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Items: 50

1.

Metagenomic Sequencing of HIV-1 in the Blood and Female Genital Tract Reveals Little Quasispecies Diversity during Acute Infection.

Piantadosi A, Freije CA, Gosmann C, Ye S, Park D, Schaffner SF, Tully DC, Allen TM, Dong KL, Sabeti PC, Kwon DS.

J Virol. 2019 Jan 4;93(2). pii: e00804-18. doi: 10.1128/JVI.00804-18. Print 2019 Jan 15.

2.

Mamu-B*17+ Rhesus Macaques Vaccinated with env, vif, and nef Manifest Early Control of SIVmac239 Replication.

Martins MA, Tully DC, Pedreño-Lopez N, von Bredow B, Pauthner MG, Shin YC, Yuan M, Lima NS, Bean DJ, Gonzalez-Nieto L, Domingues A, Gutman MJ, Maxwell HS, Magnani DM, Ricciardi MJ, Bailey VK, Altman JD, Burton DR, Ejima K, Allison DB, Evans DT, Rakasz EG, Parks CL, Bonaldo MC, Capuano S 3rd, Lifson JD, Desrosiers RC, Allen TM, Watkins DI.

J Virol. 2018 Jul 31;92(16). pii: e00690-18. doi: 10.1128/JVI.00690-18. Print 2018 Aug 15.

PMID:
29875239
3.

Discovery of Tropifexor (LJN452), a Highly Potent Non-bile Acid FXR Agonist for the Treatment of Cholestatic Liver Diseases and Nonalcoholic Steatohepatitis (NASH).

Tully DC, Rucker PV, Chianelli D, Williams J, Vidal A, Alper PB, Mutnick D, Bursulaya B, Schmeits J, Wu X, Bao D, Zoll J, Kim Y, Groessl T, McNamara P, Seidel HM, Molteni V, Liu B, Phimister A, Joseph SB, Laffitte B.

J Med Chem. 2017 Dec 28;60(24):9960-9973. doi: 10.1021/acs.jmedchem.7b00907. Epub 2017 Dec 8.

PMID:
29148806
4.

Early Transcriptional Divergence Marks Virus-Specific Primary Human CD8+ T Cells in Chronic versus Acute Infection.

Wolski D, Foote PK, Chen DY, Lewis-Ximenez LL, Fauvelle C, Aneja J, Walker A, Tonnerre P, Torres-Cornejo A, Kvistad D, Imam S, Waring MT, Tully DC, Allen TM, Chung RT, Timm J, Haining WN, Kim AY, Baumert TF, Lauer GM.

Immunity. 2017 Oct 17;47(4):648-663.e8. doi: 10.1016/j.immuni.2017.09.006.

5.

HIVR4P 2016, Partnering for Prevention: Conference Summary and Highlights.

Shacklett BL, Derdeyn CA, Folayan MO, Landovitz RJ, Anthony C, Behrens AJ, Hope TJ, Landais E, Leal L, Marrazzo JM, Morris L, Mugo N, Ngure K, Noseda V, Ranasinghe S, Tully DC, Voronin Y, Warren M, Wibmer CK, Xie IY, Scarlatti G, Thyagarajan B.

AIDS Res Hum Retroviruses. 2017 Aug;33(8):749-759. doi: 10.1089/AID.2017.0125. Epub 2017 Jul 26.

6.

Rare Control of SIVmac239 Infection in a Vaccinated Rhesus Macaque.

Martins MA, Tully DC, Shin YC, Gonzalez-Nieto L, Weisgrau KL, Bean DJ, Gadgil R, Gutman MJ, Domingues A, Maxwell HS, Magnani DM, Ricciardi M, Pedreño-Lopez N, Bailey V, Cruz MA, Lima NS, Bonaldo MC, Altman JD, Rakasz E, Capuano S 3rd, Reimann KA, Piatak M Jr, Lifson JD, Desrosiers RC, Allen TM, Watkins DI.

AIDS Res Hum Retroviruses. 2017 Aug;33(8):843-858. doi: 10.1089/AID.2017.0046. Epub 2017 Jun 29.

7.

Interferon-I: The Pièce de Résistance of HIV-1 Transmission?

Tully DC, Claiborne DT, Allen TM.

Trends Microbiol. 2017 May;25(5):332-334. doi: 10.1016/j.tim.2017.02.010. Epub 2017 Mar 9.

8.

Use of Dried Blood Spots to Elucidate Full-Length Transmitted/Founder HIV-1 Genomes.

Salazar-Gonzalez JF, Salazar MG, Tully DC, Ogilvie CB, Learn GH, Allen TM, Heath SL, Goepfert P, Bar KJ.

Pathog Immun. 2016 Spring;1(1):129-153.

9.

The epigenetic landscape of T cell exhaustion.

Sen DR, Kaminski J, Barnitz RA, Kurachi M, Gerdemann U, Yates KB, Tsao HW, Godec J, LaFleur MW, Brown FD, Tonnerre P, Chung RT, Tully DC, Allen TM, Frahm N, Lauer GM, Wherry EJ, Yosef N, Haining WN.

Science. 2016 Dec 2;354(6316):1165-1169. Epub 2016 Oct 27.

10.

High resolution sequencing of hepatitis C virus reveals limited intra-hepatic compartmentalization in end-stage liver disease.

Hedegaard DL, Tully DC, Rowe IA, Reynolds GM, Bean DJ, Hu K, Davis C, Wilhelm A, Ogilvie CB, Power KA, Tarr AW, Kelly D, Allen TM, Balfe P, McKeating JA.

J Hepatol. 2017 Jan;66(1):28-38. doi: 10.1016/j.jhep.2016.07.048. Epub 2016 Aug 13.

11.

Differences in the Selection Bottleneck between Modes of Sexual Transmission Influence the Genetic Composition of the HIV-1 Founder Virus.

Tully DC, Ogilvie CB, Batorsky RE, Bean DJ, Power KA, Ghebremichael M, Bedard HE, Gladden AD, Seese AM, Amero MA, Lane K, McGrath G, Bazner SB, Tinsley J, Lennon NJ, Henn MR, Brumme ZL, Norris PJ, Rosenberg ES, Mayer KH, Jessen H, Kosakovsky Pond SL, Walker BD, Altfeld M, Carlson JM, Allen TM.

PLoS Pathog. 2016 May 10;12(5):e1005619. doi: 10.1371/journal.ppat.1005619. eCollection 2016 May.

12.

Deep sequencing of hepatitis C virus reveals genetic compartmentalization in cerebrospinal fluid from cognitively impaired patients.

Tully DC, Hjerrild S, Leutscher PD, Renvillard SG, Ogilvie CB, Bean DJ, Videbech P, Allen TM, McKeating JA, Fletcher NF.

Liver Int. 2016 Oct;36(10):1418-24. doi: 10.1111/liv.13134. Epub 2016 Apr 26.

13.

Effect of scavenger receptor class B type I antagonist ITX5061 in patients with hepatitis C virus infection undergoing liver transplantation.

Rowe IA, Tully DC, Armstrong MJ, Parker R, Guo K, Barton D, Morse GD, Venuto CS, Ogilvie CB, Hedegaard DL, McKelvy JF, Wong-Staal F, Allen TM, Balfe P, McKeating JA, Mutimer DJ.

Liver Transpl. 2016 Mar;22(3):287-97. doi: 10.1002/lt.24349.

14.

Vaccine-Induced Simian Immunodeficiency Virus-Specific CD8+ T-Cell Responses Focused on a Single Nef Epitope Select for Escape Variants Shortly after Infection.

Martins MA, Tully DC, Cruz MA, Power KA, Veloso de Santana MG, Bean DJ, Ogilvie CB, Gadgil R, Lima NS, Magnani DM, Ejima K, Allison DB, Piatak M Jr, Altman JD, Parks CL, Rakasz EG, Capuano S 3rd, Galler R, Bonaldo MC, Lifson JD, Allen TM, Watkins DI.

J Virol. 2015 Nov;89(21):10802-20. doi: 10.1128/JVI.01440-15. Epub 2015 Aug 19.

15.

Chemical activation of the mechanotransduction channel Piezo1.

Syeda R, Xu J, Dubin AE, Coste B, Mathur J, Huynh T, Matzen J, Lao J, Tully DC, Engels IH, Petrassi HM, Schumacher AM, Montal M, Bandell M, Patapoutian A.

Elife. 2015 May 22;4. doi: 10.7554/eLife.07369.

16.

Lead optimization of imidazopyrazines: a new class of antimalarial with activity on Plasmodium liver stages.

Zou B, Nagle A, Chatterjee AK, Leong SY, Tan LJ, Sim WL, Mishra P, Guntapalli P, Tully DC, Lakshminarayana SB, Lim CS, Tan YC, Abas SN, Bodenreider C, Kuhen KL, Gagaring K, Borboa R, Chang J, Li C, Hollenbeck T, Tuntland T, Zeeman AM, Kocken CH, McNamara C, Kato N, Winzeler EA, Yeung BK, Diagana TT, Smith PW, Roland J.

ACS Med Chem Lett. 2014 Jul 6;5(8):947-50. doi: 10.1021/ml500244m. eCollection 2014 Aug 14.

17.

Trace amounts of sporadically reappearing HCV RNA can cause infection.

Veerapu NS, Park SH, Tully DC, Allen TM, Rehermann B.

J Clin Invest. 2014 Aug;124(8):3469-78. doi: 10.1172/JCI73104. Epub 2014 Jul 8.

18.

Discovery, optimization, and biological evaluation of 5-(2-(trifluoromethyl)phenyl)indazoles as a novel class of transient receptor potential A1 (TRPA1) antagonists.

Rooney L, Vidal A, D'Souza AM, Devereux N, Masick B, Boissel V, West R, Head V, Stringer R, Lao J, Petrus MJ, Patapoutian A, Nash M, Stoakley N, Panesar M, Verkuyl JM, Schumacher AM, Petrassi HM, Tully DC.

J Med Chem. 2014 Jun 26;57(12):5129-40. doi: 10.1021/jm401986p. Epub 2014 Jun 13.

PMID:
24884675
19.

Characteristics of HCV co-infection among HIV infected individuals from an area with high risk of blood-borne infections in central China.

Zhang T, Tully DC, Zhou S, He N.

PLoS One. 2014 Apr 7;9(4):e94219. doi: 10.1371/journal.pone.0094219. eCollection 2014.

20.

Targeting Plasmodium PI(4)K to eliminate malaria.

McNamara CW, Lee MC, Lim CS, Lim SH, Roland J, Simon O, Yeung BK, Chatterjee AK, McCormack SL, Manary MJ, Zeeman AM, Dechering KJ, Kumar TS, Henrich PP, Gagaring K, Ibanez M, Kato N, Kuhen KL, Fischli C, Nagle A, Rottmann M, Plouffe DM, Bursulaya B, Meister S, Rameh L, Trappe J, Haasen D, Timmerman M, Sauerwein RW, Suwanarusk R, Russell B, Renia L, Nosten F, Tully DC, Kocken CH, Glynne RJ, Bodenreider C, Fidock DA, Diagana TT, Winzeler EA.

Nature. 2013 Dec 12;504(7479):248-253. doi: 10.1038/nature12782. Epub 2013 Nov 27.

21.
22.

Vaccine-induced CD8+ T cells control AIDS virus replication.

Mudd PA, Martins MA, Ericsen AJ, Tully DC, Power KA, Bean AT, Piaskowski SM, Duan L, Seese A, Gladden AD, Weisgrau KL, Furlott JR, Kim YI, Veloso de Santana MG, Rakasz E, Capuano S 3rd, Wilson NA, Bonaldo MC, Galler R, Allison DB, Piatak M Jr, Haase AT, Lifson JD, Allen TM, Watkins DI.

Nature. 2012 Nov 1;491(7422):129-33. doi: 10.1038/nature11443. Epub 2012 Sep 30.

23.

Imidazolopiperazines: lead optimization of the second-generation antimalarial agents.

Nagle A, Wu T, Kuhen K, Gagaring K, Borboa R, Francek C, Chen Z, Plouffe D, Lin X, Caldwell C, Ek J, Skolnik S, Liu F, Wang J, Chang J, Li C, Liu B, Hollenbeck T, Tuntland T, Isbell J, Chuan T, Alper PB, Fischli C, Brun R, Lakshminarayana SB, Rottmann M, Diagana TT, Winzeler EA, Glynne R, Tully DC, Chatterjee AK.

J Med Chem. 2012 May 10;55(9):4244-73. doi: 10.1021/jm300041e. Epub 2012 Apr 23.

24.

Dynamics of envelope evolution in clade C SHIV-infected pig-tailed macaques during disease progression analyzed by ultra-deep pyrosequencing.

Tso FY, Tully DC, Gonzalez S, Quince C, Ho O, Polacino P, Ruprecht RM, Hu SL, Wood C.

PLoS One. 2012;7(3):e32827. doi: 10.1371/journal.pone.0032827. Epub 2012 Mar 12.

25.

Imidazolopiperazines: hit to lead optimization of new antimalarial agents.

Wu T, Nagle A, Kuhen K, Gagaring K, Borboa R, Francek C, Chen Z, Plouffe D, Goh A, Lakshminarayana SB, Wu J, Ang HQ, Zeng P, Kang ML, Tan W, Tan M, Ye N, Lin X, Caldwell C, Ek J, Skolnik S, Liu F, Wang J, Chang J, Li C, Hollenbeck T, Tuntland T, Isbell J, Fischli C, Brun R, Rottmann M, Dartois V, Keller T, Diagana T, Winzeler E, Glynne R, Tully DC, Chatterjee AK.

J Med Chem. 2011 Jul 28;54(14):5116-30. doi: 10.1021/jm2003359. Epub 2011 Jun 23.

PMID:
21644570
26.

Molecular determinants of HIV-1 subtype C coreceptor transition from R5 to R5X4.

Zhang H, Tully DC, Zhang T, Moriyama H, Thompson J, Wood C.

Virology. 2010 Nov 10;407(1):68-79. doi: 10.1016/j.virol.2010.07.047. Epub 2010 Aug 24.

27.

Sequence diversity of hepatitis C virus 6a within the extended interferon sensitivity-determining region correlates with interferon-alpha/ribavirin treatment outcomes.

Zhou DX, Chan PK, Zhang T, Tully DC, Tam JS.

Virus Res. 2010 Oct;153(1):44-9. doi: 10.1016/j.virusres.2010.07.004. Epub 2010 Jul 17.

PMID:
20624431
28.

Short communication: antiretroviral therapy resistance mutations present in the HIV type 1 subtype C pol and env regions from therapy-naive patients in Zambia.

Gonzalez S, Gondwe C, Tully DC, Minhas V, Shea D, Kankasa C, M'soka T, Wood C.

AIDS Res Hum Retroviruses. 2010 Jul;26(7):795-803. doi: 10.1089/aid.2009.0181.

29.

Discovery of novel 1H-imidazol-2-yl-pyrimidine-4,6-diamines as potential antimalarials.

Deng X, Nagle A, Wu T, Sakata T, Henson K, Chen Z, Kuhen K, Plouffe D, Winzeler E, Adrian F, Tuntland T, Chang J, Simerson S, Howard S, Ek J, Isbell J, Tully DC, Chatterjee AK, Gray NS.

Bioorg Med Chem Lett. 2010 Jul 15;20(14):4027-31. doi: 10.1016/j.bmcl.2010.05.095. Epub 2010 Jun 2.

30.

Chronology and evolution of the HIV-1 subtype C epidemic in Ethiopia.

Tully DC, Wood C.

AIDS. 2010 Jun 19;24(10):1577-82. doi: 10.1097/QAD.0b013e32833999e1.

31.

Restricted genetic diversity of HIV-1 subtype C envelope glycoprotein from perinatally infected Zambian infants.

Zhang H, Tully DC, Hoffmann FG, He J, Kankasa C, Wood C.

PLoS One. 2010 Feb 18;5(2):e9294. doi: 10.1371/journal.pone.0009294. Erratum in: PLoS One. 2010;5(3). doi: 10.1371/annotation/c2dd3548-93b7-480e-991a-93a728bca5fe. PLoS One. 2010;5(3). doi: 10.1371/annotation/eadee58d-56c0-4399-b007-d80cc71e3f8a.

32.

Functional properties of the HIV-1 subtype C envelope glycoprotein associated with mother-to-child transmission.

Zhang H, Rola M, West JT, Tully DC, Kubis P, He J, Kankasa C, Wood C.

Virology. 2010 May 10;400(2):164-74. doi: 10.1016/j.virol.2009.12.019. Epub 2010 Jan 25.

33.

Cell-based optimization of novel benzamides as potential antimalarial leads.

Wu T, Nagle A, Sakata T, Henson K, Borboa R, Chen Z, Kuhen K, Plouffe D, Winzeler E, Adrian F, Tuntland T, Chang J, Simerson S, Howard S, Ek J, Isbell J, Deng X, Gray NS, Tully DC, Chatterjee AK.

Bioorg Med Chem Lett. 2009 Dec 15;19(24):6970-4. doi: 10.1016/j.bmcl.2009.10.050. Epub 2009 Oct 29.

34.

A comparative study of HIV-1 clade C env evolution in a Zambian infant with an infected rhesus macaque during disease progression.

Tso FY, Hoffmann FG, Tully DC, Lemey P, Rasmussen RA, Zhang H, Ruprecht RM, Wood C.

AIDS. 2009 Sep 10;23(14):1817-28. doi: 10.1097/QAD.0b013e32832f3da6.

35.

Active site conformational changes of prostasin provide a new mechanism of protease regulation by divalent cations.

Spraggon G, Hornsby M, Shipway A, Tully DC, Bursulaya B, Danahay H, Harris JL, Lesley SA.

Protein Sci. 2009 May;18(5):1081-94. doi: 10.1002/pro.118.

36.

Shifts in the selection-drift balance drive the evolution and epidemiology of foot-and-mouth disease virus.

Tully DC, Fares MA.

J Virol. 2009 Jan;83(2):781-90. doi: 10.1128/JVI.01500-08. Epub 2008 Nov 12.

37.

The tale of a modern animal plague: tracing the evolutionary history and determining the time-scale for foot and mouth disease virus.

Tully DC, Fares MA.

Virology. 2008 Dec 20;382(2):250-6. doi: 10.1016/j.virol.2008.09.011. Epub 2008 Oct 21. Erratum in: Virology. 2009 Apr 25;387(1):244.

38.

Discovery of inhibitors of the channel-activating protease prostasin (CAP1/PRSS8) utilizing structure-based design.

Tully DC, Vidal A, Chatterjee AK, Williams JA, Roberts MJ, Petrassi HM, Spraggon G, Bursulaya B, Pacoma R, Shipway A, Schumacher AM, Danahay H, Harris JL.

Bioorg Med Chem Lett. 2008 Nov 15;18(22):5895-9. doi: 10.1016/j.bmcl.2008.08.029. Epub 2008 Aug 14.

PMID:
18752942
39.

A study of the coevolutionary patterns operating within the env gene of the HIV-1 group M subtypes.

Travers SA, Tully DC, McCormack GP, Fares MA.

Mol Biol Evol. 2007 Dec;24(12):2787-801. Epub 2007 Oct 5.

PMID:
17921487
40.

Synthesis and SAR of succinamide peptidomimetic inhibitors of cathepsin S.

Chatterjee AK, Liu H, Tully DC, Guo J, Epple R, Russo R, Williams J, Roberts M, Tuntland T, Chang J, Gordon P, Hollenbeck T, Tumanut C, Li J, Harris JL.

Bioorg Med Chem Lett. 2007 May 15;17(10):2899-903. Epub 2007 Feb 27.

PMID:
17382545
41.

Arylaminoethyl carbamates as a novel series of potent and selective cathepsin S inhibitors.

Tully DC, Liu H, Chatterjee AK, Alper PB, Williams JA, Roberts MJ, Mutnick D, Woodmansee DH, Hollenbeck T, Gordon P, Chang J, Tuntland T, Tumanut C, Li J, Harris JL, Karanewsky DS.

Bioorg Med Chem Lett. 2006 Oct 1;16(19):5107-11. Epub 2006 Jul 28.

PMID:
16876407
42.

Synthesis and SAR of arylaminoethyl amides as noncovalent inhibitors of cathepsin S: P3 cyclic ethers.

Tully DC, Liu H, Chatterjee AK, Alper PB, Epple R, Williams JA, Roberts MJ, Woodmansee DH, Masick BT, Tumanut C, Li J, Spraggon G, Hornsby M, Chang J, Tuntland T, Hollenbeck T, Gordon P, Harris JL, Karanewsky DS.

Bioorg Med Chem Lett. 2006 Oct 1;16(19):5112-7. Epub 2006 Jul 28.

PMID:
16876402
43.

Synthesis and evaluation of arylaminoethyl amides as noncovalent inhibitors of cathepsin S. Part 3: heterocyclic P3.

Tully DC, Liu H, Alper PB, Chatterjee AK, Epple R, Roberts MJ, Williams JA, Nguyen KT, Woodmansee DH, Tumanut C, Li J, Spraggon G, Chang J, Tuntland T, Harris JL, Karanewsky DS.

Bioorg Med Chem Lett. 2006 Apr 1;16(7):1975-80. Epub 2006 Jan 30.

PMID:
16446091
44.

Arylaminoethyl amides as noncovalent inhibitors of cathepsin S. Part 2: Optimization of P1 and N-aryl.

Alper PB, Liu H, Chatterjee AK, Nguyen KT, Tully DC, Tumanut C, Li J, Harris JL, Tuntland T, Chang J, Gordon P, Hollenbeck T, Karanewsky DS.

Bioorg Med Chem Lett. 2006 Mar 15;16(6):1486-90. Epub 2006 Jan 18.

PMID:
16412634
45.

Unravelling selection shifts among foot-and-mouth disease virus (FMDV) serotypes.

Tully DC, Fares MA.

Evol Bioinform Online. 2007 Feb 11;2:211-25.

46.

Design and synthesis of arylaminoethyl amides as noncovalent inhibitors of cathepsin S. Part 1.

Liu H, Tully DC, Epple R, Bursulaya B, Li J, Harris JL, Williams JA, Russo R, Tumanut C, Roberts MJ, Alper PB, He Y, Karanewsky DS.

Bioorg Med Chem Lett. 2005 Nov 15;15(22):4979-84. Epub 2005 Sep 23.

PMID:
16183279
47.

Functional profiling of recombinant NS3 proteases from all four serotypes of dengue virus using tetrapeptide and octapeptide substrate libraries.

Li J, Lim SP, Beer D, Patel V, Wen D, Tumanut C, Tully DC, Williams JA, Jiricek J, Priestle JP, Harris JL, Vasudevan SG.

J Biol Chem. 2005 Aug 5;280(31):28766-74. Epub 2005 Jun 1.

48.

PNA-encoded protease substrate microarrays.

Winssinger N, Damoiseaux R, Tully DC, Geierstanger BH, Burdick K, Harris JL.

Chem Biol. 2004 Oct;11(10):1351-60.

49.

Biochemical characterization of prostasin, a channel activating protease.

Shipway A, Danahay H, Williams JA, Tully DC, Backes BJ, Harris JL.

Biochem Biophys Res Commun. 2004 Nov 12;324(2):953-63.

PMID:
15474520
50.

A novel multifunctional labeling reagent for enhanced protein characterization with mass spectrometry.

Peters EC, Horn DM, Tully DC, Brock A.

Rapid Commun Mass Spectrom. 2001;15(24):2387-92.

PMID:
11746907

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