S. Hughes

S. Hughes, I. Tsarfaty, J. Resau, 1994, Cell growth & differentiation : the molecular biology journal of the American Association for Cancer Research.

The Level of Reverse Transcriptase (RT) in Human Immunodeficiency Virus Type 1 Particles Affects Susceptibility to Nonnucleoside RT Inhibitors but Not to Lamivudine

P. Boyer, S. Hughes, V. KewalRamani, 2006, Journal of Virology.

A homology model of HIV-1 integrase and analysis of mutations designed to test the model.

Y. Pommier, S. Hughes, M. Métifiot, 2013, Journal of molecular biology.

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

S. Hughes, J. Mellors, J. Coffin, 2016 .

A method for the rapid screening of human blood samples for the presence of HIV-1 sequences: the probe-shift assay.

J. Goedert, R. Kumar, S. Hughes, 1989, AIDS Research and Human Retroviruses.

Structural and Functional Analyses of the Second-Generation Integrase Strand Transfer Inhibitor Dolutegravir ( S / GSK 1349572 )

Y. Pommier, S. Hughes, Steven J Smith, 2011 .

Activities, crystal structures, and molecular dynamics of dihydro-1H-isoindole derivatives, inhibitors of HIV-1 integrase.

Y. Pommier, S. Hughes, Steven J Smith, 2013, ACS chemical biology.

2,3-dihydro-6,7-dihydroxy-1H-isoindol-1-one-based HIV-1 integrase inhibitors.

Y. Pommier, S. Hughes, C. Marchand, 2008, Journal of medicinal chemistry.

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

S. Hughes, J. Coffin, D. Blair, 2014, PloS one.

ski can cause selective growth of skeletal muscle in transgenic mice.

S. Hughes, P. Sutrave, A. Kelly, 1990, Genes & development.

Structure of HIV-1 reverse transcriptase with the inhibitor beta-Thujaplicinol bound at the RNase H active site.

A. D. Clark, S. Hughes, E. Arnold, 2009, Structure.

Clonal expansion of CAR T cells harboring lentivector integration in the CBL gene following anti-CD22 CAR T-cell therapy.

M. Raffeld, S. Hughes, M. Stetler-Stevenson, 2019, Blood advances.

Development of tricyclic hydroxy-1H-pyrrolopyridine-trione containing HIV-1 integrase inhibitors.

Y. Pommier, S. Hughes, Steven J Smith, 2011, Bioorganic & medicinal chemistry letters.

Reduced genotoxicity of avian sarcoma leukosis virus vectors in rhesus long-term repopulating cells compared to standard murine retrovirus vectors.

T. Wolfsberg, G. Renaud, S. Hughes, 2008, Molecular therapy : the journal of the American Society of Gene Therapy.

Inhibition of human immunodeficiency virus type 1 integrase by the Fab fragment of a specific monoclonal antibody suggests that different multimerization states are required for different enzymatic functions

A. D. Clark, P. Clark, S. Hughes, 1996, Journal of virology.

The sequence of human immunodeficiency virus type 2 circle junction suggests that integration protein cleaves the ends of linear DNA asymmetrically

S. Hughes, J. Whitcomb, 1991, Journal of virology.

Expression of the Moloney murine leukemia virus and human immunodeficiency virus integration proteins in Escherichia coli.

S. Hughes, A. Hizi, 1988, Virology.

A Rous sarcoma virus provirus is flanked by short direct repeats of a cellular DNA sequence present in only one copy prior to integration.

H. Varmus, S. Hughes, J. Bishop, 1981, Proceedings of the National Academy of Sciences of the United States of America.

Proviruses of avian sarcoma virus are terminally redundant, co-extensive with unintegrated linear DNA and integrated at many sites

H. Varmus, S. Hughes, H. Kung, 1978, Cell.

TheSequence ofHumanImmunodeficiency VirusType2Circle Junction Suggests ThatIntegration Protein Cleaves theEndsof

S. Hughes, J. Whitcomb, 1991 .

Treatment with suboptimal doses of raltegravir leads to aberrant HIV-1 integrations

S. Hughes, Janani Varadarajan, M. J. McWilliams, 2013, Proceedings of the National Academy of Sciences.

Effects of Substitutions at the 4′ and 2 Positions on the Bioactivity of 4′-Ethynyl-2-Fluoro-2′-Deoxyadenosine

S. Sarafianos, S. Hughes, H. Mitsuya, 2013, Antimicrobial Agents and Chemotherapy.

Identification of glycosylation sites in the SU component of the Avian Sarcoma/Leukosis virus Envelope Glycoprotein (Subgroup A) by mass spectrometry.

P. Clark, S. Hughes, M. Federspiel, 2004, Virology.

Tumors Induced in Mice by Direct Inoculation of Plasmid DNA Expressing Both Activated H-ras and c-myc

S. Hughes, J. Coffin, D. Blair, 2010, International journal of biological sciences.

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

Y. Pommier, S. Hughes, Steven J Smith, 2014, Journal of medicinal chemistry.

Structural basis for strand-transfer inhibitor binding to HIV intasomes

Dmitry Lyumkis, Diogo Santos-Martins, Stefano Forli, 2020, Science.

HIV-1 Integrase Inhibitors That Are Active against Drug-Resistant Integrase Mutants

S. Hughes, Steven J Smith, D. Lyumkis, 2020, Antimicrobial Agents and Chemotherapy.

4-Amino-1-hydroxy-2-oxo-1,8-naphthyridine-Containing Compounds Having High Potency against Raltegravir-Resistant Integrase Mutants of HIV-1

Y. Pommier, P. Boyer, S. Hughes, 2014, Journal of medicinal chemistry.

Analysis of mutations at positions 115 and 116 in the dNTP binding site of HIV-1 reverse transcriptase.

S. Sarafianos, P. Boyer, S. Hughes, 2000, Proceedings of the National Academy of Sciences of the United States of America.

S. Sarafianos, S. Hughes, E. Arnold, 1999, Journal of molecular biology.

What is the orientation of DNA polymerases on their templates?

S. Hughes, E. Arnold, S. L. Le Grice, 1996, Journal of virology.

Cassette mutagenesis of the reverse transcriptase of human immunodeficiency virus type 1

P. Boyer, S. Hughes, A. Ferris, 1992, Journal of virology.

Isolation and characterization of the chicken c-sno gene.

P. Boyer, S. Hughes, I. Givol, 1995, Gene.

Replication-competent retrovirus vectors for the transfer and expression of gene cassettes in avian cells

S. Hughes, C. Petropoulos, 1991, Journal of virology.

Mutations of a Residue within the Polyproline-Rich Region of Env Alter the Replication Rate and Level of Cytopathic Effects in Chimeric Avian Retroviral Vectors

S. Hughes, A. Ferris, Kevin W. Chang, 2005, Journal of Virology.

The chicken skeletal muscle alpha-actin promoter is tissue specific in transgenic mice

S. Hughes, N. Copeland, N. Jenkins, 1989, Molecular and cellular biology.

Mutation of Amino Acids in the Connection Domain of Human Immunodeficiency Virus Type 1 Reverse Transcriptase That Contact the Template-Primer Affects RNase H Activity

S. Sarafianos, S. Hughes, E. Arnold, 2003, Journal of Virology.

Mutations in the 5 (cid:2) End of the Human Immunodeﬁciency Virus Type 1 Polypurine Tract Affect RNase H Cleavage Speciﬁcity and Virus Titer

S. Sarafianos, S. Hughes, J. G. Julias, 2003 .

Mutations in the 5′ End of the Human Immunodeficiency Virus Type 1 Polypurine Tract Affect RNase H Cleavage Specificity and Virus Titer

S. Sarafianos, S. Hughes, E. Arnold, 2003, Journal of Virology.

Restriction endonuclease mapping of the DNA of Rous-associated virus O reveals extensive homology in structure and sequence with avian sarcoma virus DNA.

H. Varmus, S. Hughes, P. Shank, 1981, Virology.

Gene localization by chromosome fractionation: globin genes are on at least two chromosomes and three estrogen-inducible genes are on three chromosomes.

J. D. Engel, H. Varmus, J. Dodgson, 1979, Proceedings of the National Academy of Sciences of the United States of America.

The calanolides, a novel HIV-inhibitory class of coumarin derivatives from the tropical rainforest tree, Calophyllum lanigerum.

K. Gustafson, M. Boyd, S. Hughes, 1992, Journal of medicinal chemistry.

Early Emergence and Long-Term Persistence of HIV-Infected T-Cell Clones in Children

S. Hughes, J. Mellors, J. Coffin, 2021, mBio.

Early Emergence and Long-Term Persistence of HIV-Infected T Cell Clones in Children

S. Hughes, J. Mellors, J. Coffin, 2020, bioRxiv.

Adaptation of Chimeric Retroviruses In Vitro and In Vivo: Isolation of Avian Retroviral Vectors with Extended Host Range

S. Hughes, W. Payne, E. Barsov, 2001, Journal of Virology.

HRP2 determines the efficiency and specificity of HIV-1 integration in LEDGF/p75 knockout cells but does not contribute to the antiviral activity of a potent LEDGF/p75-binding site integrase inhibitor

A. Engelman, S. Hughes, Steven J Smith, 2012, Nucleic acids research.

Replication of avian leukosis viruses with mutations at the primer binding site: use of alternative tRNAs as primers

S. Hughes, J. Whitcomb, B. Ortiz‐Conde, 1995, Journal of virology.

Combined HIV-1 sequence and integration site analysis informs viral dynamics and allows reconstruction of replicating viral ancestors

Michele D. Sobolewski, Wei-Shau Hu, S. Hughes, 2019, Proceedings of the National Academy of Sciences.

Transgenic chickens: insertion of retroviral genes into the chicken germ line.

S. Hughes, S. Wright, E. Smith, 1987, Virology.

Regulation of c-ski transgene expression in developing and mature mice

S. Hughes, P. Sutrave, D. P. Lana, 1995, The Journal of neuroscience : the official journal of the Society for Neuroscience.

Multiple alpha and beta tubulin genes represent unlinked and dispersed gene families.

H. Varmus, M. Kirschner, S. Hughes, 1981, The Journal of biological chemistry.

Discovery of Novel Inhibitors of HIV‐1 Reverse Transcriptase Through Virtual Screening of Experimental and Theoretical Ensembles

J Andrew McCammon, Stephen H Hughes, Anthony Ivetac, 2014, Chemical biology & drug design.

HIV-1 and HIV-2 Reverse Transcriptases: Different Mechanisms of Resistance to Nucleoside Reverse Transcriptase Inhibitors

P. Boyer, P. Clark, S. Hughes, 2012, Journal of Virology.

Appropriate in vivo expression of a muscle-specific promoter by using avian retroviral vectors for gene transfer [corrected]

S. Hughes, C. Petropoulos, W. Payne, 1992, Journal of virology.

Isolation, identification and characterization of the FUN12 gene of Saccharomyces cerevisiae.

B. Shafer, J. Strathern, S. Hughes, 1994, Gene.

Generation of skeletal, smooth and low molecular weight non-muscle tropomyosin isoforms from the chicken tropomyosin 1 gene.

S. Hughes, N. Maihle, S. Forry-Schaudies, 1990, Journal of molecular biology.

Mutagenesis in Escherichia coli by three O6-substituted guanines in double-stranded or gapped plasmids.

S. Hughes, R. Moschel, G. Pauly, 1995, Biochemistry.

Sequence of the Circle Junction of Human Immunodeficiency Virus Type 1: Implications for Reverse Transcription and Integration

R. Kumar, S. Hughes, J. Whitcomb, 1990, Journal of virology.

Mutational analysis of the ribonuclease H activity of human immunodeficiency virus 1 reverse transcriptase.

S. Hughes, M. Shaharabany, A. Hizi, 1990, Virology.

Effects of small insertions on the RNA-dependent DNA polymerase activity of HIV-1 reverse transcriptase.

S. Hughes, A. Hizi, A. Barber, 1989, Virology.

Expression of soluble, enzymatically active, human immunodeficiency virus reverse transcriptase in Escherichia coli and analysis of mutants.

S. Hughes, A. Hizi, C. McGill, 1988, Proceedings of the National Academy of Sciences of the United States of America.

DNA methylation and oncogene expression in methapyrilene‐induced rat liver tumors and in treated hepatocytes in culture

S. Hughes, C. Petropoulos, W. Lijinsky, 1991, Molecular carcinogenesis.

Regulation of chicken α and β actin genes and their hybrids inserted into myogenic mouse cells

S. Hughes, N. Davidson, T. Kost, 1989 .

Reduced Genotoxicity of Avian Sarcoma Leukosis Virus Vectors in Rhesus Long-term Repopulating Cells Compared to Standard Murine Retrovirus Vectors.

T. Wolfsberg, G. Renaud, S. Hughes, 2008, Molecular therapy : the journal of the American Society of Gene Therapy.

Identification of clones that encode chicken tropomyosin by direct immunological screening of a cDNA expression library.

D. Helfman, J. Fiddes, S. Hughes, 1983, Proceedings of the National Academy of Sciences of the United States of America.

Mutations in the U5 Sequences Adjacent to the Primer Binding Site Do Not Affect tRNA Cleavage by Rous Sarcoma Virus RNase H but Do Cause Aberrant Integrations In Vivo

S. Hughes, Jangsuk Oh, Kevin W. Chang, 2006, Journal of Virology.

Psychotrine and its O-methyl ether are selective inhibitors of human immunodeficiency virus-1 reverse transcriptase.

S. Hughes, G. Tan, J. Pezzuto, 1991, The Journal of biological chemistry.

Molecular analysis of 06-substituted guanine-induced mutagenesis

M. Barbacid, S. Hughes, G. Pauly, 2004 .

Isolation and characterization of three distinct cDNAs for the chicken c-ski gene

S. Hughes, P. Sutrave, Stephen H. Hughes, 1989, Molecular and cellular biology.

Isolation and characterization of related cDNA clones encoding skeletal muscle beta-tropomyosin and a low-molecular-weight nonmuscle tropomyosin isoform

C. Gruber, S. Hughes, J. Bradac, 1989, Molecular and cellular biology.

Two Coselected Distal Mutations in HIV-1 Reverse Transcriptase (RT) Alter Susceptibility to Nonnucleoside RT Inhibitors and Nucleoside Analogs

P. Boyer, P. Clark, S. Hughes, 2019, Journal of Virology.

HIV-1 Reverse Transcriptase Structures

S. Hughes, E. Arnold, K. Das, 2013 .

The effects of RNase H inhibitors and nevirapine on the susceptibility of HIV-1 to AZT and 3TC.

S. Hughes, M. Parniak, C. Davis, 2011, Virology.

HIV-1 reverse transcriptase structure with RNase H inhibitor dihydroxy benzoyl naphthyl hydrazone bound at a novel site.

Jennifer L. Knight, A. D. Clark, R. Levy, 2006, ACS chemical biology.

Effects of Mutations in the G Tract of the Human Immunodeficiency Virus Type 1 Polypurine Tract on Virus Replication and RNase H Cleavage

S. Sarafianos, S. Hughes, E. Arnold, 2004, Journal of Virology.

Mutation of the Catalytic Domain of the Foamy Virus Reverse Transcriptase Leads to Loss of Processivity and Infectivity

P. Boyer, S. Hughes, M. Linial, 2002, Journal of Virology.

Cross-Linking of the Fingers Subdomain of Human Immunodeficiency Virus Type 1 Reverse Transcriptase to Template-Primer

P. Boyer, P. Clark, D. Jerina, 2001, Journal of Virology.

Molecular matchmaking: NNRTIs can enhance the dimerization of HIV type 1 reverse transcriptase

S. Hughes, 2001, Proceedings of the National Academy of Sciences of the United States of America.

Subunit-specific mutagenesis of the cysteine 280 residue of the reverse transcriptase of human immunodeficiency virus type 1: effects on sensitivity to a specific inhibitor of the RNase H activity

P. Boyer, S. Hughes, A. Hizi, 1997, Journal of virology.

Nucleoside-analogue resistance involves the p66 subunit of HIV-1 RT

P. Boyer, S. Hughes, 1996, Nature Structural Biology.

Analysis of mutations at position 184 in reverse transcriptase of human immunodeficiency virus type 1

P. Boyer, S. Hughes, Stephen H. Hughes, 1995, Antimicrobial agents and chemotherapy.

Subunit specificity of mutations that confer resistance to nonnucleoside inhibitors in human immunodeficiency virus type 1 reverse transcriptase

P. Boyer, S. Hughes, E. Arnold, 1994, Antimicrobial Agents and Chemotherapy.

The catalytic properties of the reverse transcriptase of the lentivirus equine infectious anemia virus.

P. Clark, S. Hughes, M. Shaharabany, 1994, European journal of biochemistry.

PCR ampliﬁcation of DNA containing non-standard base pairs by variants of reverse transcriptase from Human Immunodeﬁciency Virus-1

S. Benner, P. Boyer, S. Hughes, 2022 .

Crystals of a ternary complex of human immunodeficiency virus type 1 reverse transcriptase with a monoclonal antibody Fab fragment and double-stranded DNA diffract x-rays to 3.5-A resolution.

A. D. Clark, P. Clark, S. Hughes, 1991, Proceedings of the National Academy of Sciences of the United States of America.

Comparison of inhibitory activities of various antiretroviral agents against particle-derived and recombinant human immunodeficiency virus type 1 reverse transcriptases

S. Hughes, R. Schinazi, B. Eriksson, 1989, Antimicrobial Agents and Chemotherapy.

The effects of cysteine mutations on the reverse transcriptases of human immunodeficiency virus types 1 and 2.

S. Hughes, M. Shaharabany, A. Hizi, 1992, The Journal of biological chemistry.

Helper-independent retrovirus vectors with Rous-associated virus type O long terminal repeats

S. Hughes, C. Petropoulos, L. Crittenden, 1988, Journal of virology.

Redesignation of the RNase D activity associated with retroviral reverse transcriptase as RNase H

S. Hughes, S. Goff, S. L. Le Grice, 1994, Journal of virology.

Overexpression of p21waf1/cip1 arrests the growth of chicken embryo fibroblasts that overexpress E2F1

S. Hughes, D. Givol, I. Givol, 1998, Oncogene.

Roles of viral and cellular proteins in the expression of alternatively spliced HTLV-1 pX mRNAs.

S. Hughes, D. Derse, J. G. Julias, 2003, Virology.

Tropomyosin isoforms in chicken embryo fibroblasts: purification, characterization, and changes in Rous sarcoma virus-transformed cells

D. Helfman, S. Hughes, J. Lin, 1985, The Journal of cell biology.

A new PCR based method for the generation of nested deletions.

S. Hughes, J. Whitcomb, A. Rashtchian, 1993, Nucleic acids research.

Design of retroviral vectors for the insertion of foreign deoxyribonucleic acid sequences into the avian germ line.

S. Hughes, A. Fadly, L. Crittenden, 1986, Poultry science.

Sequence of the Long Terminal Repeat and Adjacent Segments of the Endogenous Avian Virus Rous-Associated Virus 0

S. Hughes, 1982, Journal of virology.

Mutations in the RNase H domain of HIV-1 reverse transcriptase affect the initiation of DNA synthesis and the specificity of RNase H cleavage in vivo

S. Sarafianos, S. Hughes, E. Arnold, 2002, Proceedings of the National Academy of Sciences of the United States of America.

Remarkable homology among the internal repeats of erythroid and nonerythroid spectrin.

D. Helfman, S. Hughes, D. Bodine, 1985, Proceedings of the National Academy of Sciences of the United States of America.

Yeast super-suppressors are altered tRNAs capable of translating a nonsense codon in vitro

G. Wahl, M. Capecchi, S. Hughes, 1975, Cell.

Comparative analysis of the structure and function of the chicken c-myc and v-myc genes: v-myc is a more potent inducer of cell proliferation and apoptosis than c-myc.

S. Hughes, C. Petropoulos, I. Givol, 1996, Oncogene.

Use of antibodies to screen cDNA expression libraries prepared in plasmid vectors.

D. Helfman, S. Hughes, 1987, Methods in Enzymology.

Identification and Isolation of Clones by Immunological Screening of cDNA Expression Libraries

D. Helfman, J. Fiddes, S. Hughes, 1985 .

Synthesis and Biological Activity of Novel Nonnucleoside Inhibitors of HIV‐1 Reverse Transcriptase. 2‐Aryl‐Substituted Benzimidazoles.

P. Boyer, S. Hughes, C. Michejda, 1998 .

Multiple Sources of Contamination in Samples from Patients Reported to Have XMRV Infection

S. Hughes, J. Mellors, J. Coffin, 2012, PloS one.

Mechanisms of HIV-1 Integrase Resistance to Dolutegravir and Potent Inhibition of Drug Resistant Variants

S. Hughes, Steven J Smith, A. Haldane, 2022, bioRxiv.

Isolation of cDNA clones and genomic DNA clones of beta-subunit of chicken prolyl 4-hydroxylase.

S. Hughes, W. Kao, C. Kao, 1988, Connective tissue research.

The history of N-methanocarbathymidine: the investigation of a conformational concept leads to the discovery of a potent and selective nucleoside antiviral agent.

S. Hughes, S. Sei, V. Marquez, 2006, Antiviral research.

Construction and Characterization of a Replication-Competent Retroviral Shuttle Vector Plasmid

S. Hughes, Jangsuk Oh, A. Ferris, 2002, Journal of Virology.

The replication of subgroup E avian retroviruses is blocked at or before viral DNA synthesis in restrictive chicken cells.

H. Varmus, S. Hughes, J. Bishop, 1979, Virology.

Sulfonic acid polymers are potent inhibitors of HIV-1 induced cytopathogenicity and the reverse transcriptases of both HIV-1 and HIV-2.

S. Hughes, G. Tan, J. Pezzuto, 1993, Biochimica et biophysica acta.

Immunologic and proteolytic analysis of HIV-1 reverse transcriptase structure.

L. Babe, C. Craik, S. Hughes, 1990, Virology.

Gene insertion into the chicken germ line by retroviruses.

S. Hughes, S. Wright, E. Smith, 1986, Poultry science.

Crystallography and the design of anti-AIDS drugs: conformational flexibility and positional adaptability are important in the design of non-nucleoside HIV-1 reverse transcriptase inhibitors.

Stephen H Hughes, Paul J Lewi, Eddy Arnold, 2005, Progress in biophysics and molecular biology.

Rilpivirine analogs potently inhibit drug-resistant HIV-1 mutants

S. Hughes, Steven J Smith, D. Maloney, 2016, Retrovirology.

Mechanisms of HIV-1 Integrase Resistance to Dolutegravir and Potent Inhibition of Drug Resistant Variants

S. Hughes, Steven J Smith, A. Haldane, 2023, bioRxiv.

In vitro analysis of the effects of mutations in the G-tract of the human immunodeficiency virus type 1 polypurine tract on RNase H cleavage specificity.

S. Hughes, F. Jones, 2007, Virology.

Altering the RNase H primer grip of human immunodeficiency virus reverse transcriptase modifies cleavage specificity.

S. Hughes, S. L. Le Grice, Jennifer T. Miller, 2002, Biochemistry.

Replication of Phenotypically Mixed Human Immunodeficiency Virus Type 1 Virions Containing Catalytically Active and Catalytically Inactive Reverse Transcriptase

P. Boyer, S. Hughes, A. Ferris, 2001, Journal of Virology.

Crystal structures of clinically relevant Lys103Asn/Tyr181Cys double mutant HIV-1 reverse transcriptase in complexes with ATP and non-nucleoside inhibitor HBY 097.

A. D. Clark, S. Sarafianos, P. Boyer, 2007, Journal of molecular biology.

High-resolution structures of HIV-1 reverse transcriptase/TMC278 complexes: Strategic flexibility explains potency against resistance mutations

Stephen H Hughes, Paul J Lewi, Eddy Arnold, 2008, Proceedings of the National Academy of Sciences.

A novel mechanism for inhibition of HIV-1 reverse transcriptase.

Irwin D Kuntz, Stephen H Hughes, Robert J Fisher, 2002, Bioorganic chemistry.

Crystal structures of 8-Cl and 9-Cl TIBO complexed with wild-type HIV-1 RT and 8-Cl TIBO complexed with the Tyr181Cys HIV-1 RT drug-resistant mutant.

A. D. Clark, Jianping Ding, R. Pauwels, 1996, Journal of molecular biology.

Review of HIV-1 reverse transcriptase three-dimensional structure : implications for drug design

Jianping Ding, S. Hughes, E. Arnold, 1993 .

The ultrastructure and receptor transduction mechanisms of dentine.

S. Hughes, B. Matthews, 1988, Progress in brain research.

Synthesis, chromatographic resolution, and anti-human immunodeficiency virus activity of (+/-)-calanolide A and its enantiomers.

S. Hughes, J. Pezzuto, T. Pengsuparp, 1996, Journal of medicinal chemistry.

Synthesis and biological activity of novel nonnucleoside inhibitors of HIV-1 reverse transcriptase. 2-Aryl-substituted benzimidazoles.

P. Boyer, S. Hughes, C. Michejda, 1997, Journal of medicinal chemistry.

Synthesis, Chromatographic Resolution, and Anti‐Human Immunodeficiency Virus Activity of (.+‐.)‐Calanolide A and Its Enantiomers.

Wei Chen, S. Hughes, J. Pezzuto, 1996 .

Synthesis, biological activity, and crystal structure of potent nonnucleoside inhibitors of HIV-1 reverse transcriptase that retain activity against mutant forms of the enzyme.

S. Hughes, E. Arnold, K. Das, 2007, Journal of medicinal chemistry.

Examination of halogen substituent effects on HIV-1 integrase inhibitors derived from 2,3-dihydro-6,7-dihydroxy-1H-isoindol-1-ones and 4,5-dihydroxy-1H-isoindole-1,3(2H)-diones.

Stephen H Hughes, Yves Pommier, Xue Zhi Zhao, 2009, Bioorganic & medicinal chemistry letters.

HIV inhibitory natural products. Part 7. The calanolides, a novel HIV-inhibitory class of coumarin derivatives from the tropical rainforest tree, Calophyllum lanigerum. [Erratum to document cited in CA117(11):108101g]

K. Gustafson, M. Boyd, S. Hughes, 1993 .

Specific inhibition of human immunodeficiency virus type 1 reverse transcriptase mediated by soulattrolide, a coumarin isolated from the latex of calophyllum teysmannii.

S. Hughes, J. Pezzuto, D. Soejarto, 1996, Journal of natural products.

Resistance to 1-[(2-hydroxyethoxy)methyl]-6-(phenylthio)thymine derivatives is generated by mutations at multiple sites in the HIV-1 reverse transcriptase.

P. Boyer, S. Hughes, O. Weislow, 1995, Virology.

Specific inhibition of the reverse transcriptase of human immunodeficiency virus type 1 and the chimeric enzymes of human immunodeficiency virus type 1 and type 2 by nonnucleoside inhibitors

M. Boyd, S. Hughes, M. Shaharabany, 1993, Antimicrobial Agents and Chemotherapy.

HIV Inhibitory Natural Products. Part 7. The Calanolides, a Novel HIV‐ Inhibitory Class of Coumarin Derivatives from the Tropical Rainforest Tree, Calophyllum lanigerum.

M. Boyd, S. Hughes, R. Fuller, 1992 .

Targeting HIV reverse transcriptase for anti-AIDS drug design: structural and biological considerations for chemotherapeutic strategies.

Jianping Ding, P. Boyer, S. Hughes, 1996, Drug design and discovery.

6,7-Dihydroxyisoindolin-1-one and 7,8-Dihydroxy-3,4-Dihydroisoquinolin- 1(2H)-one Based HIV-1 Integrase Inhibitors.

Y. Pommier, S. Hughes, Steven J Smith, 2015, Current topics in medicinal chemistry.

HIV-1 reverse transcription.

Wei-Shau Hu, S. Hughes, 2012, Cold Spring Harbor perspectives in medicine.

Lamivudine (3TC) resistance in HIV-1 reverse transcriptase involves steric hindrance with beta-branched amino acids.

A. D. Clark, Jianping Ding, S. Sarafianos, 1999, Proceedings of the National Academy of Sciences of the United States of America.

In vitro anti-HIV activity of biflavonoids isolated from Rhus succedanea and Garcinia multiflora.

R F Schinazi, J M Pezzuto, S. Hughes, 1997, Journal of natural products.

Evaluation of natural products as inhibitors of human immunodeficiency virus type 1 (HIV-1) reverse transcriptase.

J M Pezzuto, S. Hughes, G. Tan, 1991, Journal of natural products.

Structures of HIV‐1 reverse transcriptase with pre‐ and post‐translocation AZTMP‐terminated DNA

A. D. Clark, S. Tuske, S. Sarafianos, 2002, The EMBO journal.

Experimentally introduced defective endogenous proviruses are highly expressed in chickens

S. Hughes, M. Federspiel, L. Crittenden, 1991, Journal of virology.

Adaptor plasmids simplify the insertion of foreign DNA into helper-independent retroviral vectors

S. Hughes, C. Petropoulos, P. Sutrave, 1987, Journal of virology.

Soluble Forms of the Subgroup A Avian Leukosis Virus [ALV(A)] Receptor Tva Significantly Inhibit ALV(A) Infection In Vitro and In Vivo

J. Dodgson, S. Hughes, S. Holmen, 1999, Journal of Virology.

Studies of the Genomic RNA of Leukosis Viruses: Implications for RNA Dimerization

S. Hughes, B. Ortiz‐Conde, 1999, Journal of Virology.

Expression of avian reticuloendotheliosis virus envelope confers host resistance.

S. Hughes, M. Federspiel, L. Crittenden, 1989, Virology.

Integration of avian sarcoma virus DNA in chicken cells.

H. Varmus, S. Hughes, P. Vogt, 1981, Virology.

Heterogeneity of genetic loci in chickens: analysis of endogenous viral and nonviral genes by cleavage of DNA with restriction endonucleases

H. Varmus, S. Hughes, G. Payne, 1979, Cell.

Retroviral reverse transcription and integration: progress and problems.

S. Hughes, J. Whitcomb, S H Hughes, 1992, Annual review of cell biology.

Avian bic, a Gene Isolated from a Common Retroviral Site in Avian Leukosis Virus-Induced Lymphomas That Encodes a Noncoding RNA, Cooperates with c-myc in Lymphomagenesis and Erythroleukemogenesis

W. S. Hayward, S. Hughes, W. Tam, 2002, Journal of Virology.

Vitro and In Vivo Significantly Inhibit ALV(A) Infection In Leukosis Virus (ALV(A)) Receptor Tva Soluble Forms of the Subgroup A Avian

S. Hughes, S. Holmen, M. Federspiel, 2014 .

Retrovirus Vectors fortheTransfer and Expression ofGeneCassettes inAvianCells

S. Hughes, C. Petropoulos, 1991 .

Mapping unintegrated avian sarcoma virus DNA: Termini of linear DNA bear 300 nucleotides present once or twice in two species of circular DNA

H. Varmus, S. Hughes, H. Kung, 1978, Cell.

Endogenous proviruses of random-bred chickens and ring-necked pheasants: analysis with restriction endonucleases.

H. Varmus, S. Hughes, P. Vogt, 1981, Virology.

Organization of endogenous and exogenous viral and linked nonviral sequences.

H. Varmus, S. Hughes, P. Vogt, 1980, Cold Spring Harbor symposia on quantitative biology.

Structure of viral DNA and RNA in mammalian cells infected with avian sarcoma virus.

H. Varmus, S. Hughes, J. Bishop, 1980, Journal of molecular biology.

Mutagenesis of the region between env and src of the SR-A strain of Rous sarcoma virus for the purpose of constructing helper-independent vectors.

S. Hughes, E. Kosik, 1984, Virology.

cis-Acting RNA packaging locus in the 115-nucleotide direct repeat of Rous sarcoma virus

S. Hughes, J. Sorge, W. Ricci, 1983, Journal of virology.

A system for tissue-specific gene targeting: transgenic mice susceptible to subgroup A avian leukosis virus-based retroviral vectors.

H. Varmus, S. Hughes, P. Bates, 1994, Proceedings of the National Academy of Sciences of the United States of America.

Effects of the gag region on genome stability: avian retroviral vectors that contain sequences from the Bryan strain of Rous sarcoma virus.

S. Hughes, M. Federspiel, 1994, Virology.

Mutants of Rous sarcoma virus with extensive deletions of the viral genome.

H. Varmus, S. Hughes, G. Martin, 1979, Virology.

Proviral-activated c-erbB is leukemogenic but not sarcomagenic: characterization of a replication-competent retrovirus containing the activated c-erbB

S. Hughes, H. Kung, C. Moscovici, 1988, Journal of virology.

Gene transfer into mammalian cells by a Rous sarcoma virus-based retroviral vector with the host range of the amphotropic murine leukemia virus

S. Hughes, E. Barsov, 1996, Journal of virology.

Synthesis, integration, and transcription of the retroviral provirus.

S. Hughes, 1983, Current topics in microbiology and immunology.

The nucleotide sequence of the chick cytoplasmic β-actin gene

S. Hughes, T. Kost, N. Theodorakis, 1983 .

The nucleotide sequence of the chick cytoplasmic beta-actin gene.

S. Hughes, T. Kost, N. Theodorakis, 1983, Nucleic acids research.

Mouse papillomavirus type 1 (MmuPV1) DNA is frequently integrated in benign tumors by microhomology-mediated end-joining

S. Hughes, Xiongfong Chen, P. Lambert, 2021, PLoS pathogens.

Expression of virally transduced mouse tyrosinase in tyrosinase-negative chick embryo melanocytes in culture.

S. Hughes, H. Yamamoto, J. Brumbaugh, 1989, Pigment cell research.

Structural and Functional Analyses of the Second-Generation Integrase Strand Transfer Inhibitor Dolutegravir (S/GSK1349572)

Yves Pommier, Stephen H. Hughes, Y. Pommier, 2011, Molecular Pharmacology.

Developing and Evaluating Inhibitors against the RNase H Active Site of HIV-1 Reverse Transcriptase

P. Boyer, S. Hughes, E. Arnold, 2018, Journal of Virology.

The expression of mouse tyrosinase in chick cells in vitro and in vivo when controlled by a constitutive promoter.

S. Hughes, H. Yamamoto, W. Payne, 1992, Pigment cell research.

Tissue-specific expression of mouse tyrosinase gene in cultured chicken cells.

S. Hughes, H. Yamamoto, M. Federspiel, 1994, Experimental cell research.

Reprogramming human T cell function and specificity with non-viral genome targeting

A. Ashworth, A. May, J. Weissman, 2017, bioRxiv.

The nucleoside analogs 4'C-methyl thymidine and 4'C-ethyl thymidine block DNA synthesis by wild-type HIV-1 RT and excision proficient NRTI resistant RT variants.

P. Boyer, S. Hughes, Z. Ambrose, 2007, Journal of molecular biology.

Fixed conformation nucleoside analogs effectively inhibit excision-proficient HIV-1 reverse transcriptases.

P. Boyer, S. Hughes, V. Marquez, 2005, Journal of molecular biology.

A 4'-C-ethynyl-2',3'-dideoxynucleoside analogue highlights the role of the 3'-OH in anti-HIV active 4'-C-ethynyl-2'-deoxy nucleosides.

C. George, P. Boyer, S. Hughes, 2004, Journal of medicinal chemistry.

Structure and functional implications of the polymerase active site region in a complex of HIV-1 RT with a double-stranded DNA template-primer and an antibody Fab fragment at 2.8 A resolution.

A. D. Clark, Jianping Ding, S. Sarafianos, 1998, Journal of molecular biology.

North‐ and South‐Bicyclo[3.1.0]Hexene Nucleosides: The Effect of Ring Planarity on Anti‐HIV Activity

J. Deschamps, S. Hughes, M. González-Moa, 2009, ChemMedChem.

4′-C-Methyl-2′-Deoxyadenosine and 4′-C-Ethyl-2′-Deoxyadenosine Inhibit HIV-1 Replication

P. Boyer, S. Hughes, V. Marquez, 2011, Antimicrobial Agents and Chemotherapy.

The nucleoside analogue D-carba T blocks HIV-1 reverse transcription.

P. Boyer, S. Hughes, Chenzhong Liao, 2009, Journal of medicinal chemistry.

Mutations at position 184 of human immunodeficiency virus type-1 reverse transcriptase affect virus titer and viral DNA synthesis.

P. Boyer, S. Hughes, W. Alvord, 2004, Virology.

The M184V Mutation Reduces the Selective Excision of Zidovudine 5′-Monophosphate (AZTMP) by the Reverse Transcriptase of Human Immunodeficiency Virus Type 1

S. Sarafianos, P. Boyer, S. Hughes, 2002, Journal of Virology.

Selective Excision of AZTMP by Drug-Resistant Human Immunodeficiency Virus Reverse Transcriptase

S. Sarafianos, P. Boyer, S. Hughes, 2001, Journal of Virology.

D‐(+)‐iso‐Methanocarbathymidine: a High‐Affinity Substrate for Herpes Simplex Virus 1 Thymidine Kinase

P. Boyer, S. Hughes, Chenzhong Liao, 2008, ChemMedChem.

Effects of the Δ67 Complex of Mutations in Human Immunodeficiency Virus Type 1 Reverse Transcriptase on Nucleoside Analog Excision

S. Sarafianos, P. Boyer, S. Hughes, 2004, Journal of Virology.

Designing anti-AIDS drugs targeting the major mechanism of HIV-1 RT resistance to nucleoside analog drugs.

S. Sarafianos, S. Hughes, E. Arnold, 2004, The international journal of biochemistry & cell biology.

Nucleoside Analog Resistance Caused by Insertions in the Fingers of Human Immunodeficiency Virus Type 1 Reverse Transcriptase Involves ATP-Mediated Excision

S. Sarafianos, P. Boyer, S. Hughes, 2002, Journal of Virology.

Why Do HIV-1 and HIV-2 Use Different Pathways to Develop AZT Resistance?

S. Sarafianos, P. Boyer, P. Clark, 2006, PLoS pathogens.

Molecular Dynamics Approaches Estimate the Binding Energy of HIV-1 Integrase Inhibitors and Correlate with In Vitro Activity

Yves Pommier, Stephen H. Hughes, Y. Pommier, 2011, Antimicrobial Agents and Chemotherapy.

Mutational analysis of the fingers and palm subdomains of human immunodeficiency virus type-1 (HIV-1) reverse transcriptase.

P. Boyer, P. Clark, S. Hughes, 1994, Journal of molecular biology.

The role of steric hindrance in 3TC resistance of human immunodeficiency virus type-1 reverse transcriptase.

S. Sarafianos, P. Boyer, S. Hughes, 2000, Journal of molecular biology.

Touching the heart of HIV-1 drug resistance: the fingers close down on the dNTP at the polymerase active site.

S. Sarafianos, P. Boyer, S. Hughes, 1999, Chemistry & biology.

Sarafianos, S.G. et al. Lamivudine (3TC) resistance in HIV-1 reverse transcriptase involves steric hindrance with -branched amino acids. Proc. Natl. Acad. Sci. USA 96, 10027-10032

A. D. Clark, Jianping Ding, S. Sarafianos, 1999 .

YADD Mutants of Human Immunodeficiency Virus Type 1 and Moloney Murine Leukemia Virus Reverse Transcriptase Are Resistant to Lamivudine Triphosphate (3TCTP) In Vitro

S. Sarafianos, P. Boyer, P. Clark, 2001, Journal of Virology.

Mutations in the U5 Region Adjacent to the Primer Binding Site Affect tRNA Cleavage by Human Immunodeficiency Virus Type 1 Reverse Transcriptase In Vivo

S. Hughes, Jangsuk Oh, J. G. Julias, 2007, Journal of Virology.

A conformationally locked analogue of the anti-HIV agent stavudine. An important correlation between pseudorotation and maximum amplitude.

Jan Balzarini, Stephen H Hughes, Clifford George, 2003, Journal of medicinal chemistry.

Trapping HIV-1 Reverse Transcriptase Before and After Translocation on DNA*

A. D. Clark, S. Tuske, S. Sarafianos, 2003, The Journal of Biological Chemistry.

A Combination of Amino Acid Mutations Leads to Resistance to Multiple Nucleoside Analogs in Reverse Transcriptases from HIV-1 Subtypes B and C

P. Boyer, P. Clark, S. Hughes, 2021, Antimicrobial agents and chemotherapy.

Structural basis of HIV-1 resistance to AZT by excision

Roger A. Jones, A. D. Clark, S. Sarafianos, 2010, Nature Structural &Molecular Biology.

Structural Basis for the Role of the K65R Mutation in HIV-1 Reverse Transcriptase Polymerization, Excision Antagonism, and Tenofovir Resistance*

Roger A. Jones, A. D. Clark, S. Tuske, 2009, The Journal of Biological Chemistry.

Integrase Strand Transfer Inhibitors Are Effective Anti-HIV Drugs

S. Hughes, D. Lyumkis, D. Passos, 2021, Viruses.

The pseudouridine content of HeLa cell ribosomal RNA

S. Hughes, B. Maden, D. G. Hughes, 1976, FEBS letters.

Polypurine tract adjacent to the U3 region of the Rous sarcoma virus genome provides a cis-acting function

S. Hughes, J. Sorge, 1982, Journal of virology.

Comparison of mutagenesis by O6-methyl- and O6-ethylguanine and O4-methylthymine in Escherichia coli using double-stranded and gapped plasmids.

S. Hughes, R. Moschel, G. Pauly, 1998, Carcinogenesis.

A sectored colony assay for monitoring mutagenesis by specific carcinogen-DNA adducts in Escherichia coli.

S. Hughes, R. Moschel, G. Pauly, 1991, Biochemistry.

Structure of HIV-1 reverse transcriptase/DNA complex at 7 Å resolution showing active site locations

A. D. Clark, Jianping Ding, Roger L. Williams, 1992, Nature.

Selective degradation of abnormal proteins in mammalian tissue culture cells.

G. Wahl, M. Capecchi, S. Hughes, 1974, Proceedings of the National Academy of Sciences of the United States of America.

Molecular analysis of O6-substituted guanine-induced mutagenesis of ras oncogenes.

R. Kumar, S. Hughes, R. Moschel, 1989, Proceedings of the National Academy of Sciences of the United States of America.

Site-directed mutagenic analysis of viral polymerases and related proteins.

P. Boyer, S. Hughes, Stephen H. Hughes, 1996, Methods in enzymology.

Drug resistant integrase mutants cause aberrant HIV integrations

S. Hughes, Craig J. Thomas, B. Mott, 2016, Retrovirology.

Nature, Position, and Frequency of Mutations Made in a Single Cycle of HIV-1 Replication

S. Hughes, W. Alvord, A. Ferris, 2010, Journal of Virology.

The Effects of Alternate Polypurine Tracts (PPTs) and Mutations of Sequences Adjacent to the PPT on Viral Replication and Cleavage Specificity of the Rous Sarcoma Virus Reverse Transcriptase

S. Hughes, W. Alvord, Jangsuk Oh, 2008, Journal of Virology.

Effects of mutations in the polymerase domain on the polymerase, RNase H and strand transfer activities of human immunodeficiency virus type 1 reverse transcriptase.

P. Boyer, S. Hughes, E. Arnold, 1998, Journal of molecular biology.

Truncating α-Helix E′ of p66 Human Immunodeficiency Virus Reverse Transcriptase Modulates RNase H Function and Impairs DNA Strand Transfer (*)

C. Cameron, S. Benkovic, S. Hughes, 1995, The Journal of Biological Chemistry.

Structures of DNA and RNA polymerases and their interactions with nucleic acid substrates.

S. Hughes, E. Arnold, J. Ding, 1995, Current opinion in structural biology.

Hybrid Ty1/HIV-1 elements used to detect inhibitors and monitor the activity of HIV-1 reverse transcriptase.

D. Garfinkel, J. Strathern, P. Boyer, 1998, Proceedings of the National Academy of Sciences of the United States of America.

HIV-1 reverse transcriptase: structure predictions for the polymerase domain.

J. Maizel, S. Hughes, A. Hizi, 1990, AIDS research and human retroviruses.

Characterization of the Polymerase and RNase H Activities of Human Foamy Virus Reverse Transcriptase

P. Boyer, P. Clark, S. Hughes, 2004, Journal of Virology.

In Vitro Analysis of Human Immunodeficiency Virus Type 1 Minus-Strand Strong-Stop DNA Synthesis and Genomic RNA Processing

S. Hughes, M. Golinelli, M. D. Driscoll, 2001, Journal of Virology.

Human Immunodeficiency Virus Type 1 Nucleocapsid Protein Can Prevent Self-Priming of Minus-Strand Strong Stop DNA by Promoting the Annealing of Short Oligonucleotides to Hairpin Sequences

S. Hughes, M. D. Driscoll, 2000, Journal of Virology.

A Mutation at Position 190 of Human Immunodeficiency Virus Type 1 Reverse Transcriptase Interacts with Mutations at Positions 74 and 75 via the Template Primer

P. Boyer, S. Hughes, Hong-Qiang Gao, 1998, Antimicrobial Agents and Chemotherapy.

Structure and functional implications of the polymerase active site region in a complex of HIV-1 RT with a double-stranded DNA template-primer and an antibody Fab fragment at 2.8 A resolution.

A. D. Clark, Jianping Ding, S. Sarafianos, 1998, Journal of molecular biology.

Protein-nucleic acid interactions and DNA conformation in a complex of human immunodeficiency virus type 1 reverse transcriptase with a double-stranded DNA template-primer.

Jianping Ding, S. Hughes, E. Arnold, 1997, Biopolymers.

Molecular modeling studies of HIV‐1 reverse transcriptase nonnucleoside inhibitors: Total energy of complexation as a predictor of drug placement and activity

Jianping Ding, P. Boyer, S. Hughes, 1995, Protein science : a publication of the Protein Society.

HIV-1 reverse transcriptase connection subdomain mutations reduce template RNA degradation and enhance AZT excision

V. Pathak, P. Boyer, S. Hughes, 2008, Proceedings of the National Academy of Sciences.

Enzymatic properties of two mutants of reverse transcriptase of human immunodeficiency virus type 1 (tyrosine 181-->isoleucine and tyrosine 188-->leucine), resistant to nonnucleoside inhibitors.

P. Boyer, S. Hughes, M. Bakhanashvili, 1994, AIDS research and human retroviruses.

HIV-1 and HIV-2 reverse transcriptases: a comparative study of sensitivity to inhibition by selected natural products.

S. Hughes, G. Tan, J. Pezzuto, 1992, Biochemical and biophysical research communications.

Mutational analysis of the DNA polymerase and ribonuclease H activities of human immunodeficiency virus type 2 reverse transcriptase expressed in Escherichia coli.

S. Hughes, A. Hizi, R. Tal, 1991, Virology.

Crystal Structure of a Retroviral Polyprotein: Prototype Foamy Virus Protease-Reverse Transcriptase (PR-RT)

S. Tuske, P. Boyer, S. Hughes, 2020, Viruses.

Crystal structure of prototype foamy virus (PFV) protease-reverse transcriptase fusion (PR-RT) reveals conformational plasticity: implications for function

S. Tuske, P. Boyer, S. Hughes, 2020, bioRxiv.

Foamy Retrovirus Integrase Contains a Pol Dimerization Domain Required for Protease Activation

P. Boyer, P. Clark, S. Hughes, 2010, Journal of Virology.

Efficacies of Cabotegravir and Bictegravir against drug-resistant HIV-1 integrase mutants

S. Hughes, T. Burke, X. Zhao, 2018, Retrovirology.

Efficacies of Cabotegravir and Bictegravir against drug-resistant HIV-1 integrase mutants

S. Hughes, T. Burke, X. Zhao, 2018, Retrovirology.

Analysis of amino acids in the beta7-beta8 loop of human immunodeficiency virus type 1 reverse transcriptase for their role in virus replication.

J. Kappes, S. Hughes, Alok Mulky, 2007, Journal of molecular biology.

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 Macaques

S. Hughes, J. Coffin, V. KewalRamani, 2004, Journal of Virology.

Resistance in Pigtail Macaques Transcriptase To Study Antiviral Expressing HIV Type 1 Reverse Immunodeficiency Virus ( HIV ) Chimera Immunodeficiency Virus-Human In Vitro Characterization of a Simian

S. Hughes, J. Coffin, V. KewalRamani, 2004 .

Analysis of HIV-2 RT mutants provides evidence that resistance of HIV-1 RT and HIV-2 RT to nucleoside analogs involves a repositioning of the template-primer.

S. Hughes, A. Hizi, T. Rubinek, 1997, Journal of molecular biology.

Engineering of a Histone-Recognition Domain in Dnmt3a Alters the Epigenetic Landscape and Phenotypic Features of Mouse ESCs.

Scott B. Dewell, D. Patel, C. Allis, 2015, Molecular cell.

Analysis of the HO-cleaved MAT DNA intermediate generated during the mating type switch in the yeast Saccharomyces cerevisiae.

B. Shafer, J. Strathern, S. Hughes, 1989, Molecular & general genetics : MGG.

Lens epithelium-derived growth factor fusion proteins redirect HIV-1 DNA integration

A. Engelman, C. Allis, S. Hughes, 2010, Proceedings of the National Academy of Sciences.

Chicken cardiac tropomyosin and a low-molecular-weight nonmuscle tropomyosin are related by alternative splicing.

C. Gruber, S. Hughes, S. Forry-Schaudies, 1990, Cell growth & differentiation : the molecular biology journal of the American Association for Cancer Research.

A human oncogene formed by the fusion of truncated tropomyosin and protein tyrosine kinase sequences

M. Barbacid, S. Hughes, D. Martín-Zanca, 1986, Nature.

Reverse-transcribed SARS-CoV-2 RNA can integrate into the genome of cultured human cells and can be expressed in patient-derived tissues

R. Young, R. Jaenisch, S. Hughes, 2021, Proceedings of the National Academy of Sciences.

The vertebrate homolog of the putative transforming gene of avian myelocytomatosis virus: characteristics of the DNA locus and its RNA transcript.

H. Varmus, S. Hughes, J. Bishop, 1980, Virology.

Reverse Transcription of Retroviruses and LTR Retrotransposons.

S. Hughes, 2015, Microbiology spectrum.

The Integrator complex controls the termination of transcription at diverse classes of gene targets

M. Pagano, M. Washburn, S. Hughes, 2015, Cell Research.

Isolation and sequence of a cDNA clone that contains the entire coding region for chicken smooth-muscle alpha-tropomyosin.

D. Helfman, S. Hughes, J. Feramisco, 1984, The Journal of biological chemistry.

An analytical pipeline for identifying and mapping the integration sites of HIV and other retroviruses

S. Hughes, J. Coffin, Xiaolin Wu, 2020, BMC Genomics.

Rous Sarcoma Virus (RSV) Integration In Vivo: a CA Dinucleotide Is Not Required in U3, and RSV Linear DNA Does Not Autointegrate

S. Hughes, W. Alvord, Jangsuk Oh, 2007, Journal of Virology.

Mutation of a termination codon affects src initiation

F. Tamanoi, S. Hughes, J. Brugge, 1984, Molecular and cellular biology.

INSTIs and NNRTIs Potently Inhibit HIV-1 Polypurine Tract Mutants in a Single Round Infection Assay

S. Hughes, J. Schneider, T. Burke, 2021, Viruses.

Splicing of intervening sequences introduced into an infectious retroviral vector.

S. Hughes, J. Sorge, 1982, Journal of molecular and applied genetics.

Explorer Distinct gene expression patterns in skeletal and cardiac muscle are dependent on common regulatory sequences in the MLC 1 / 3 locus

N. Rosenthal, S. Hughes, R. Kitsis, 2017 .

Placement of tRNA primer on the primer-binding site requires pol gene expression in avian but not murine retroviruses

W. Fu, S. Hughes, R. Gorelick, 1997, Journal of virology.

Distinct gene expression patterns in skeletal and cardiac muscle are dependent on common regulatory sequences in the MLC1/3 locus

N. Rosenthal, S. Hughes, R. Kitsis, 1996, Molecular and cellular biology.

Oncogenicity of DNA in vivo: tumor induction with expression plasmids for activated H-ras and c-myc.

S. Hughes, J. Coffin, D. Blair, 2008, Biologicals : journal of the International Association of Biological Standardization.

Transduction of rhesus macaque hematopoietic stem and progenitor cells with avian sarcoma and leukosis virus vectors.

S. Hughes, C. Dunbar, R. Donahue, 2007, Human gene therapy.

Integration in oncogenes plays only a minor role in determining the in vivo distribution of HIV integration sites before or during suppressive antiretroviral therapy

S. Hughes, J. Mellors, B. Luke, 2021, PLoS pathogens.

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

S. Hughes, J. Mellors, B. Luke, 2020, bioRxiv.

3. TECHNIQUES OF MOLECULAR BIOLOGY 3.1. Preparing recombinant proteins for X-ray crystallography

S. Hughes, Ann M Stock, 2006 .

Preparing recombinant proteins for X‐ray crystallography

S. Hughes, Ann M Stock, 2006 .

Human Immunodeficiency Virus Type 1 Capsid Mutation N74D Alters Cyclophilin A Dependence and Impairs Macrophage Infection

A. Engelman, S. Hughes, T. Takemura, 2012, Journal of Virology.

Flexible use of nuclear import pathways by HIV-1.

A. Engelman, J. Sodroski, S. Hughes, 2010, Cell host & microbe.

An Avian Sarcoma/Leukosis Virus-Based Gene Trap Vector for Mammalian Cells

Xiangqun H. Zheng, S. Hughes, 1999, Journal of Virology.

The ski oncogene.

S. Hughes, P. Sutrave, Hughes Sh, 1991, Oncogene.

Sequence and biological activity of chicken snoN cDNA clones.

P. Boyer, S. Hughes, C. Colmenares, 1993, Oncogene.

DNA of a chicken herpesvirus is associated with at least two chromosomes in a chicken lymphoblastoid cell line.

H. Varmus, S. Hughes, E. Stubblefield, 1980, Virology.

Integration of Rous Sarcoma Virus DNA: a CA Dinucleotide Is Not Required for Integration of the U3 End of Viral DNA

S. Hughes, Jangsuk Oh, Kevin W. Chang, 2008, Journal of Virology.

Alternate Polypurine Tracts Affect Rous Sarcoma Virus Integration In Vivo

S. Hughes, W. Alvord, Jangsuk Oh, 2006, Journal of Virology.

Human T-Cell Leukemia Virus Type 1 Integration Target Sites in the Human Genome: Comparison with Those of Other Retroviruses

S. Hughes, B. Crise, Xiaolin Wu, 2007, Journal of Virology.

HIV-1 Integrase Inhibitors with Modifications That Affect Their Potencies against Drug Resistant Integrase Mutants

S. Hughes, D. Lyumkis, V. E. Pye, 2021, ACS infectious diseases.

Alternate Polypurine Tracts (PPTs) Affect the Rous Sarcoma Virus RNase H Cleavage Specificity and Reveal a Preferential Cleavage following a GA Dinucleotide Sequence at the PPT-U3 Junction

S. Hughes, W. Alvord, Jangsuk Oh, 2005, Journal of Virology.

Structure‐based non‐nucleoside inhibitor design: Developing inhibitors that are effective against resistant mutants

S. Hughes, J. Schneider, Steven J. Smith, 2020, Chemical biology & drug design.

HIV-1 Integrase Inhibitors That Are Broadly Effective against Drug-Resistant Mutants

S. Hughes, T. Burke, X. Zhao, 2018, Antimicrobial Agents and Chemotherapy.

Structure-Guided Optimization of HIV Integrase Strand Transfer Inhibitors

Stephen H Hughes, Yves Pommier, Xue Zhi Zhao, 2017, Journal of medicinal chemistry.

Rilpivirine and Doravirine Have Complementary Efficacies Against NNRTI-Resistant HIV-1 Mutants

S. Hughes, J. Schneider, Z. Ambrose, 2016, Journal of acquired immune deficiency syndromes.

HIV-1 Integrase Strand Transfer Inhibitors with Reduced Susceptibility to Drug Resistant Mutant Integrases

Y. Pommier, S. Hughes, V. E. Pye, 2016, ACS chemical biology.

Rapid Screening of HIV Reverse Transcriptase and Integrase Inhibitors

S. Hughes, Steven J. Smith, 2014, Journal of visualized experiments : JoVE.

Synthesis and Integration of Virus-specific DNA in Cells Infected by RNA Tumor Viruses

H. Varmus, S. Hughes, H. Kung, 1978 .

Targeting of a nuclease to murine leukemia virus capsids inhibits viral multiplication.

G. Natsoulis, J. Boeke, S. Hughes, 1995, Proceedings of the National Academy of Sciences of the United States of America.

Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes

John W. Mellors, John M. Coffin, Wei Shao, 2016, Retrovirology.

THE ORIGIN AND STRUCTURE OF ENDOGENOUS RETROVIRAL DNA

H. Varmus, S. Hughes, J. Majors, 1980, Annals of the New York Academy of Sciences.

Purification and characterization of mouse hypoxanthine-guanine phosphoribosyltransferase.

G. Wahl, M. Capecchi, S. Hughes, 1975, The Journal of biological chemistry.

Combining mutations in HIV-1 reverse transcriptase with mutations in the HIV-1 polypurine tract affects RNase H cleavages involved in PPT utilization.

S. Sarafianos, S. Hughes, E. Arnold, 2006, Virology.

Restricting Expression Prolongs Expression of Foreign Genes Introduced into Animals by Retroviruses

J. Yewdell, J. Bennink, S. Hughes, 2000, Journal of Virology.

LINE1-Mediated Reverse Transcription and Genomic Integration of SARS-CoV-2 mRNA Detected in Virus-Infected but Not in Viral mRNA-Transfected Cells

R. Jaenisch, S. Hughes, M. I. Barrasa, 2023, bioRxiv.

Expression of transduced genes in mice generated by infecting blastocysts with avian leukosis virus-based retroviral vectors.

S. Hughes, M. Federspiel, D. Swing, 1996, Proceedings of the National Academy of Sciences of the United States of America.

Clonal Expansion of Infected CD4+ T Cells in People Living with HIV

S. Hughes, J. Coffin, 2021, Viruses.

Dynamic Shifts in the HIV Proviral Landscape During Long Term Combination Antiretroviral Therapy: Implications for Persistence and Control of HIV Infections

S. Hughes, E. Boritz, J. Coffin, 2020, Viruses.

Transfer of c-SKI gene into swine to enhance muscle development

S. Hughes, R. Wall, P. Sutrave, 1992 .

What Integration Sites Tell Us about HIV Persistence.

S. Hughes, J. Coffin, 2016, Cell host & microbe.

DNA intermediates in the replication of retroviruses are structurally (and perhaps functionally) related to transposable elements.

H. Varmus, S. Hughes, G. Payne, 1981, Cold Spring Harbor symposia on quantitative biology.

Characterization of chicken c-ski oncogene products expressed by retrovirus vectors

S. Hughes, T. Copeland, P. Sutrave, 1990 .

Characterization of chicken c-ski oncogene products expressed by retrovirus vectors.

S. Hughes, T. Copeland, P. Sutrave, 1990, Molecular and cellular biology.

Protein delivery using engineered virus-like particles

Stephen H. Hughes, S. Hughes, H. Young, 2011, Proceedings of the National Academy of Sciences.

Expression of a murine leukemia virus Gag-Escherichia coli RNase HI fusion polyprotein significantly inhibits virus spread

S. Hughes, M. VanBrocklin, A. Ferris, 1997, Journal of virology.

A new defective retroviral vector system based on the Bryan strain of Rous sarcoma virus.

S. Hughes, H. Kung, M. Federspiel, 1993, Virology.

Clones of infected cells arise early in HIV-infected individuals.

S. Hughes, J. Mellors, B. Luke, 2019, JCI insight.

Proviruses with identical sequences comprise a large fraction of the replication-competent HIV reservoir

S. Hughes, J. Mellors, B. Luke, 2017, PLoS pathogens.

Multiple Origins of Virus Persistence during Natural Control of HIV Infection

S. Hughes, E. Boritz, S. Migueles, 2016, Cell.

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

S. Hughes, J. Kovacs, M. Polis, 2016, Proceedings of the National Academy of Sciences.

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

S. Hughes, J. Mellors, J. Coffin, 2014, Science.

HIV Infected T Cells Can Proliferate in vivo Without Inducing Expression of the Integrated Provirus

S. Hughes, E. Boritz, J. Mellors, 2019, Front. Microbiol..

H3K4me3 Interactions with TAF3 Regulate Preinitiation Complex Assembly and Selective Gene Activation

Stephen H. Hughes, Takahiro Nakayama, S. Hughes, 2013, Cell.

Insertional activation of STAT3 and LCK by HIV-1 proviruses in T cell lymphomas

Beth A. Scott, S. Hughes, J. Mellors, 2021, Science advances.

Nontemplated nucleotide addition by HIV-1 reverse transcriptase.

S. Hughes, M. Golinelli, 2002, Biochemistry.

Retrotransposon Suicide: Formation of Ty1 Circles and Autointegration via a Central DNA Flap

D. Garfinkel, S. Hughes, Jangsuk Oh, 2006, Journal of Virology.

Altering the Genome by Homologous Recombination

S. Hughes, J. Askins, S. H. Hughes, 2010 .

In vitro fidelity of the prototype primate foamy virus (PFV) RT compared to HIV-1 RT.

P. Boyer, S. Hughes, M. Linial, 2007, Virology.

Clonal expansion of SIV-infected cells in macaques on antiretroviral therapy is similar to that of HIV-infected cells in humans

S. Hughes, J. Lifson, J. Coffin, 2019, PLoS pathogens.

Effects of Amino Acid Substitutions at Position 115 on the Fidelity of Human Immunodeficiency Virus Type 1 Reverse Transcriptase

P. Boyer, S. Hughes, 2000, Journal of Virology.

Effects of Amino Acid Substitutions at Position 115 on the Fidelity of Human Immunodeﬁciency Virus Type 1 Reverse Transcriptase

P. Boyer, S. Hughes, 2000 .

HIV-1 in lymph nodes is maintained by cellular proliferation during antiretroviral therapy.

S. Hughes, J. Mellors, J. Coffin, 2019, The Journal of clinical investigation.

HIV-1 in Lymph Nodes is Maintained by Cellular Proliferation During Antiretroviral 1 Therapy 2 3

Patro, S. Hughes, J. Mellors, 2019 .

Nontemplated base addition by HIV-1 RT can induce nonspecific strand transfer in vitro.

S. Hughes, M. Golinelli, 2002, Virology.

Self-priming of retroviral minus-strand strong-stop DNAs.

S. Hughes, M. Golinelli, 2001, Virology.

HIV-1 Viremia Not Suppressible By Antiretroviral Therapy Can Originate from Large T-Cell Clones Producing Infectious Virus

S. Hughes, J. Mellors, J. Coffin, 2020, bioRxiv.

HIV infected CD4+ T cell clones are more stable than uninfected clones during long-term antiretroviral therapy

S. Hughes, D. Douek, J. Mellors, 2022, PLoS pathogens.

An E box comprises a positional sensor for regional differences in skeletal muscle gene expression and methylation.

N. Rosenthal, S. Hughes, T. Nguyen, 1999, Developmental biology.

Structure of the gene encoding the beta-subunit of chicken prolyl 4-hydroxylase.

M. Gonda, S. Hughes, W. Kao, 1988, Gene.

The chicken tropomyosin 1 gene generates nine mRNAs by alternative splicing.

S. Hughes, S. Forry-Schaudies, 1991, The Journal of biological chemistry.

Differential Effects of Human Immunodeficiency Virus Type 1 Capsid and Cellular Factors Nucleoporin 153 and LEDGF/p75 on the Efficiency and Specificity of Viral DNA Integration

Kenneth A. Matreyek, A. Engelman, S. Hughes, 2012, Journal of Virology.

Apparent Defects in Processive DNA Synthesis, Strand Transfer, and Primer Elongation of Met-184 Mutants of HIV-1 Reverse Transcriptase Derive Solely from a dNTP Utilization Defect*

P. Boyer, S. Hughes, B. Roques, 2008, Journal of Biological Chemistry.

Mutations in HIV-1 Reverse Transcriptase Affect the Errors Made in a Single Cycle of Viral Replication

Octavio A. Quiñones, S. Tuske, S. Hughes, 2014, Journal of Virology.

Viral Replication Affect the Errors Made in a Single Cycle of Mutations in HIV-1 Reverse Transcriptase

S. Tuske, S. Hughes, E. Arnold, 2014 .

Human immunodeficiency virus type 1 gag-protease fusion proteins are enzymatically active

S. Hughes, M. Kotler, G. Arad, 1992, Journal of virology.

Tracking HIV-1-Infected Cell Clones Using Integration Site-Specific qPCR

S. Hughes, J. Mellors, J. Coffin, 2021, Viruses.

Mutations in the Thumb Allow Human Immunodeficiency Virus Type 1 Reverse Transcriptase To Be Cleaved by Protease in Virions

S. Hughes, E. Arnold, K. Das, 2009, Journal of Virology.

Mutagenesis of Human Immunodeficiency Virus Reverse Transcriptase p51 Subunit Defines Residues Contributing to Vinylogous Urea Inhibition of Ribonuclease H Activity*

S. Hughes, S. L. Le Grice, Jennifer T. Miller, 2011, The Journal of Biological Chemistry.

The ribonuclease H activity of the reverse transcriptases of human immunodeficiency viruses type 1 and type 2 is affected by the thumb subdomain of the small protein subunits.

S. Hughes, A. Hizi, S. Loya, 2001, Journal of molecular biology.

Analysis of amino insertion mutations in the fingers subdomain of HIV-1 reverse transcriptase.

J. Lisziewicz, F. Lori, P. Boyer, 1999, Journal of molecular biology.

RNase H Cleavage of the 5′ End of the Human Immunodeficiency Virus Type 1 Genome

S. Sarafianos, S. Hughes, E. Arnold, 2001, Journal of Virology.

RNase H Cleavage of the 5 (cid:2) End of the Human Immunodeﬁciency Virus Type 1 Genome

S. Sarafianos, S. Hughes, Honghai Gao, 2001 .

Overexpression of human p21waf1/cip1 arrests the growth of chicken embryo fibroblasts transformed by individual oncogenes.

S. Hughes, D. Givol, I. Tsarfaty, 1995, Oncogene.

Reprogramming human T cell function and specificity with non-viral genome targeting

J. Weissman, M. Leonetti, S. Hughes, 2018, Nature.

Selective expression of a ski transgene affects IIb fast muscles and skeletal structure

S. Hughes, J. Leferovich, A. Kelly, 1996, Developmental dynamics : an official publication of the American Association of Anatomists.

False-positive HIV PCR test following ex vivo lentiviral gene transfer treatment of X-linked severe combined immunodeficiency vector.

S. Hughes, J. Coffin, J. Gray, 2014, Molecular therapy : the journal of the American Society of Gene Therapy.

Structures of Tyr188Leu mutant and wild-type HIV-1 reverse transcriptase complexed with the non-nucleoside inhibitor HBY 097: inhibitor flexibility is a useful design feature for reducing drug resistance.

A. D. Clark, Jianping Ding, S. Hughes, 1998, Journal of molecular biology.

Nonnucleoside Reverse Transcriptase Inhibitors (NNRTIs)

S. Hughes, E. Arnold, K. Das, 2013 .

Reply to Briggs et al.: Genomic integration and expression of SARS-CoV-2 sequences can explain prolonged or recurrent viral RNA detection

R. Young, R. Jaenisch, S. Hughes, 2021, Proceedings of the National Academy of Sciences.

Response to Parry et al.: Strong evidence for genomic integration of SARS-CoV-2 sequences and expression in patient tissues

R. Young, R. Jaenisch, S. Hughes, 2021, Proceedings of the National Academy of Sciences.

Nonnucleoside Inhibitor Binding Affects the Interactions of the Fingers Subdomain of Human Immunodeficiency Virus Type 1 Reverse Transcriptase with DNA

Stephen H. Hughes, S. Tuske, S. Hughes, 2004, Journal of Virology.

Identification of a 3-aminoimidazo[1,2-a]pyridine inhibitor of HIV-1 reverse transcriptase

D. Elleder, John A. Young, J. Noel, 2012, Virology Journal.

Molecular modeling calculations of HIV-1 reverse transcriptase nonnucleoside inhibitors: correlation of binding energy with biological activity for novel 2-aryl-substituted benzimidazole analogues.

Stephen H Hughes, Julian Tirado-Rives, William L Jorgensen, 2003, Journal of medicinal chemistry.

The induction of skeletal muscle hypertrophy by a ski transgene is promoter-dependent.

S. Hughes, P. Sutrave, J. Leferovich, 2000, Gene.

Bicyclic Hydroxy‐1H‐pyrrolopyridine‐trione Containing HIV‐1 Integrase Inhibitors

Y. Pommier, S. Hughes, M. Métifiot, 2012, Chemical biology & drug design.

Activation of a muscle-specific enhancer by the Ski proto-oncogene.

N. Rosenthal, S. Hughes, J. Engert, 1995, Nucleic acids research.

Current HIV/SIV Reservoir Assays for Preclinical and Clinical Applications: Recommendations from the Experts 2022 NIAID Workshop Summary.

Brigitte E. Sanders-Beer, R. Siliciano, J. Karn, 2023, AIDS research and human retroviruses.

22 – Analysis of the Reverse Transcriptase of Human Immunodeficiency Virus Expressed in Escherichia coli

S. Hughes, A. Ferris, 1990 .

Processing of Retroviral RNA

H. Varmus, S. Hughes, J. Coffin, 1997 .

The basic loop of the RNase H domain of MLV RT is important both for RNase H and for polymerase activity.

P. Boyer, P. Clark, S. Hughes, 2001, Virology.

The destiny of reverse transcriptase anatomy

S. Hughes, 1991, Current Biology.

Expression in Escherichia coli of a Moloney murine leukemia virus reverse transcriptase whose structure closely resembles the viral enzyme.

S. Hughes, A. Hizi, 1988, Gene.

Structural and Functional Analyses of the Second-Generation Integrase Strand Transfer Inhibitor Dolutegravir ( S / GSK 1349572 )

Y. Pommier, S. Hughes, P. Cherepanov, 2011 .

Structural and Functional Analyses of the Second-Generation Integrase Strand Transfer Inhibitor Dolutegravir

Yves Pommier, Stephen H. Hughes, Y. Pommier, 2011 .

Structural basis for the inhibition of HTLV-1 integration inferred from cryo-EM deltaretroviral intasome structures

S. Hughes, V. E. Pye, P. Cherepanov, 2021, Nature Communications.

An analytical pipeline for identifying and mapping the integration sites of HIV and other retroviruses

S. Hughes, J. Coffin, Xiaolin Wu, 2020, BMC Genomics.

Production of avian leukosis virus particles in mammalian cells can be mediated by the interaction of the human immunodeficiency virus protein Rev and the Rev-responsive element.

S. Hughes, B. Felber, J. Whitcomb, 1995, Proceedings of the National Academy of Sciences of the United States of America.

Correction to: An analytical pipeline for identifying and mapping the integration sites of HIV and other retroviruses

S. Hughes, J. Coffin, Xiaolin Wu, 2020, BMC Genomics.

Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes

S. Hughes, J. Mellors, B. Luke, 2016, Retrovirology.

eScholarship Title Identification of a 3-aminoimidazo [ 1 , 2-a ] pyridine inhibitor of HIV-1 reverse transcriptase

D. Elleder, John A. Young, J. Noel, 2013 .

Proceedings of the Frontiers of Retrovirology Conference 2016

Sebastian A. Wagner, R. König, D. Elleder, 2016, Retrovirology.

MK-0536 Inhibits HIV-1 Integrases Resistant to Raltegravir

Yves Pommier, Xue Zhi Zhao, Y. Pommier, 2011, Antimicrobial Agents and Chemotherapy.

On the detection of multiple-binding modes of ligands to proteins, from biological, structural, and modeling data

Eddy Arnold, Paul J. Lewi, Kalyan Das, 2003, J. Comput. Aided Mol. Des..

A comparison of the ability of rilpivirine (TMC278) and selected analogues to inhibit clinically relevant HIV-1 reverse transcriptase mutants

S. Hughes, E. Arnold, K. Das, 2012, Retrovirology.

The effects of cysteine mutations on the catalytic activities of the reverse transcriptase of human immunodeficiency virus type-1.

S. Hughes, A. Hizi, R. Tal, 1992, The Journal of biological chemistry.

A Practical Approach to Bicyclic Carbamoyl Pyridones with Application to the Synthesis of HIV-1 Integrase Strand Transfer Inhibitors

S. Hughes, T. Burke, X. Zhao, 2023, Molecules.

Insights into DNA polymerization mechanisms from structure and function analysis of HIV-1 reverse transcriptase.

A. D. Clark, Jianping Ding, R. Raag, 1995, Biochemistry.

Receptor-Mediated Barriers to Retroviral Infection

H. Varmus, S. Hughes, J. Coffin, 1997 .

Greater Than the Sum of Parts: Complexity of the Dynamic Epigenome.

Scott B. Dewell, D. Patel, C. Allis, 2016, Molecular cell.

Engineering of a Histone-Recognition Domain in Dnmt3a Alters the Epigenetic Landscape and Phenotypic Features of Mouse ESCs.

D. Patel, C. Allis, A. Melnick, 2018, Molecular cell.

4-Amino-1-hydroxy-2-oxo-1,8-naphthyridine-Containing Compounds Having High Potency against Raltegravir-Resistant Integrase Mutants of HIV-1

Y. Pommier, P. Boyer, S. Hughes, 2014, Journal of Medicinal Chemistry.

The largest HIV-1-infected T cell clones in children on long-term combination antiretroviral therapy contain solo LTRs

S. Hughes, J. Mellors, G. V. Van Zyl, 2023, mBio.

6,7-Dihydroxy-1-oxoisoindoline-4-sulfonamide-containing HIV-1 integrase inhibitors.

Y. Pommier, S. Hughes, M. Métifiot, 2012, Bioorganic & medicinal chemistry letters.

Retroviruses that express different ras mutants cause different types of tumors in chickens.

S. Hughes, D. Ewert, J. Greenhouse, 1992, Oncogene.

Avian leukemias and lymphomas: interplay between retroviruses and herpesviruses.

S. Hughes, H. Kung, D. Robinson, 1997, Leukemia.

THE GENESIS OF AVIAN RETROVIRUS ONCOGENES

H. Varmus, S. Hughes, B. Vennstrom, 1980 .

Lens epithelium-derived growth factor fusion proteins redirect HIV-1 DNA integration

A. Engelman, C. Allis, S. Hughes, 2010, Proceedings of the National Academy of Sciences.

Construction and Characterization of a Replication-Competent Retroviral Shuttle Vector Plasmid

S. Hughes, Jangsuk Oh, A. Ferris, 2002, Journal of Virology.

Structure and mechanism of action of nonnucleoside inhibitors of HIV-1 reverse transcriptase: strategies to combat drug resistance

S. Hughes, E. Arnold, P. Janssen, 1998 .