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Microbiology
USA
2026

D-Index & Metrics

Microbiology

D-Index
112
Citations
43125
World Ranking
228
National Ranking
106

Molecular Biology

D-Index
111
Citations
42388
World Ranking
360
National Ranking
209

Medicine

D-Index
112
Citations
43091
World Ranking
5170
National Ranking
2797

Research.com Recognitions

  • 2026 - Research.com Microbiology in United States Leader Award
  • 2025 - Research.com Microbiology in United States Leader Award
  • 2013 - Fellow of the American Association for the Advancement of Science (AAAS)
  • 1999 - Member of the National Academy of Sciences

Overview

John M. Coffin is affiliated with Tufts University in the United States. Their research primarily spans the fields of Medicine, Immunology and Microbiology, and Biochemistry, Genetics and Molecular Biology. Within these broader fields, they focus on Infectious Diseases, Virology, Molecular Biology, Plant Science, and Immunology.

Their main research topics include HIV Research and Treatment, HIV/AIDS drug development and treatment, HIV/AIDS Research and Interventions, CRISPR and Genetic Engineering, Chromosomal and Genetic Variations, RNA and protein synthesis mechanisms, and Viral gastroenteritis research and epidemiology.

Recent notable papers authored or co-authored by John M. Coffin include:

  • HIV-1 viremia not suppressible by antiretroviral therapy can originate from large T cell clones producing infectious virus, 2020, Journal of Clinical Investigation
  • Integration in oncogenes plays only a minor role in determining the in vivo distribution of HIV integration sites before or during suppressive antiretroviral therapy, 2021, PLoS Pathogens
  • Widespread expression of the ancient HERV-K (HML-2) provirus group in normal human tissues, 2022, PLoS Biology
  • ICTV Virus Taxonomy Profile: Retroviridae 2021, 2021, Journal of General Virology
  • Dynamic Shifts in the HIV Proviral Landscape During Long Term Combination Antiretroviral Therapy: Implications for Persistence and Control of HIV Infections, 2020, Viruses

Frequent co-authors collaborating with Coffin include Mary F. Kearney, John W. Mellors, Michael J. Bale, Stephen H. Hughes, and Xiaolin Wu.

The scientist has published regularly in several venues, with multiple works appearing in:

  • bioRxiv (Cold Spring Harbor Laboratory)
  • UNC Libraries
  • Viruses
  • PLoS Pathogens
  • BMC Genomics

John M. Coffin has been recognized with several awards, including the Fellow of the American Association for the Advancement of Science (AAAS) in 2013 and election as a Member of the National Academy of Sciences in 1999.

Best Publications

  • HIV population dynamics in vivo: implications for genetic variation, pathogenesis, and therapy

    John M. Coffin

  • Administration of vorinostat disrupts HIV-1 latency in patients on antiretroviral therapy

    N. M. Archin;A. L. Liberty;A. D. Kashuba;S. K. Choudhary

  • Specific HIV integration sites are linked to clonal expansion and persistence of infected cells

    F. Maldarelli;X. Wu;L. Su;F. R. Simonetti

  • Human immunodeficiency viruses.

    John Coffin;Ashley Haase;Jay A. Levy;Luc Montagnier

  • Single-strand specificity of APOBEC3G accounts for minus-strand deamination of the HIV genome.

    Qin Yu;Renate König;Satish Pillai;Kristopher Chiles

  • Low-level viremia persists for at least 7 years in patients on suppressive antiretroviral therapy

    Sarah Palmer;Frank Maldarelli;Ann Wiegand;Barry Bernstein

  • New Real-Time Reverse Transcriptase-Initiated PCR Assay with Single-Copy Sensitivity for Human Immunodeficiency Virus Type 1 RNA in Plasma

    Sarah Palmer;Ann P. Wiegand;Frank Maldarelli;Holly Bazmi

  • Structure, replication, and recombination of retrovirus genomes: some unifying hypotheses.

    John M. Coffin

  • Lytic Granule Loading of CD8+ T Cells Is Required for HIV-Infected Cell Elimination Associated with Immune Control

    Stephen A. Migueles;Christine M. Osborne;Cassandra Royce;Alex A. Compton

  • Depletion of latent HIV-1 infection in vivo: a proof-of-concept study

    Ginger Lehrman;Ian B Hogue;Sarah Palmer;Cheryl Jennings

  • Upregulation of CTLA-4 by HIV-specific CD4+ T cells correlates with disease progression and defines a reversible immune dysfunction.

    Daniel E Kaufmann;Daniel G Kavanagh;Florencia Pereyra;Florencia Pereyra;John J Zaunders

  • Effects of Retroviruses on Host Genome Function

    Patric Jern;John M. Coffin

  • Multiple, Linked Human Immunodeficiency Virus Type 1 Drug Resistance Mutations in Treatment-Experienced Patients Are Missed by Standard Genotype Analysis

    Sarah Palmer;Mary Kearney;Frank Maldarelli;Elias K. Halvas

  • Endogenous non-retroviral RNA virus elements in mammalian genomes

    Masayuki Horie;Tomoyuki Honda;Tomoyuki Honda;Yoshiyuki Suzuki;Yuki Kobayashi

  • Flexible Use of Nuclear Import Pathways by HIV-1

    KyeongEun Lee;Zandrea Ambrose;Thomas D. Martin;Ilker Oztop

  • Identification, characterization, and comparative genomic distribution of the HERV-K (HML-2) group of human endogenous retroviruses

    Ravi P Subramanian;Julia H Wildschutte;Crystal Russo;John M Coffin

  • Treatment intensification does not reduce residual HIV-1 viremia in patients on highly active antiretroviral therapy

    J. B. Dinoso;S. Y. Kim;A. M. Wiegand;S. E. Palmer;S. E. Palmer

  • Standardized and simplified nomenclature for proteins common to all retroviruses.

    J Leis;D Baltimore;J M Bishop;J Coffin

  • B-108 Specific HIV integration sites are linked to clonal expansion and persistence of infected cells

    Frank Maldarelli;Xiaolin Wu;Ling Su;Francesco Simonetti

  • Clonally expanded CD4+ T cells can produce infectious HIV-1 in vivo

    Francesco R. Simonetti;Michele D. Sobolewski;Elizabeth Fyne;Wei Shao

  • Linkage of Mls genes to endogenous mammary tumour viruses of inbred mice.

    Wayne N. Frankel;Christine Rudy;John M. Coffin;Brigitte T. Huber

Frequent Co-Authors

Mary F. Kearney
Mary F. Kearney National Institutes of Health
John W. Mellors
John W. Mellors University of Pittsburgh
Harold E. Varmus
Harold E. Varmus Cornell University
Frank Maldarelli
Frank Maldarelli National Institutes of Health
Sarah Palmer
Sarah Palmer University of Sydney
Stephen Hughes
Stephen Hughes National Cancer Institute
Wayne N. Frankel
Wayne N. Frankel Columbia University
Vinay K. Pathak
Vinay K. Pathak National Institutes of Health
Philip N. Tsichlis
Philip N. Tsichlis The Ohio State University
David M. Margolis
David M. Margolis University of North Carolina at Chapel Hill

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