Analysis of 454 sequencing error rate, error sources, and artifact recombination for detection of Low-frequency drug resistance mutations in HIV-1 DNA
Shao, Wei, Boltz, Valerie F, Spindler, Jonathan E, Kearney, Mary F, Maldarelli, Frank, Mellors, John W, Stewart, Claudia, Volfovsky, Natalia, Levitsky, Alexander, Stephens, Robert M, Coffin, John M
Published in Retrovirology (13.02.2013)
Published in Retrovirology (13.02.2013)
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Journal Article
Low Frequency Nonnucleoside Reverse-Transcriptase Inhibitor—Resistant Variants Contribute to Failure of Efavirenz-Containing Regimens in Treatment-Experienced Patients
Halvas, Elias K., Wiegand, Ann, Boltz, Valerie F., Kearney, Mary, Nissley, Dwight, Wantman, Michael, Hammer, Scott M., Palmer, Sarah, Vaida, Florin, Coffin, John M., Mellors, John W.
Published in The Journal of infectious diseases (01.03.2010)
Published in The Journal of infectious diseases (01.03.2010)
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Journal Article
CpG Methylation Profiles of HIV-1 Proviral DNA in Individuals on ART
Boltz, Valerie F., Ceriani, Cristina, Rausch, Jason W., Shao, Wei, Bale, Michael J., Keele, Brandon F., Hoh, Rebecca, Milush, Jeffrey M., Deeks, Steve G., Maldarelli, Frank, Kearney, Mary F., Coffin, John M.
Published in Viruses (01.05.2021)
Published in Viruses (01.05.2021)
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Journal Article
Role of low-frequency HIV-1 variants in failure of nevirapine-containing antiviral therapy in women previously exposed to single-dose nevirapine
Boltz, Valerie F, Zheng, Yu, Lockman, Shahin, Hong, Feiyu, Halvas, Elias K, McIntyre, James, Currier, Judith S, Chibowa, Margret C, Kanyama, Cecelia, Nair, Apsara, Owino-Ong'or, Willis, Hughes, Michael, Coffin, John M, Mellors, John W
Published in Proceedings of the National Academy of Sciences - PNAS (31.05.2011)
Published in Proceedings of the National Academy of Sciences - PNAS (31.05.2011)
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Journal Article
Ultrasensitive Allele-Specific PCR Reveals Rare Preexisting Drug-Resistant Variants and a Large Replicating Virus Population in Macaques Infected with a Simian Immunodeficiency Virus Containing Human Immunodeficiency Virus Reverse Transcriptase
BOLTZ, Valerie F, AMBROSE, Zandrea, KEARNEY, Mary F, WEI SHAO, KEWALRAMANI, Vineet N, MALDARELLI, Frank, MELLORS, John W, COFFIN, John M
Published in Journal of Virology (01.12.2012)
Published in Journal of Virology (01.12.2012)
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Journal Article
PAPNC, a novel method to calculate nucleotide diversity from large scale next generation sequencing data
Shao, Wei, Kearney, Mary F., Boltz, Valerie F., Spindler, Jonathan E., Mellors, John W., Maldarelli, Frank, Coffin, John M.
Published in Journal of virological methods (01.07.2014)
Published in Journal of virological methods (01.07.2014)
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Journal Article
Blinded, Multicenter Comparison of Methods To Detect a Drug-Resistant Mutant of Human Immunodeficiency Virus Type 1 at Low Frequency
Halvas, Elias K, Aldrovandi, Grace M, Balfe, Peter, Beck, Ingrid A, Boltz, Valerie F, Coffin, John M, Frenkel, Lisa M, Hazelwood, J. Darren, Johnson, Victoria A, Kearney, Mary, Kovacs, Andrea, Kuritzkes, Daniel R, Metzner, Karin J, Nissley, Dwight V, Nowicki, Marek, Palmer, Sarah, Ziermann, Rainer, Zhao, Richard Y, Jennings, Cheryl L, Bremer, James, Brambilla, Don, Mellors, John W
Published in Journal of Clinical Microbiology (01.07.2006)
Published in Journal of Clinical Microbiology (01.07.2006)
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Journal Article
Severe Acute Respiratory Syndrome Coronavirus 2 Viremia Is Associated With Coronavirus Disease 2019 Severity and Predicts Clinical Outcomes
Jacobs, Jana L, Bain, William, Naqvi, Asma, Staines, Brittany, Castanha, Priscila M S, Yang, Haopu, Boltz, Valerie F, Barratt-Boyes, Simon, Marques, Ernesto T A, Mitchell, Stephanie L, Methé, Barbara, Olonisakin, Tolani F, Haidar, Ghady, Burke, Thomas W, Petzold, Elizabeth, Denny, Thomas, Woods, Chris W, McVerry, Bryan J, Lee, Janet S, Watkins, Simon C, St Croix, Claudette M, Morris, Alison, Kearney, Mary F, Ladinsky, Mark S, Bjorkman, Pamela J, Kitsios, Georgios D, Mellors, John W
Published in Clinical infectious diseases (03.05.2022)
Published in Clinical infectious diseases (03.05.2022)
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Journal Article
Suppression of Viremia and Evolution of Human Immunodeficiency Virus Type 1 Drug Resistance in a Macaque Model for Antiretroviral Therapy
AMBROSE, Zandrea, PALMER, Sarah, WEI SHAO, BISCHOFBERGER, Norbert, MALDARELLI, Frank, KIMATA, Jason T, MELLORS, John W, HU, Shiu-Lok, COFFIN, John M, LIFSON, Jeffrey D, KEWALRAMANI, Vineet N, BOLTZ, Valerie F, KEARNEY, Mary, LARSEN, Kay, POLACINO, Patricia, FLANARY, Leon, OSWALD, Kelli, PIATAK, Michael, SMEDLEY, Jeremy
Published in Journal of Virology (01.11.2007)
Published in Journal of Virology (01.11.2007)
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Journal Article
Plasma SARS-CoV-2 RNA Levels as a Biomarker of Lower Respiratory Tract SARS-CoV-2 Infection in Critically Ill Patients With COVID-19
Jacobs, Jana L, Naqvi, Asma, Shah, Faraaz A, Boltz, Valerie F, Kearney, Mary F, McVerry, Bryan J, Ray, Prabir, Schaefer, Caitlin, Fitzpatrick, Meghan, Methé, Barbara, Lee, Janet S, Morris, Alison, Mellors, John W, Kitsios, Georgios D, Bain, William
Published in The Journal of infectious diseases (13.12.2022)
Published in The Journal of infectious diseases (13.12.2022)
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Journal Article
No evidence of HIV replication in children on antiretroviral therapy
Van Zyl, Gert U, Katusiime, Mary Grace, Wiegand, Ann, McManus, William R, Bale, Michael J, Halvas, Elias K, Luke, Brian, Boltz, Valerie F, Spindler, Jonathan, Laughton, Barbara, Engelbrecht, Susan, Coffin, John M, Cotton, Mark F, Shao, Wei, Mellors, John W, Kearney, Mary F
Published in The Journal of clinical investigation (01.10.2017)
Published in The Journal of clinical investigation (01.10.2017)
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Journal Article
Ultrasensitive single-genome sequencing: accurate, targeted, next generation sequencing of HIV-1 RNA
Boltz, Valerie F, Rausch, Jason, Shao, Wei, Hattori, Junko, Luke, Brian, Maldarelli, Frank, Mellors, John W, Kearney, Mary F, Coffin, John M
Published in Retrovirology (20.12.2016)
Published in Retrovirology (20.12.2016)
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Journal Article
Optimization of allele-specific PCR using patient-specific HIV consensus sequences for primer design
Boltz, Valerie F., Maldarelli, Frank, Martinson, Neil, Morris, Lynn, McIntyre, James A., Gray, Glenda, Hopley, Mark J., Kimura, Toshio, Mayers, Douglas L., Robinson, Patrick, Mellors, John W., Coffin, John M., Palmer, Sarah E.
Published in Journal of virological methods (01.03.2010)
Published in Journal of virological methods (01.03.2010)
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Journal Article
Short Communication: HIV-DRLink: A Tool for Reporting Linked HIV-1 Drug Resistance Mutations in Large Single-Genome Data Sets Using the Stanford HIV Database
Shao, Wei, Boltz, Valerie F, Hattori, Junko, Bale, Michael J, Maldarelli, Frank, Coffin, John M, Kearney, Mary F
Published in AIDS research and human retroviruses (01.11.2020)
Published in AIDS research and human retroviruses (01.11.2020)
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Journal Article
Low-Frequency Nevirapine (NVP)-Resistant HIV-1 Variants Are Not Associated With Failure of Antiretroviral Therapy in Women Without Prior Exposure to Single-Dose NVP
Boltz, Valerie F., Bao, Yajing, Halvas, Elias K., Kearney, Mary F., McIntyre, James A., Schooley, Robert T., Hughes, Michael D., Coffin, John M., Mellors, John W.
Published in The Journal of infectious diseases (01.03.2014)
Published in The Journal of infectious diseases (01.03.2014)
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Journal Article
Linked dual-class HIV resistance mutations are associated with treatment failure
Boltz, Valerie F, Shao, Wei, Bale, Michael J, Halvas, Elias K, Luke, Brian, McIntyre, James A, Schooley, Robert T, Lockman, Shahin, Currier, Judith S, Sawe, Fred, Hogg, Evelyn, Hughes, Michael D, Kearney, Mary F, Coffin, John M, Mellors, John W
Published in JCI insight (03.10.2019)
Published in JCI insight (03.10.2019)
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Journal Article
Short―course Combivir after single―dose nevirapine reduces but does not eliminate the emergence of nevirapine resistance in women
PALMER, Sarah, BOLTZ, Valerie F, MALDARELLI, Frank, COFFIN, John M, MELLORS, John W, CHOW, Jeremy Y, MARTINSON, Neil A, MCLNTYRE, James A, GRAY, Glenda E, HOPLEY, Mark J, MAYERS, Douglas, ROBINSON, Patrick, HALL, David B
Published in Antiviral therapy (01.01.2012)
Published in Antiviral therapy (01.01.2012)
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Journal Article
Plasma SARS-CoV-2 RNA levels as a biomarker of lower respiratory tract SARS-CoV-2 infection in critically ill patients with COVID-19
Jacobs, Jana L, Naqvi, Asma, Shah, Faraaz A, Boltz, Valerie F, Kearney, Mary F, McVerry, Bryan J, Ray, Prabir, Schaefer, Caitlin, Fitzpatrick, Meghan, Methé, Barbara, Lee, Janet, Morris, Alison, Mellors, John W, Kitsios, Georgios D, Bain, William
Published in medRxiv : the preprint server for health sciences (11.01.2022)
Published in medRxiv : the preprint server for health sciences (11.01.2022)
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Journal Article
A12 Modeling residual HIV replication and the emergence of drug resistance on ART
Michael Bale, J, Valerie Boltz, F, Mellors, John W, Coffin, John M, Hughes, Stephen H, Kearney, Mary F
Published in Virus evolution (22.08.2019)
Published in Virus evolution (22.08.2019)
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Journal Article