John M. Coffin

Affiliated with

Research Area

Biography

John M. Coffin has not added Biography.
If you are John M. Coffin and would like to personalize this page please email our Author Liaison for assistance.

JoVE Journal Publications

ArticleTotal : 1	Year
Publication title Cited by 10	2011

Other Publications

Article	Year
Evolution of retroviruses: fossils in our DNA. Proceedings of the American Philosophical Society\| PubMed ID: 15551500	2004
Virology. A new virus for old diseases? Science (New York, N.Y.)\| PubMed ID: 19815721	2009
Proposed alternatives for the use of anti-HIV drugs: is it appropriate? Drug resistance updates : reviews and commentaries in antimicrobial and anticancer chemotherapy\| PubMed ID: 11504471	1999
A novel endogenous retrovirus-related element in the human genome resembles a DNA transposon: evidence for an evolutionary link? Genomics\| PubMed ID: 12408960	2002
The solitary wave of asexual evolution. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 12525686	2003
Mechanisms of avian retroviral host range extension. Journal of virology\| PubMed ID: 12767991	2003
Virology. Weapons of mutational destruction. Science (New York, N.Y.)\| PubMed ID: 12920286	2003
New real-time reverse transcriptase-initiated PCR assay with single-copy sensitivity for human immunodeficiency virus type 1 RNA in plasma. Journal of clinical microbiology\| PubMed ID: 14532178	2003
Nonrandom HIV-1 infection and double infection via direct and cell-mediated pathways. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 14707263	2004
Human endogenous retrovirus K solo-LTR formation and insertional polymorphisms: implications for human and viral evolution. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 14757818	2004
Single-strand specificity of APOBEC3G accounts for minus-strand deamination of the HIV genome. Nature structural & molecular biology\| PubMed ID: 15098018	2004
In vitro characterization of a simian immunodeficiency virus-human immunodeficiency virus (HIV) chimera expressing HIV type 1 reverse transcriptase to study antiviral resistance in pigtail m... Journal of virology\| PubMed ID: 15564466	2004
Multiple, linked human immunodeficiency virus type 1 drug resistance mutations in treatment-experienced patients are missed by standard genotype analysis. Journal of clinical microbiology\| PubMed ID: 15635002	2005
Relationship between retroviral DNA-integration-site selection and host cell transcription. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 15659548	2005
Mechanism for nucleoside analog-mediated abrogation of HIV-1 replication: balance between RNase H activity and nucleotide excision. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 15684061	2005
Symmetrical base preferences surrounding HIV-1, avian sarcoma/leukosis virus, and murine leukemia virus integration sites. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 15802467	2005
Characterization of hortulanus endogenous murine leukemia virus, an endogenous provirus that encodes an infectious murine leukemia virus of a novel subgroup. Journal of virology\| PubMed ID: 15956577	2005
Depletion of latent HIV-1 infection in vivo: a proof-of-concept study. Lancet\| PubMed ID: 16099290	2005
Human endogenous retroviral elements as indicators of ectopic recombination events in the primate genome. Genetics\| PubMed ID: 16157677	2005
Evolution of broad host range in retroviruses leads to cell death mediated by highly cytopathic variants. Journal of virology\| PubMed ID: 16378958	2006
Selection and persistence of non-nucleoside reverse transcriptase inhibitor-resistant HIV-1 in patients starting and stopping non-nucleoside therapy. AIDS (London, England)\| PubMed ID: 16514300	2006
Blinded, multicenter comparison of methods to detect a drug-resistant mutant of human immunodeficiency virus type 1 at low frequency. Journal of clinical microbiology\| PubMed ID: 16825395	2006
Mutations in the connection domain of HIV-1 reverse transcriptase increase 3'-azido-3'-deoxythymidine resistance. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 17179211	2007
ART suppresses plasma HIV-1 RNA to a stable set point predicted by pretherapy viremia. PLoS pathogens\| PubMed ID: 17411338	2007
Suppression of viremia and evolution of human immunodeficiency virus type 1 drug resistance in a macaque model for antiretroviral therapy. Journal of virology\| PubMed ID: 17855539	2007
Upregulation of CTLA-4 by HIV-specific CD4+ T cells correlates with disease progression and defines a reversible immune dysfunction. Nature immunology\| PubMed ID: 17906628	2007
Role of APOBEC3 in genetic diversity among endogenous murine leukemia viruses. PLoS genetics\| PubMed ID: 17967065	2007
Oncogenicity of DNA in vivo: tumor induction with expression plasmids for activated H-ras and c-myc. Biologicals : journal of the International Association of Biological Standardization\| PubMed ID: 18218323	2008
Frequent polymorphism at drug resistance sites in HIV-1 protease and reverse transcriptase. AIDS (London, England)\| PubMed ID: 18301062	2008
Low-level viremia persists for at least 7 years in patients on suppressive antiretroviral therapy. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 18332425	2008
Interactions of murine APOBEC3 and human APOBEC3G with murine leukemia viruses. Journal of virology\| PubMed ID: 18448535	2008
Valproic acid without intensified antiviral therapy has limited impact on persistent HIV infection of resting CD4+ T cells. AIDS (London, England)\| PubMed ID: 18525258	2008
HIV-1 reverse transcriptase connection subdomain mutations reduce template RNA degradation and enhance AZT excision. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 18667707	2008
Effects of retroviruses on host genome function. Annual review of genetics\| PubMed ID: 18694346	2008
Host-retrovirus arms race: trimming the budget. Cell host & microbe\| PubMed ID: 18779045	2008
Attenuation by a thousand cuts. The New England journal of medicine\| PubMed ID: 19020330	2008
Lytic granule loading of CD8+ T cells is required for HIV-infected cell elimination associated with immune control. Immunity\| PubMed ID: 19062316	2008
Regimen simplification to atazanavir-ritonavir alone as maintenance antiretroviral therapy: final 48-week clinical and virologic outcomes. The Journal of infectious diseases\| PubMed ID: 19191590	2009
Likely role of APOBEC3G-mediated G-to-A mutations in HIV-1 evolution and drug resistance. PLoS pathogens\| PubMed ID: 19343218	2009
High efficiency of HIV-1 genomic RNA packaging and heterozygote formation revealed by single virion analysis. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 19628694	2009
Persistent low-level viremia in HIV-1 elite controllers and relationship to immunologic parameters. The Journal of infectious diseases\| PubMed ID: 19656066	2009
RT-SHIV subpopulation dynamics in infected macaques during anti-HIV therapy. Retrovirology\| PubMed ID: 19889213	2009
Optimization of allele-specific PCR using patient-specific HIV consensus sequences for primer design. Journal of virological methods\| PubMed ID: 19948190	2010
Endogenous non-retroviral RNA virus elements in mammalian genomes. Nature\| PubMed ID: 20054395	2010
Low frequency nonnucleoside reverse-transcriptase inhibitor-resistant variants contribute to failure of efavirenz-containing regimens in treatment- experienced patients. The Journal of infectious diseases\| PubMed ID: 20102272	2010
Multi-site adaptation in the presence of infrequent recombination. Theoretical population biology\| PubMed ID: 20149814	2010
Antiretroviral intensification and valproic acid lack sustained effect on residual HIV-1 viremia or resting CD4+ cell infection. PloS one\| PubMed ID: 20186346	2010
Flexible use of nuclear import pathways by HIV-1. Cell host & microbe\| PubMed ID: 20227665	2010
Tumors induced in mice by direct inoculation of plasmid DNA expressing both activated H-ras and c-myc. International journal of biological sciences\| PubMed ID: 20376206	2010
Comparison of standard PCR/cloning to single genome sequencing for analysis of HIV-1 populations. Journal of virological methods\| PubMed ID: 20451557	2010
Patterns of Human Immunodeficiency Virus type 1 recombination ex vivo provide evidence for coadaptation of distant sites, resulting in purifying selection for intersubtype recombinants durin... Journal of virology\| PubMed ID: 20504919	2010
The effect of raltegravir intensification on low-level residual viremia in HIV-infected patients on antiretroviral therapy: a randomized controlled trial. PLoS medicine\| PubMed ID: 20711481	2010
HIV-1 continues to replicate and evolve in patients with natural control of HIV infection. Journal of virology\| PubMed ID: 20926564	2010
Genetic diversity of simian immunodeficiency virus encoding HIV-1 reverse transcriptase persists in macaques despite antiretroviral therapy. Journal of virology\| PubMed ID: 21084490	2011
Mouse DNA contamination in human tissue tested for XMRV. Retrovirology\| PubMed ID: 21171966	2010
Contamination of human DNA samples with mouse DNA can lead to false detection of XMRV-like sequences. Retrovirology\| PubMed ID: 21171973	2010
The Blood Xenotropic Murine Leukemia Virus-Related Virus Scientific Research Working Group: mission, progress, and plans. Transfusion\| PubMed ID: 21366602	2011
Clonal sequences recovered from plasma from patients with residual HIV-1 viremia and on intensified antiretroviral therapy are identical to replicating viral RNAs recovered from circulating ... Journal of virology\| PubMed ID: 21367910	2011
Estimate of effective recombination rate and average selection coefficient for HIV in chronic infection. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 21436045	2011
Role of low-frequency HIV-1 variants in failure of nevirapine-containing antiviral therapy in women previously exposed to single-dose nevirapine. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 21576473	2011
Recombinant origin of the retrovirus XMRV. Science (New York, N.Y.)\| PubMed ID: 21628392	2011
Majority of CD4+ T cells from peripheral blood of HIV-1-infected individuals contain only one HIV DNA molecule. Proceedings of the National Academy of Sciences of the United States of America\| PubMed ID: 21690402	2011
Failure to confirm XMRV/MLVs in the blood of patients with chronic fatigue syndrome: a multi-laboratory study. Science (New York, N.Y.)\| PubMed ID: 21940862	2011
Characterization, mapping, and distribution of the two XMRV parental proviruses. Journal of virology\| PubMed ID: 22031947	2012
Identification, characterization, and comparative genomic distribution of the HERV-K (HML-2) group of human endogenous retroviruses. Retrovirology\| PubMed ID: 22067224	2011
Binding of more than one Tva800 molecule is required for ASLV-A entry. Retrovirology\| PubMed ID: 22099981	2011
Restricted Replication of Xenotropic Murine Leukemia Virus-Related Virus in Pigtailed Macaques. Journal of virology\| PubMed ID: 22238316	2012
Short-course Combivir after single-dose nevirapine reduces but does not eliminate the emergence of nevirapine resistance in women. Antiviral therapy\| PubMed ID: 22293443	2011
Endogenous Murine Leukemia Viruses: Relationship to XMRV and Related Sequences Detected in Human DNA Samples. Advances in virology\| PubMed ID: 22312358	2011