequencing von 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

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Mechanism of chimera formation during the Multiple Displacement Amplification reaction von Lasken, Roger S, Stockwell, Timothy B

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Avian Influenza Viruses in Wild Birds: Virus Evolution in a Multihost Ecosystem von 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

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Evaluation of next generation sequencing platforms for population targeted sequencing studies von 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

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The soft palate is an important site of adaptation for transmissible influenza viruses von 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

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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 von 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

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Genetic variation in an individual human exome von 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

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Universal influenza B virus genomic amplification facilitates sequencing, diagnostics, and reverse genetics von Zhou, Bin, Lin, Xudong, Wang, Wei, Halpin, Rebecca A, Bera, Jayati, Stockwell, Timothy B, Barr, Ian G, Wentworth, David E

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Characterization of uncultivable bat influenza virus using a replicative synthetic virus von 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

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North Atlantic migratory bird flyways provide routes for intercontinental movement of avian influenza viruses von 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

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Molecular Evolution and Intraclade Recombination of Enterovirus D68 during the 2014 Outbreak in the United States von 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

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Respiratory Syncytial Virus whole-genome sequencing identifies convergent evolution of sequence duplication in the C-terminus of the G gene von 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.

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The contrasting phylodynamics of human influenza B viruses von 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

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Temporally structured metapopulation dynamics and persistence of influenza A H3N2 virus in humans von 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

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Nanoliter reactors improve multiple displacement amplification of genomes from single cells von 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

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Evolution and spread of Venezuelan equine encephalitis complex alphavirus in the Americas von 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

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Ecosystem Interactions Underlie the Spread of Avian Influenza A Viruses with Pandemic Potential von 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

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The effective rate of influenza reassortment is limited during human infection von 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, Rob, Ginsburg, Geoffrey S, Woods, Christopher W, Koelle, Katia, Illingworth, Christopher J R

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The Ebola virus VP35 protein binds viral immunostimulatory and host RNAs identified through deep sequencing von Dilley, Kari A, Voorhies, Alexander A, Luthra, Priya, Puri, Vinita, Stockwell, Timothy B, Lorenzi, Hernan, Basler, Christopher F, Shabman, Reed S

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VIGOR extended to annotate genomes for additional 12 different viruses von Wang, Shiliang, Sundaram, Jaideep P, Stockwell, Timothy B

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