Whole Genome Pyrosequencing of Rare Hepatitis C Virus Genotypes Enhances Subtype Classification and Identification of Naturally Occurring Drug Resistance Variants. Newman, RM , Kuntzen T. , Weiner B. , Berical A. , Charlebois P. , Kuiken C. , Murphy DG , Simmonds P. , Bennett P. , Lennon NJ , Birren BW , Zody MC , Allen TM , and Henn MR The Journal of infectious diseases, 2012/11/06, (2012)
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Abstract
De novo assembly of highly diverse viral populations. Yang, X. , Charlebois P. , Gnerre S. , Coole MG , Lennon NJ , Levin JZ , Qu J. , Ryan EM , Zody MC , and Henn MR BMC genomics, 2012/09/13, Volume 13, p.475, (2012)
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Abstract
Complete viral RNA genome sequencing of ultra-low copy samples by sequence-independent amplification. Malboeuf, CM , Yang X. , Charlebois P. , Qu J. , Berlin AM , Casali M. , Pesko KN , Boutwell CL , Devincenzo JP , Ebel GD , Allen TM , Zody MC , Henn MR , and Levin JZ Nucleic acids research, 2012/09/08, (2012)
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Abstract
Highly sensitive and specific detection of rare variants in mixed viral populations from massively parallel sequence data. Macalalad, AR , Zody MC , Charlebois P. , Lennon NJ , Newman RM , Malboeuf CM , Ryan EM , Boutwell CL , Power KA , Brackney DE , Pesko KN , Levin JZ , Ebel GD , Allen TM , Birren BW , and Henn MR PLoS computational biology, 2012/03/01, Volume 8, Issue 3, p.e1002417, (2012)
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Abstract
Whole Genome Deep Sequencing of HIV-1 Reveals the Impact of Early Minor Variants Upon Immune Recognition During Acute Infection. Henn, MR , Boutwell CL , Charlebois P. , Lennon NJ , Power KA , Macalalad AR , Berlin AM , Malboeuf CM , Ryan EM , Gnerre S. , Zody MC , Erlich RL , Green LM , Berical A. , Wang Y. , Casali M. , Streeck H. , Bloom AK , Dudek T. , Tully D. , et al. PLoS pathogens, 2012/03/01, Volume 8, Issue 3, p.e1002529, (2012)
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Abstract
High-resolution analysis of intrahost genetic diversity in dengue virus serotype 1 infection identifies mixed infections. Thai, KT , Henn MR , Zody MC , Tricou V. , Nguyet NM , Charlebois P. , Lennon NJ , Green L. , de Vries PJ , Hien TT , Farrar J. , van Doorn HR , de Jong MD , Birren BW , Holmes EC , and Simmons CP Journal of virology, 2012/01/01, Volume 86, Issue 2, p.835-43, (2012)
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Abstract
