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Items: 29

1.

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

Ferris AL, Wells DW, Guo S, Del Prete GQ, Swanstrom AE, Coffin JM, Wu X, Lifson JD, Hughes SH.

PLoS Pathog. 2019 Jul 10;15(7):e1007869. doi: 10.1371/journal.ppat.1007869. eCollection 2019 Jul.

2.

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

Roth TL, Puig-Saus C, Yu R, Shifrut E, Carnevale J, Li PJ, Hiatt J, Saco J, Krystofinski P, Li H, Tobin V, Nguyen DN, Lee MR, Putnam AL, Ferris AL, Chen JW, Schickel JN, Pellerin L, Carmody D, Alkorta-Aranburu G, Del Gaudio D, Matsumoto H, Morell M, Mao Y, Cho M, Quadros RM, Gurumurthy CB, Smith B, Haugwitz M, Hughes SH, Weissman JS, Schumann K, Esensten JH, May AP, Ashworth A, Kupfer GM, Greeley SAW, Bacchetta R, Meffre E, Roncarolo MG, Romberg N, Herold KC, Ribas A, Leonetti MD, Marson A.

Nature. 2018 Jul;559(7714):405-409. doi: 10.1038/s41586-018-0326-5. Epub 2018 Jul 11.

3.

LEDGF/p75 interacts with mRNA splicing factors and targets HIV-1 integration to highly spliced genes.

Singh PK, Plumb MR, Ferris AL, Iben JR, Wu X, Fadel HJ, Luke BT, Esnault C, Poeschla EM, Hughes SH, Kvaratskhelia M, Levin HL.

Genes Dev. 2015 Nov 1;29(21):2287-97. doi: 10.1101/gad.267609.115.

4.

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

Skaar JR, Ferris AL, Wu X, Saraf A, Khanna KK, Florens L, Washburn MP, Hughes SH, Pagano M.

Cell Res. 2015 Mar;25(3):288-305. doi: 10.1038/cr.2015.19. Epub 2015 Feb 13.

5.

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

Maldarelli F, Wu X, Su L, Simonetti FR, Shao W, Hill S, Spindler J, Ferris AL, Mellors JW, Kearney MF, Coffin JM, Hughes SH.

Science. 2014 Jul 11;345(6193):179-83. doi: 10.1126/science.1254194. Epub 2014 Jun 26.

6.

Mutations in HIV-1 reverse transcriptase affect the errors made in a single cycle of viral replication.

Abram ME, Ferris AL, Das K, QuinoƱes O, Shao W, Tuske S, Alvord WG, Arnold E, Hughes SH.

J Virol. 2014 Jul;88(13):7589-601. doi: 10.1128/JVI.00302-14. Epub 2014 Apr 23.

7.

Enhancers are major targets for murine leukemia virus vector integration.

De Ravin SS, Su L, Theobald N, Choi U, Macpherson JL, Poidinger M, Symonds G, Pond SM, Ferris AL, Hughes SH, Malech HL, Wu X.

J Virol. 2014 Apr;88(8):4504-13. doi: 10.1128/JVI.00011-14. Epub 2014 Feb 5.

8.

H3K4me3 interactions with TAF3 regulate preinitiation complex assembly and selective gene activation.

Lauberth SM, Nakayama T, Wu X, Ferris AL, Tang Z, Hughes SH, Roeder RG.

Cell. 2013 Feb 28;152(5):1021-36. doi: 10.1016/j.cell.2013.01.052.

9.

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.

Koh Y, Wu X, Ferris AL, Matreyek KA, Smith SJ, Lee K, KewalRamani VN, Hughes SH, Engelman A.

J Virol. 2013 Jan;87(1):648-58. doi: 10.1128/JVI.01148-12. Epub 2012 Oct 24.

10.

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.

Wang H, Jurado KA, Wu X, Shun MC, Li X, Ferris AL, Smith SJ, Patel PA, Fuchs JR, Cherepanov P, Kvaratskhelia M, Hughes SH, Engelman A.

Nucleic Acids Res. 2012 Dec;40(22):11518-30. doi: 10.1093/nar/gks913. Epub 2012 Oct 5.

11.

Nature, position, and frequency of mutations made in a single cycle of HIV-1 replication.

Abram ME, Ferris AL, Shao W, Alvord WG, Hughes SH.

J Virol. 2010 Oct;84(19):9864-78. doi: 10.1128/JVI.00915-10. Epub 2010 Jul 21.

12.

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

Ferris AL, Wu X, Hughes CM, Stewart C, Smith SJ, Milne TA, Wang GG, Shun MC, Allis CD, Engelman A, Hughes SH.

Proc Natl Acad Sci U S A. 2010 Feb 16;107(7):3135-40. doi: 10.1073/pnas.0914142107. Epub 2010 Feb 1.

14.

Construction and characterization of a replication-competent retroviral shuttle vector plasmid.

Oh J, Julias JG, Ferris AL, Hughes SH.

J Virol. 2002 Feb;76(4):1762-8.

16.
17.

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

Boyer PL, Ferris AL, Clark P, Whitmer J, Frank P, Tantillo C, Arnold E, Hughes SH.

J Mol Biol. 1994 Oct 28;243(3):472-83.

PMID:
7525967
18.

Crystal structure of human immunodeficiency virus type 1 reverse transcriptase complexed with double-stranded DNA at 3.0 A resolution shows bent DNA.

Jacobo-Molina A, Ding J, Nanni RG, Clark AD Jr, Lu X, Tantillo C, Williams RL, Kamer G, Ferris AL, Clark P, et al.

Proc Natl Acad Sci U S A. 1993 Jul 1;90(13):6320-4.

19.
20.

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

Arnold E, Jacobo-Molina A, Nanni RG, Williams RL, Lu X, Ding J, Clark AD Jr, Zhang A, Ferris AL, Clark P, et al.

Nature. 1992 May 7;357(6373):85-9.

PMID:
1374166
21.
22.

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.

Jacobo-Molina A, Clark AD Jr, Williams RL, Nanni RG, Clark P, Ferris AL, Hughes SH, Arnold E.

Proc Natl Acad Sci U S A. 1991 Dec 1;88(23):10895-9.

23.

HIV-1 reverse transcriptase purified from a recombinant strain of Escherichia coli.

Clark PK, Ferris AL, Miller DA, Hizi A, Kim KW, Deringer-Boyer SM, Mellini ML, Clark AD Jr, Arnold GF, Lebherz WB 3rd, et al.

AIDS Res Hum Retroviruses. 1990 Jun;6(6):753-64.

PMID:
1694680
24.

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

Ferris AL, Hizi A, Showalter SD, Pichuantes S, Babe L, Craik CS, Hughes SH.

Virology. 1990 Apr;175(2):456-64.

PMID:
1691562
25.

Effects of pH, detergent and salt on aggregation of Chinese-hamster-ovary-cell lysosomal enzymes.

Buckmaster MJ, Ferris AL, Storrie B.

Biochem J. 1988 Feb 1;249(3):921-3.

26.

Chinese hamster ovary cell lysosomes rapidly exchange contents.

Ferris AL, Brown JC, Park RD, Storrie B.

J Cell Biol. 1987 Dec;105(6 Pt 1):2703-12.

27.

Retention of pinocytized solute by CHO cell lysosomes correlates with molecular weight.

Buckmaster MJ, Lo Braico D Jr, Ferris AL, Storrie B.

Cell Biol Int Rep. 1987 Jul;11(7):501-7.

PMID:
2443256
28.
29.

Internalization and delivery to lysosomes of hydrazide horseradish peroxidase, a covalent membrane probe.

Storrie B, Ferris AL.

J Histochem Cytochem. 1985 Nov;33(11):1145-52.

PMID:
3902964

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