Now showing items 1-3 of 3

    • Highly Sensitive and Specific Detection of Rare Variants in Mixed Viral Populations from Massively Parallel Sequence Data 

      Macalalad, Alexander R.; Zody, Michael; Charlebois, Patrick; Lennon, Niall J.; Newman, Ruchi M.; Malboeuf, Christine M.; Ryan, Elizabeth Marie; Boutwell, Christian Lane; Power, Karen A.; Brackney, Doug E.; Pesko, Kendra N.; Levin, Joshua Zvi; Ebel, Gregory D.; Allen, Todd; Birren, Bruce W.; Henn, Matthew R. (Public Library of Science, 2012)
      Viruses diversify over time within hosts, often undercutting the effectiveness of host defenses and therapeutic interventions. To design successful vaccines and therapeutics, it is critical to better understand viral ...
    • Whole Genome Deep Sequencing of HIV-1 Reveals the Impact of Early Minor Variants Upon Immune Recognition During Acute Infection 

      Henn, Matthew R.; Charlebois, Patrick; Lennon, Niall J.; Power, Karen A.; Macalalad, Alexander R.; Berlin, Aaron M.; Malboeuf, Christine M.; Gnerre, Sante; Erlich, Rachel L.; Green, Lisa M.; Berical, Andrew; Wang, Yaoyu; Newman, Ruchi; Axten, Karen L.; Gladden, Adrianne D.; Battis, Laura; Kemper, Michael; Zeng, Qiandong; Shea, Terrance P.; Gujja, Sharvari; Zedlack, Carmen; Gasser, Olivier; Brander, Christian; Günthard, Huldrych F.; Brumme, Zabrina L.; Brumme, Chanson J.; Bazner, Suzane; Rychert, Jenna; Tinsley, Jake P.; Levin, Joshua Z.; Jessen, Heiko; Birren, Bruce W.; Boutwell, Christian Lane; Ryan, Elizabeth M.; Zody, Michael C.; Casali, Monica; Streeck, Hendrik; Bloom, Allyson Kelly; Dudek, Timothy E.; Tully, Damien C.; Hess, Christoph; Mayer, Kenneth Hugh; Rosenberg, Eric Scott; Pereyra, Florencia M.; Young, Sarah K.; Altfeld, Marcus; Walker, Bruce David; Allen, Todd (Public Library of Science, 2012)
      Deep sequencing technologies have the potential to transform the study of highly variable viral pathogens by providing a rapid and cost-effective approach to sensitively characterize rapidly evolving viral quasispecies. ...
    • Within-Host Whole-Genome Deep Sequencing and Diversity Analysis of Human Respiratory Syncytial Virus Infection Reveals Dynamics of Genomic Diversity in the Absence and Presence of Immune Pressure 

      Grad, Yonatan Hagai; Newman, Richard A.; Zody, M; Yang, Xiao; Murphy, Rebecca A.; Qu, J.; Malboeuf, C. M.; Levin, J. Z.; Lipsitch, Marc; DeVincenzo, J. (American Society for Microbiology, 2014)
      Human respiratory syncytial virus (RSV) is the leading cause of lower respiratory tract disease in infants and young children and an important respiratory pathogen in the elderly and immunocompromised. While population-wide ...