S. Hughes

LINE1-mediated reverse transcription and genomic integration of SARS-CoV-2 mRNA detected in virus-infected but not in viral mRNA-transfected cells
20230 citationsauthor #6
Mechanisms of HIV-1 integrase resistance to dolutegravir and potent inhibition of drug-resistant variants
202324 citationsauthor #15
A Practical Approach to Bicyclic Carbamoyl Pyridones with Application to the Synthesis of HIV-1 Integrase Strand Transfer Inhibitors
20235 citationsauthor #3
Current HIV/SIV Reservoir Assays for Preclinical and Clinical Applications: Recommendations from the Experts 2022 NIAID Workshop Summary
20232 citationsauthor #7
The largest HIV-1-infected T cell clones in children on long-term combination antiretroviral therapy contain solo LTRs
20239 citationsauthor #8
LINE1-Mediated Reverse Transcription and Genomic Integration of SARS-CoV-2 mRNA Detected in Virus-Infected but Not in Viral mRNA-Transfected Cells
202315 citationsauthor #7
HIV infected CD4+ T cell clones are more stable than uninfected clones during long-term antiretroviral therapy
202213 citationsauthor #15
Reverse-transcribed SARS-CoV-2 RNA can integrate into the genome of cultured human cells and can be expressed in patient-derived tissues
2021224 citationsauthor #4
Integration in oncogenes plays only a minor role in determining the in vivo distribution of HIV integration sites before or during suppressive antiretroviral therapy
202151 citationsauthor #14
Reply to Briggs et al.: Genomic integration and expression of SARS-CoV-2 sequences can explain prolonged or recurrent viral RNA detection
20214 citationsauthor #4
Response to Parry et al.: Strong evidence for genomic integration of SARS-CoV-2 sequences and expression in patient tissues
20219 citationsauthor #4
Early Emergence and Long-Term Persistence of HIV-Infected T-Cell Clones in Children
20218 citationsauthor #11
Integrase Strand Transfer Inhibitors Are Effective Anti-HIV Drugs
202180 citationsauthor #6
Structural basis for the inhibition of HTLV-1 integration inferred from cryo-EM deltaretroviral intasome structures
202110 citationsauthor #8
Publisher Correction: Structural basis for the inhibition of HTLV-1 integration inferred from cryo-EM deltaretroviral intasome structures
20210 citationsauthor #8
Mouse papillomavirus type 1 (MmuPV1) DNA is frequently integrated in benign tumors by microhomology-mediated end-joining
202122 citationsauthor #8
HIV-1 Integrase Inhibitors with Modifications That Affect Their Potencies against Drug Resistant Integrase Mutants
202116 citationsauthor #8
INSTIs and NNRTIs Potently Inhibit HIV-1 Polypurine Tract Mutants in a Single Round Infection Assay
202111 citationsauthor #7
Insertional activation of STAT3 and LCK by HIV-1 proviruses in T cell lymphomas
202133 citationsauthor #16
A Combination of Amino Acid Mutations Leads to Resistance to Multiple Nucleoside Analogs in Reverse Transcriptases from HIV-1 Subtypes B and C
20213 citationsauthor #11
Clonal Expansion of Infected CD4+ T Cells in People Living with HIV
202116 citationsauthor #2
Tracking HIV-1-Infected Cell Clones Using Integration Site-Specific qPCR
202113 citationsauthor #10
HIV-1 Viremia Not Suppressible By Antiretroviral Therapy Can Originate from Large T-Cell Clones Producing Infectious Virus
2020111 citationsauthor #18
Crystal Structure of a Retroviral Polyprotein: Prototype Foamy Virus Protease-Reverse Transcriptase (PR-RT)
20205 citationsauthor #8
Dynamic Shifts in the HIV Proviral Landscape During Long Term Combination Antiretroviral Therapy: Implications for Persistence and Control of HIV Infections
202038 citationsauthor #12
HIV-1 Integrase Inhibitors That Are Active against Drug-Resistant Integrase Mutants
202023 citationsauthor #6
Structural basis for strand-transfer inhibitor binding to HIV intasomes
202075 citationsauthor #10
Early Emergence and Long-Term Persistence of HIV-Infected T Cell Clones in Children
20209 citationsauthor #11
Correction to: An analytical pipeline for identifying and mapping the integration sites of HIV and other retroviruses
20203 citationsauthor #6
Integration in or Near Oncogenes Plays Only a Minor Role in Determining the in Vivo Distribution of HIV Integration Sites Before or During Suppressive Antiretroviral Therapy
20200 citationsauthor #14
Structure‐based non‐nucleoside inhibitor design: Developing inhibitors that are effective against resistant mutants
202010 citationsauthor #5
An analytical pipeline for identifying and mapping the integration sites of HIV and other retroviruses
202036 citationsauthor #6
Crystal structure of prototype foamy virus (PFV) protease-reverse transcriptase fusion (PR-RT) reveals conformational plasticity: implications for function
20200 citationsauthor #8
Clones of infected cells arise early in HIV-infected individuals.
201981 citationsauthor #16
Clonal expansion of SIV-infected cells in macaques on antiretroviral therapy is similar to that of HIV-infected cells in humans
201936 citationsauthor #9
A9 A method to obtain full-length HIV proviral sequences and their sites of integration
20191 citationsauthor #10
Long-term persistence of HIV-infected cell clones in early treated children
20190 citationsauthor #7
Clonal expansion of CAR T cells harboring lentivector integration in the CBL gene following anti-CD22 CAR T-cell therapy.
2019117 citationsauthor #12
HIV-1 in lymph nodes is maintained by cellular proliferation during antiretroviral therapy.
2019107 citationsauthor #19
A12 Modeling residual HIV replication and the emergence of drug resistance on ART
20190 citationsauthor #5
Two Coselected Distal Mutations in HIV-1 Reverse Transcriptase (RT) Alter Susceptibility to Nonnucleoside RT Inhibitors and Nucleoside Analogs
20192 citationsauthor #9
Combined HIV-1 sequence and integration site analysis informs viral dynamics and allows reconstruction of replicating viral ancestors
201990 citationsauthor #26
Clones of HIV-infected cells are widely distributed in T cell subsets in blood and in anatomic tissues
20190 citationsauthor #11
Avian Leukosis Retroviruses and Gene Transfer into the Avian Genome
20190 citationsauthor #7
HIV proviruses with identical sequences arise from cell expansion and infection by a common ancestor virus
20190 citationsauthor #8
HIV Infected T Cells Can Proliferate in vivo Without Inducing Expression of the Integrated Provirus
201953 citationsauthor #16
A reprogramming human T cell function and specificity with non-viral genome targeting
20196 citationsauthor #30
Engineering of a Histone-Recognition Domain in Dnmt3a Alters the Epigenetic Landscape and Phenotypic Features of Mouse ESCs.
20187 citationsauthor #8
A-105 NO EVIDENCE FOR HIV REPLICATION IN LYMPH NODES DURING ART
20180 citationsauthor #8
Developing and Evaluating Inhibitors against the RNase H Active Site of HIV-1 Reverse Transcriptase
201824 citationsauthor #8
Efficacies of Cabotegravir and Bictegravir against drug-resistant HIV-1 integrase mutants
2018101 citationsauthor #4
Capsid-CPSF6 Interaction Licenses Nuclear HIV-1 Trafficking to Sites of Viral DNA Integration.
2018176 citationsauthor #11
Structural Studies of HIV-1 Reverse Transcriptase and Implications for Drug Design
20182 citationsauthor #7
Developing and evaluating inhibitors against the RNase H active site of HIV-1 RT.
20183 citationsauthor #8
HIV-1 Integrase Inhibitors That Are Broadly Effective against Drug-Resistant Mutants
201821 citationsauthor #4
Proviruses with identical sequences comprise a large fraction of the replication-competent HIV reservoir
2017235 citationsauthor #9
Title: Correction of autoimmune IL2RA mutations in primary human T cells u sing non - viral genome targeting
20173 citationsauthor #24
Structure-Guided Optimization of HIV Integrase Strand Transfer Inhibitors
201744 citationsauthor #10
Explorer Distinct gene expression patterns in skeletal and cardiac muscle are dependent on common regulatory sequences in the MLC 1 / 3 locus
20170 citationsauthor #4
Rilpivirine analogs potently inhibit drug-resistant HIV-1 mutants
201621 citationsauthor #10
Selectivity for strand-transfer over 3′-processing and susceptibility to clinical resistance of HIV-1 integrase inhibitors are driven by key enzyme–DNA interactions in the active site
201617 citationsauthor #8
Multiple Origins of Virus Persistence during Natural Control of HIV Infection.
2016175 citationsauthor #24
What Integration Sites Tell Us about HIV Persistence.
201664 citationsauthor #1
Greater Than the Sum of Parts: Complexity of the Dynamic Epigenome.
2016139 citationsauthor #13
Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes
201643 citationsauthor #9
Proceedings of the Frontiers of Retrovirology Conference 2016
20167 citationsauthor #318
B-108 Specific HIV integration sites are linked to clonal expansion and persistence of infected cells
2016579 citationsauthor #12
HIV-1 Integrase Strand Transfer Inhibitors with Reduced Susceptibility to Drug Resistant Mutant Integrases
201635 citationsauthor #10
Clonally expanded CD4+ T cells can produce infectious HIV-1 in vivo
2016358 citationsauthor #30
Rilpivirine and Doravirine Have Complementary Efficacies Against NNRTI-Resistant HIV-1 Mutants
201649 citationsauthor #7
Drug resistant integrase mutants cause aberrant HIV integrations
20169 citationsauthor #6
LEDGF/p75 interacts with mRNA splicing factors and targets HIV-1 integration to highly spliced genes
201594 citationsauthor #10
Clones of SIV-infected cells are present in spleen and lymph nodes in rhesus macaques
20153 citationsauthor #1
6,7-Dihydroxyisoindolin-1-one and 7,8-Dihydroxy-3,4-Dihydroisoquinolin- 1(2H)-one Based HIV-1 Integrase Inhibitors.
20157 citationsauthor #6
Analysis of the Zidovudine Resistance Mutations T215Y, M41L, and L210W in HIV-1 Reverse Transcriptase
20158 citationsauthor #4
Reverse Transcription of Retroviruses and LTR Retrotransposons
201527 citationsauthor #1
Mutations in human immunodeficiency virus type 1 reverse transcriptase that make it sensitive to degradation by the viral protease in virions are selected against in patients.
20156 citationsauthor #5
Uncovering mechanisms of HIV persistence in HIV controllers by HIV sequence analysis in CD4 T cell subsets
20151 citationsauthor #20
Engineering of a Histone-Recognition Domain in Dnmt3a Alters the Epigenetic Landscape and Phenotypic Features of Mouse ESCs.
201585 citationsauthor #8
The Integrator complex controls the termination of transcription at diverse classes of gene targets
2015138 citationsauthor #8
Correction to 4-Amino-1-hydroxy-2-oxo-1,8-naphthyridine-Containing Compounds Having High Potency against Raltegravir-Resistant Integrase Mutants of HIV-1
20142 citationsauthor #7
False-positive HIV PCR test following ex vivo lentiviral gene transfer treatment of X-linked severe combined immunodeficiency vector.
201417 citationsauthor #8
Vitro and In Vivo Significantly Inhibit ALV(A) Infection In Leukosis Virus (ALV(A)) Receptor Tva Soluble Forms of the Subgroup A Avian
20140 citationsauthor #2
A Mouse Strain Defective in Both T Cells and NK Cells Has Enhanced Sensitivity to Tumor Induction by Plasmid DNA Expressing Both Activated H-Ras and c-Myc
20146 citationsauthor #9
Enhancers Are Major Targets for Murine Leukemia Virus Vector Integration
201488 citationsauthor #10
Mutations in HIV-1 Reverse Transcriptase Affect the Errors Made in a Single Cycle of Viral Replication
201453 citationsauthor #9
4-Amino-1-hydroxy-2-oxo-1,8-naphthyridine-Containing Compounds Having High Potency against Raltegravir-Resistant Integrase Mutants of HIV-1
201438 citationsauthor #7
Bicyclic 1-Hydroxy-2-oxo-1,2-dihydropyridine-3-carboxamide-Containing HIV-1 Integrase Inhibitors Having High Antiviral Potency against Cells Harboring Raltegravir-Resistant Integrase Mutants
201437 citationsauthor #7
Rapid Screening of HIV Reverse Transcriptase and Integrase Inhibitors
201414 citationsauthor #2
Discovery of Novel Inhibitors of HIV‐1 Reverse Transcriptase Through Virtual Screening of Experimental and Theoretical Ensembles
201422 citationsauthor #7
Viral Replication Affect the Errors Made in a Single Cycle of Mutations in HIV-1 Reverse Transcriptase
20140 citationsauthor #2
Activities, crystal structures, and molecular dynamics of dihydro-1H-isoindole derivatives, inhibitors of HIV-1 integrase.
201343 citationsauthor #9
Mutations in HIV-1 reverse transcriptase cause misfolding and miscleavage by the viral protease.
20136 citationsauthor #4
H3K4me3 interactions with TAF3 regulate preinitiation complex assembly and selective gene activation.
2013433 citationsauthor #6
Effects of Substitutions at the 4′ and 2 Positions on the Bioactivity of 4′-Ethynyl-2-Fluoro-2′-Deoxyadenosine
201336 citationsauthor #11
A homology model of HIV-1 integrase and analysis of mutations designed to test the model.
201349 citationsauthor #5
Treatment with suboptimal doses of raltegravir leads to aberrant HIV-1 integrations
201331 citationsauthor #3
Nonnucleoside Reverse Transcriptase Inhibitors (NNRTIs)
20131 citationsauthor #3
HIV-1 Reverse Transcriptase Structures
20132 citationsauthor #3
HIV Viral Protein R (Vpr)-Derived Peptides Designed as HIV-1 Integrase Photoaffinity Ligands
20131 citationsauthor #6

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