My Bibliography

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Quinn BE, Rodríguez JAR, Kweku Sam E, Duliman J, Denn E, Lee S, Shan L, Kuti C, Nyann BI, Rosario-Matos N, Wang L. The nasal microbiome in early infancy is primarily shaped by the maternal nasal microbiome. J Allergy Clin Immunol. 2025 May 16;. doi: 10.1016/j.jaci.2025.05.004. [Epub ahead of print] PubMed PMID: 40383487; NIHMSID:NIHMS2083325.

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Eschbach JE, Puray-Chavez M, Mohammed S, Wang Q, Xia M, Huang L-C, Shan L, Kutluay SB. HIV-1 capsid stability and reverse transcription are finely balanced to minimize sensing of reverse transcription products via the cGAS-STING pathway. mBio. 2024 May 8;15(5):e0034824. doi: 10.1128/mbio.00348-24. Epub 2024 Mar 26. PubMed PMID: 38530034; PubMed Central PMCID: PMC11077976.

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Pinzone MR, Shan L. Pharmacological approaches to promote cell death of latent HIV reservoirs. Curr Opin HIV AIDS. 2024 Mar 1;19(2):56-61. doi: 10.1097/COH.0000000000000837. Epub 2023 Dec 20. Review. PubMed PMID: 38169429; PubMed Central PMCID: PMC10872923.

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Wang Q, Clark KM, Tiwari R, Raju N, Tharp GK, Rogers J, Harris RA, Raveendran M, Bosinger SE, Burdo TH, Silvestri G, Shan L. The CARD8 inflammasome dictates HIV/SIV pathogenesis and disease progression. Cell. 2024 Feb 29;187(5):1223-1237.e16. doi: 10.1016/j.cell.2024.01.048. PubMed PMID: 38428396; PubMed Central PMCID: PMC10919936.

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Wu F, Simonetti FR. Learning from Persistent Viremia: Mechanisms and Implications for Clinical Care and HIV-1 Cure. Curr HIV/AIDS Rep. 2023 Dec;20(6):428-439. doi: 10.1007/s11904-023-00674-w. Epub 2023 Nov 13. Review. PubMed PMID: 37955826; PubMed Central PMCID: PMC10719122.

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Chiorazzi M, Martinek J, Krasnick B, Zheng Y, Robbins KJ, Qu R, Kaufmann G, Skidmore Z, Juric M, Henze LA, Brösecke F, Adonyi A, Zhao J, Shan L, Sefik E, Mudd J, Bi Y, Goedegebuure SP, Griffith M, Griffith O, Oyedeji A, Fertuzinhos S, Garcia-Milian R, Boffa D, Detterbeck F, Dhanasopon A, Blasberg J, Judson B, Gettinger S, Politi K, Kluger Y, Palucka K, Fields RC, Flavell RA. Autologous humanized PDX modeling for immuno-oncology recapitulates features of the human tumor microenvironment. J Immunother Cancer. 2023 Jul;11(7). doi: 10.1136/jitc-2023-006921. PubMed PMID: 37487666; PubMed Central PMCID: PMC10373695.

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Li Y, Gao H, Clark KM, Shan L. IL-15 enhances HIV-1 infection by promoting survival and proliferation of CCR5+CD4+ T cells. JCI Insight. 2023 Apr 10;8(7). doi: 10.1172/jci.insight.166292. PubMed PMID: 36821374; PubMed Central PMCID: PMC10132148.

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Clark KM, Kim JG, Wang Q, Gao H, Presti RM, Shan L. Chemical inhibition of DPP9 sensitizes the CARD8 inflammasome in HIV-1-infected cells. Nat Chem Biol. 2023 Apr;19(4):431-439. doi: 10.1038/s41589-022-01182-5. Epub 2022 Nov 10. PubMed PMID: 36357533; PubMed Central PMCID: PMC10065922.

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Clark KM, Pal P, Kim JG, Wang Q, Shan L. The CARD8 inflammasome in HIV infection. Adv Immunol. 2023;157:59-100. doi: 10.1016/bs.ai.2022.11.001. Epub 2023 Mar 13. PubMed PMID: 37061288.

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Kim JG, Zhang A, Rauseo AM, Goss CW, Mudd PA, O'Halloran JA, Wang L. The salivary and nasopharyngeal microbiomes are associated with SARS-CoV-2 infection and disease severity. J Med Virol. 2023 Feb;95(2):e28445. doi: 10.1002/jmv.28445. PubMed PMID: 36583481; PubMed Central PMCID: PMC9880756.

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Clark KM, Wang Q, Shan L. CARD8 Inflammasome Activation by HIV-1 Protease. Methods Mol Biol. 2023;2641:67-79. doi: 10.1007/978-1-0716-3040-2_6. PubMed PMID: 37074642.

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Sungur CM, Wang Q, Ozantürk AN, Gao H, Schmitz AJ, Cella M, Yokoyama WM, Shan L. Human NK cells confer protection against HIV-1 infection in humanized mice. J Clin Invest. 2022 Dec 15;132(24). doi: 10.1172/JCI162694. PubMed PMID: 36282589; PubMed Central PMCID: PMC9753998.

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Wang Q, Shan L. CARD8 makes coxsackievirus more "heartbreaking". J Exp Med. 2022 Oct 3;219(10). doi: 10.1084/jem.20221240. Epub 2022 Sep 21. PubMed PMID: 36129454; PubMed Central PMCID: PMC9500452.

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Wang Q, Shan L. Inflammasomes in Human Immunodeficiency Virus Type 1 Infection. Infect Dis Immun. 2022 Oct;2(4):248-252. doi: 10.1097/ID9.0000000000000070. Epub 2022 Sep 22. Review. PubMed PMID: 36798147; PubMed Central PMCID: PMC9923888.

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Kim JG, Shan L. Beyond Inhibition: A Novel Strategy of Targeting HIV-1 Protease to Eliminate Viral Reservoirs. Viruses. 2022 May 28;14(6). doi: 10.3390/v14061179. Review. PubMed PMID: 35746649; PubMed Central PMCID: PMC9231271.

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Shan L, Flavell RA, Herndler-Brandstetter D. Development of Humanized Mouse Models for Studying Human NK Cells in Health and Disease. Methods Mol Biol. 2022;2463:53-66. doi: 10.1007/978-1-0716-2160-8_5. PubMed PMID: 35344167; PubMed Central PMCID: PMC9116980.

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Clark KM, Wang Q, Shan L. CARD8 inflammasome sensitization through DPP9 inhibition enhances NNRTI-triggered killing of HIV-1-infected cells. bioRxiv : the preprint server for biology. 2021 September.

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Rajashekar JK, Richard J, Beloor J, Prévost J, Anand SP, Beaudoin-Bussières G, Shan L, Herndler-Brandstetter D, Gendron-Lepage G, Medjahed H, Bourassa C, Gaudette F, Ullah I, Symmes K, Peric A, Lindemuth E, Bibollet-Ruche F, Park J, Chen HC, Kaufmann DE, Hahn BH, Sodroski J, Pazgier M, Flavell RA, Smith AB 3rd, Finzi A, Kumar P. Modulating HIV-1 envelope glycoprotein conformation to decrease the HIV-1 reservoir. Cell Host Microbe. 2021 Jun 9;29(6):904-916.e6. doi: 10.1016/j.chom.2021.04.014. Epub 2021 May 20. PubMed PMID: 34019804; PubMed Central PMCID: PMC8214472.

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Lebratti T, Lim YS, Cofie A, Andhey P, Jiang X, Scott J, Fabbrizi MR, Ozantürk AN, Pham C, Clemens R, Artyomov M, Dinauer M, Shin H. A sustained type I IFN-neutrophil-IL-18 axis drives pathology during mucosal viral infection. Elife. 2021 May 28;10. doi: 10.7554/eLife.65762. PubMed PMID: 34047696; PubMed Central PMCID: PMC8163503.

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Gao H, Ozantürk AN, Wang Q, Harlan GH, Schmitz AJ, Presti RM, Deng K, Shan L. Evaluation of HIV-1 latency reversal and antibody-dependent viral clearance by quantification of singly spliced HIV-1 vpu/env mRNA. J Virol. 2021 May 10;95(11). doi: 10.1128/JVI.02124-20. Epub 2021 Mar 24. PubMed PMID: 33762408; PubMed Central PMCID: PMC8139706.

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Cao L, Lee S, Krings JG, Rauseo AM, Reynolds D, Presti R, Goss C, Mudd PA, O'Halloran JA, Wang L. Asthma in patients with suspected and diagnosed coronavirus disease 2019. Ann Allergy Asthma Immunol. 2021 May;126(5):535-541.e2. doi: 10.1016/j.anai.2021.02.020. Epub 2021 Feb 25. PubMed PMID: 33639262; PubMed Central PMCID: PMC7905379.

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Wang Q, Gao H, Clark KM, Mugisha CS, Davis K, Tang JP, Harlan GH, DeSelm CJ, Presti RM, Kutluay SB, Shan L. CARD8 is an inflammasome sensor for HIV-1 protease activity. Science. 2021 Mar 19;371(6535). doi: 10.1126/science.abe1707. Epub 2021 Feb 4. PubMed PMID: 33542150; PubMed Central PMCID: PMC8029496.

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Song Y, Shan L, Gbyli R, Liu W, Strowig T, Patel A, Fu X, Wang X, Xu ML, Gao Y, Qin A, Bruscia EM, Tebaldi T, Biancon G, Mamillapalli P, Urbonas D, Eynon E, Gonzalez DG, Chen J, Krause DS, Alderman J, Halene S, Flavell RA. Combined liver-cytokine humanization comes to the rescue of circulating human red blood cells. Science. 2021 Mar 5;371(6533):1019-1025. doi: 10.1126/science.abe2485. PubMed PMID: 33674488; PubMed Central PMCID: PMC8292008.

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Wang L, de Ángel Solá D, Acevedo Flores M, Schriefer A, Wang L, Gerónimo López K, Chang A, Warner B, Shan L, Holtz LR, Rosario Matos N. Prenatal food insecurity post Hurricane Maria is associated with decreased Veillonella in the infant gut. Pediatr Res. 2020 Dec;88(6):917-924. doi: 10.1038/s41390-020-0839-0. Epub 2020 Mar 14. PubMed PMID: 32172280; PubMed Central PMCID: PMC7492397.

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Lee AG, Scott JM, Fabbrizi MR, Jiang X, Sojka DK, Miller MJ, Baldridge MT, Yokoyama WM, Shin H. T cell response kinetics determines neuroinfection outcomes during murine HSV infection. JCI Insight. 2020 Mar 12;5(5). doi: 10.1172/jci.insight.134258. PubMed PMID: 32161194; PubMed Central PMCID: PMC7141405.

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Cella M, Gamini R, Sécca C, Collins PL, Zhao S, Peng V, Robinette ML, Schettini J, Zaitsev K, Gordon W, Bando JK, Yomogida K, Cortez V, Fronick C, Fulton R, Lin LL, Gilfillan S, Flavell RA, Shan L, Artyomov MN, Bowman M, Oltz EM, Jelinsky SA, Colonna M. Subsets of ILC3-ILC1-like cells generate a diversity spectrum of innate lymphoid cells in human mucosal tissues. Nat Immunol. 2019 Aug;20(8):980-991. doi: 10.1038/s41590-019-0425-y. Epub 2019 Jun 17. PubMed PMID: 31209406; PubMed Central PMCID: PMC6685551.

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Wang L, de Ángel Solá D, Mao Y, Bielecki P, Zhu Y, Sun Z, Shan L, Flavell RA, Bazzy-Asaad A, DeWan A. Family-based study reveals decreased abundance of sputum Granulicatella in asthmatics. Allergy. 2018 Sep;73(9):1918-1921. doi: 10.1111/all.13493. Epub 2018 Jun 25. PubMed PMID: 29862523; PubMed Central PMCID: PMC6586473.

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Ring NG, Herndler-Brandstetter D, Weiskopf K, Shan L, Volkmer JP, George BM, Lietzenmayer M, McKenna KM, Naik TJ, McCarty A, Zheng Y, Ring AM, Flavell RA, Weissman IL. Anti-SIRPα antibody immunotherapy enhances neutrophil and macrophage antitumor activity. Proc Natl Acad Sci U S A. 2017 Dec 5;114(49):E10578-E10585. doi: 10.1073/pnas.1710877114. Epub 2017 Nov 20. PubMed PMID: 29158380; PubMed Central PMCID: PMC5724266.

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Herndler-Brandstetter D, Shan L, Yao Y, Stecher C, Plajer V, Lietzenmayer M, Strowig T, de Zoete MR, Palm NW, Chen J, Blish CA, Frleta D, Gurer C, Macdonald LE, Murphy AJ, Yancopoulos GD, Montgomery RR, Flavell RA. Humanized mouse model supports development, function, and tissue residency of human natural killer cells. Proc Natl Acad Sci U S A. 2017 Nov 7;114(45):E9626-E9634. doi: 10.1073/pnas.1705301114. Epub 2017 Oct 25. PubMed PMID: 29078283; PubMed Central PMCID: PMC5692533.

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Shan L, Deng K, Gao H, Xing S, Capoferri AA, Durand CM, Rabi SA, Laird GM, Kim M, Hosmane NN, Yang HC, Zhang H, Margolick JB, Li L, Cai W, Ke R, Flavell RA, Siliciano JD, Siliciano RF. Transcriptional Reprogramming during Effector-to-Memory Transition Renders CD4(+) T Cells Permissive for Latent HIV-1 Infection. Immunity. 2017 Oct 17;47(4):766-775.e3. doi: 10.1016/j.immuni.2017.09.014. PubMed PMID: 29045905; PubMed Central PMCID: PMC5948104.

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Zhu S, Ding S, Wang P, Wei Z, Pan W, Palm NW, Yang Y, Yu H, Li HB, Wang G, Lei X, de Zoete MR, Zhao J, Zheng Y, Chen H, Zhao Y, Jurado KA, Feng N, Shan L, Kluger Y, Lu J, Abraham C, Fikrig E, Greenberg HB, Flavell RA. Nlrp9b inflammasome restricts rotavirus infection in intestinal epithelial cells. Nature. 2017 Jun 29;546(7660):667-670. doi: 10.1038/nature22967. Epub 2017 Jun 21. PubMed PMID: 28636595; PubMed Central PMCID: PMC5787375.

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Deng K, Pertea M, Rongvaux A, Wang L, Durand CM, Ghiaur G, Lai J, McHugh HL, Hao H, Zhang H, Margolick JB, Gurer C, Murphy AJ, Valenzuela DM, Yancopoulos GD, Deeks SG, Strowig T, Kumar P, Siliciano JD, Salzberg SL, Flavell RA, Shan L, Siliciano RF. Broad CTL response is required to clear latent HIV-1 due to dominance of escape mutations. Nature. 2015 Jan 15;517(7534):381-5. doi: 10.1038/nature14053. Epub 2015 Jan 7. PubMed PMID: 25561180; PubMed Central PMCID: PMC4406054.

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Shan L, Siliciano RF. Unraveling the relationship between microbial translocation and systemic immune activation in HIV infection. J Clin Invest. 2014 Jun;124(6):2368-71. doi: 10.1172/JCI75799. Epub 2014 May 16. PubMed PMID: 24837427; PubMed Central PMCID: PMC4089457.

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Chiu YL, Shan L, Huang H, Haupt C, Bessell C, Canaday DH, Zhang H, Ho YC, Powell JD, Oelke M, Margolick JB, Blankson JN, Griffin DE, Schneck JP. Sprouty-2 regulates HIV-specific T cell polyfunctionality. J Clin Invest. 2014 Jan;124(1):198-208. doi: 10.1172/JCI70510. PubMed PMID: 24292711; PubMed Central PMCID: PMC3871241.

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Shan L, Xing S, Yang HC, Zhang H, Margolick JB, Siliciano RF. Unique characteristics of histone deacetylase inhibitors in reactivation of latent HIV-1 in Bcl-2-transduced primary resting CD4+ T cells. J Antimicrob Chemother. 2014 Jan;69(1):28-33. doi: 10.1093/jac/dkt338. Epub 2013 Sep 1. PubMed PMID: 23999005; PubMed Central PMCID: PMC3861332.

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Ho YC, Shan L, Hosmane NN, Wang J, Laskey SB, Rosenbloom DI, Lai J, Blankson JN, Siliciano JD, Siliciano RF. Replication-competent noninduced proviruses in the latent reservoir increase barrier to HIV-1 cure. Cell. 2013 Oct 24;155(3):540-51. doi: 10.1016/j.cell.2013.09.020. Epub 2013 Oct 24. PubMed PMID: 24243014; PubMed Central PMCID: PMC3896327.

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Rabi SA, Laird GM, Durand CM, Laskey S, Shan L, Bailey JR, Chioma S, Moore RD, Siliciano RF. Multi-step inhibition explains HIV-1 protease inhibitor pharmacodynamics and resistance. J Clin Invest. 2013 Sep;123(9):3848-60. doi: 10.1172/JCI67399. Epub 2013 Aug 27. PubMed PMID: 23979165; PubMed Central PMCID: PMC4381280.

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Sherrill-Mix S, Lewinski MK, Famiglietti M, Bosque A, Malani N, Ocwieja KE, Berry CC, Looney D, Shan L, Agosto LM, Pace MJ, Siliciano RF, O'Doherty U, Guatelli J, Planelles V, Bushman FD. HIV latency and integration site placement in five cell-based models. Retrovirology. 2013 Aug 16;10:90. doi: 10.1186/1742-4690-10-90. PubMed PMID: 23953889; PubMed Central PMCID: PMC3765678.

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Shan L, Siliciano RF. From reactivation of latent HIV-1 to elimination of the latent reservoir: the presence of multiple barriers to viral eradication. Bioessays. 2013 Jun;35(6):544-52. doi: 10.1002/bies.201200170. Epub 2013 Apr 24. Review. PubMed PMID: 23613347; PubMed Central PMCID: PMC4386637.

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Shan L, Rabi SA, Laird GM, Eisele EE, Zhang H, Margolick JB, Siliciano RF. A novel PCR assay for quantification of HIV-1 RNA. J Virol. 2013 Jun;87(11):6521-5. doi: 10.1128/JVI.00006-13. Epub 2013 Mar 27. PubMed PMID: 23536672; PubMed Central PMCID: PMC3648108.

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Shan L, Deng K, Shroff NS, Durand CM, Rabi SA, Yang HC, Zhang H, Margolick JB, Blankson JN, Siliciano RF. Stimulation of HIV-1-specific cytolytic T lymphocytes facilitates elimination of latent viral reservoir after virus reactivation. Immunity. 2012 Mar 23;36(3):491-501. doi: 10.1016/j.immuni.2012.01.014. Epub 2012 Mar 8. PubMed PMID: 22406268; PubMed Central PMCID: PMC3501645.

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Durand CM, Ghiaur G, Siliciano JD, Rabi SA, Eisele EE, Salgado M, Shan L, Lai JF, Zhang H, Margolick J, Jones RJ, Gallant JE, Ambinder RF, Siliciano RF. HIV-1 DNA is detected in bone marrow populations containing CD4+ T cells but is not found in purified CD34+ hematopoietic progenitor cells in most patients on antiretroviral therapy. J Infect Dis. 2012 Mar 15;205(6):1014-8. doi: 10.1093/infdis/jir884. Epub 2012 Jan 24. PubMed PMID: 22275402; PubMed Central PMCID: PMC3282572.

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Shen L, Rabi SA, Sedaghat AR, Shan L, Lai J, Xing S, Siliciano RF. A critical subset model provides a conceptual basis for the high antiviral activity of major HIV drugs. Sci Transl Med. 2011 Jul 13;3(91):91ra63. doi: 10.1126/scitranslmed.3002304. PubMed PMID: 21753122; PubMed Central PMCID: PMC3488347.

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Spivak AM, Rabi SA, McMahon MA, Shan L, Sedaghat AR, Wilke CO, Siliciano RF. Short communication: dynamic constraints on the second phase compartment of HIV-infected cells. AIDS Res Hum Retroviruses. 2011 Jul;27(7):759-61. doi: 10.1089/AID.2010.0199. Epub 2011 Jan 15. PubMed PMID: 21105850; PubMed Central PMCID: PMC3123527.

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Xing S, Bullen CK, Shroff NS, Shan L, Yang HC, Manucci JL, Bhat S, Zhang H, Margolick JB, Quinn TC, Margolis DM, Siliciano JD, Siliciano RF. Disulfiram reactivates latent HIV-1 in a Bcl-2-transduced primary CD4+ T cell model without inducing global T cell activation. J Virol. 2011 Jun;85(12):6060-4. doi: 10.1128/JVI.02033-10. Epub 2011 Apr 6. PubMed PMID: 21471244; PubMed Central PMCID: PMC3126325.

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Shan L, Yang HC, Rabi SA, Bravo HC, Shroff NS, Irizarry RA, Zhang H, Margolick JB, Siliciano JD, Siliciano RF. Influence of host gene transcription level and orientation on HIV-1 latency in a primary-cell model. J Virol. 2011 Jun;85(11):5384-93. doi: 10.1128/JVI.02536-10. Epub 2011 Mar 23. PubMed PMID: 21430059; PubMed Central PMCID: PMC3094997.

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Yang HC, Xing S, Shan L, O'Connell K, Dinoso J, Shen A, Zhou Y, Shrum CK, Han Y, Liu JO, Zhang H, Margolick JB, Siliciano RF. Small-molecule screening using a human primary cell model of HIV latency identifies compounds that reverse latency without cellular activation. J Clin Invest. 2009 Nov;119(11):3473-86. doi: 10.1172/JCI39199. Epub 2009 Oct 1. PubMed PMID: 19805909; PubMed Central PMCID: PMC2769176.

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Zhu J, Liao G, Shan L, Zhang J, Chen MR, Hayward GS, Hayward SD, Desai P, Zhu H. Protein array identification of substrates of the Epstein-Barr virus protein kinase BGLF4. J Virol. 2009 May;83(10):5219-31. doi: 10.1128/JVI.02378-08. Epub 2009 Feb 25. PubMed PMID: 19244323; PubMed Central PMCID: PMC2682057.

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Wang L, Shan L, Lo KW, Yin J, Zhang Y, Sun R, Zhong J. Inhibition of nasopharyngeal carcinoma growth by RTA-expressing baculovirus vectors containing oriP. J Gene Med. 2008 Oct;10(10):1124-33. doi: 10.1002/jgm.1237. PubMed PMID: 18642396.

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Shan L, Wang L, Yin J, Zhong P, Zhong J. An OriP/EBNA-1-based baculovirus vector with prolonged and enhanced transgene expression. J Gene Med. 2006 Dec;8(12):1400-6. doi: 10.1002/jgm.978. PubMed PMID: 17051599.