Publications
Selected Peer-Reviewed Papers
Activation of Toll-like receptor 3 inhibits HIV infection of human iPSC-derived microglia. Wang P, Liu JB, Wang X, Meng FZ, Xiao QH, Liu L, Zhu J, Hu WH, Ho WZ. J Med Virol. 2023 Nov;95(11):e29217. doi: 10.1002/jmv.29217.
Contribution of Trp63CreERT2 labeled cells to alveolar regeneration is independent of tuft cells. Huang H, Fang Y, Jiang M, Zhang Y, Biermann J, Melms JC, Danielsson JA, Yang Y, Qiang L, Liu J, Zhou Y, Wang M, Hu Z, Wang TC, Saqi A, Sun J, Matsumoto I, Cardoso WV, Emala CW, Zhu J, Izar B, Mou H, Que J. Elife. 2022 Sep 21;11. doi: 10.7554/eLife.78217. [Epub ahead of print]
SARS-CoV-2 Nsp14 protein associates with IMPDH2 and activates NF-κB signaling. Li T, Kenney AD, Park JG, Fiches GN, Liu H, Zhou D, Biswas A, Zhao W, Que J, Santoso N, Martinez-Sobrido L, Yount JS, Zhu J. Front Immunol. 2022 Sep. In Press. doi: 10.3389/fimmu.2022.1007089.
FACT subunit SUPT16H associates with BRD4 and contributes to silencing of interferon signaling. Zhou D, Wu Z, Park JG, Fiches GN, Li TW, Ma Q, Huang H, Biswas A, Martinez-Sobrido L, Santoso NG, Zhu J. Nucleic Acids Research. 2022 Jul 29;. doi: 10.1093/nar/gkac645. [Epub ahead of print]
Caspase-4/11 exacerbates disease severity in SARS-CoV-2 infection by promoting inflammation and immunothrombosis. Eltobgy MM, Zani A, Kenney AD, Estfanous S, Kim E, Badr A, Carafice C, Daily K, Whitham O, Pietrzak M, Webb A, Kawahara J, Eddy AC, Denz P, Lu M, Kc M, Peeples ME, Li J, Zhu J, Que J, Robinson R, Rosas Mejia O, Rayner RE, Hall-Stoodley L, Seveau S, Gavrilin MA, Zhang X, Thomas J, Kohlmeier JE, Suthar MS, Oltz E, Tedeschi A, Robledo-Avila FH, Partida-Sanchez S, Hemann EA, Abdelrazik E, Forero A, Nimjee SM, Boyaka PN, Cormet-Boyaka E, Yount JS, Amer AO. Proc Natl Acad Sci U S A. 2022 May 24;119(21):e2202012119.
AIB1 is a novel target of the high-risk HPV E6 protein and a biomarker of cervical cancer progression. Miller J, Dakic A, Spurgeon M, Saenz F, Kallakury B, Zhao B, Zhang J, Zhu J, Ma Q, Xu Y, Lambert P, Schlegel R, Riegel AT, Liu X. J Med Virol. 2022 Aug;94(8):3962-77. doi: 10.1002/jmv.27795. Epub 2022 Apr 27.
Polyamine biosynthesis and eIF5A hypusination are modulated by the DNA tumor virus KSHV and promote KSHV viral infection. Fiches GN, Wu Z, Zhou D, Biswas A, Li TW, Kong W, Jean M, Santoso NG, Zhu J. PLoS Pathogens. 2022; 18(4):e1010503.
Differential Expression of CREM/ICER Isoforms Is Associated with the Spontaneous Control of HIV Infection. Luo Z, Li M, Li TW, Lv Z, Ye Z, Cisneros WJ, Zhang J, Yuan L, Hultquist JF, Migueles SA, Huang L, Zhu J, Jiang W. mBio. 2022: e0197921.
Inhibition of polo-like kinase 1 (PLK1) facilitates reactivation of gamma-herpesviruses and their elimination. Biswas A, Zhou D, Fiches GN, Wu Z, Liu X, Ma Q, Zhao W, Zhu J*, Santoso NG*. PLoS Pathogens. 2021; 17(7):e1009764. (*Co-corresponding authors)
Profiling of immune related genes silenced in EBV-positive gastric carcinoma identified novel restriction factors of human gammaherpesviruses. Fiches GN, Zhou D, Kong W, Biswas A, Ahmed EH, Baiocchi RA, Zhu J*, Santoso N*. PLoS Pathogens. 2020;16(8):e1008778. (*Co-corresponding authors)
Inhibition of Polo-like kinase 1 (PLK1) facilitates the elimination of HIV-1 viral reservoirs in CD4+ T cells ex vivo. Zhou D, Hayashi T, Jean M, Kong W, Fiches G, Biswas A, Liu S, Yosief H, Zhang X, Bradner J, Qi J, Zhang W, Santoso N, Zhu J. Science Advances. 2020; 6(29); eaba1941.
Nucleolar protein NOP2/NSUN1 suppresses HIV-1 transcription and promotes viral latency by competing with Tat for TAR binding and methylation. Kong W, Biswas A, Zhou D, Fiches G, Fujinaga K, Santoso N, Zhu J. PLoS Pathogens. 2020;16(3):e1008430.
A CRISPR/Cas9 screen identifies the histone demethylase MINA53 as a novel HIV-1 latency-promoting gene (LPG). Huang H, Kong W, Jean M, Fiches G, Zhou D, Hayashi T, Que J, Santoso N, Zhu J. Nucleic Acids Research. 2019;47(14):7333-47.
Diversified Application of Barcoded PLATO (PLATO-BC) Platform for Identification of Protein Interactions. Kong W, Hayashi T, Fiches G, Xu Q, Li MZ, Que J, Liu S, Zhang W, Qi J, Santoso N, Elledge SJ, Zhu J. Genomics Proteomics Bioinformatics. 2019;17(3):319-331.
Curaxin CBL0137 has the potential to reverse HIV-1 latency. Jean MJ, Zhou D, Fiches G, Kong W, Huang H, Purmal A, Gurova K, Santoso NG, Zhu J. J Med Virol. 2019; 91(8):1571-1576.
Inhibition of Tip60 Reduces Lytic and Latent Gene Expression of KSHV and Proliferation of KSHV-Infected Tumor Cells. Simpson S, Fiches G, Jean MJ, Dieringer M, McGuinness J, John SP, Shamay M, Desai P, Zhu J*, Santoso NG*. Front Microbiol. 2018;9:788. (*Co-corresponding authors)
Screening of an FDA-approved compound library identifies levosimendan as a novel anti-HIV-1 agent that inhibits viral transcription. Hayashi T, Jean M, Huang H, Simpson S, Santoso NG, Zhu J. Antiviral Research. 2017; 146:76-85.
Jiang M, Li H, Zhang Y, Yang Y, Lu R, Liu K, Lin S, Lan X, Wang H, Wu H, Zhu J, Zhou Z, Xu J, Lee DK, Zhang L, Lee YC, Yuan J, Abrams JA, Wang TC, Sepulveda AR, Wu Q, Chen H, Sun X, She J, Chen X, Que J. Transitional basal cells at the squamous-columnar junction generate Barrett's oesophagus. Nature. 2017 Oct 26;550(7677):529-533.
Identification of HIV-1 Tat-Associated Proteins Contributing to HIV-1 Transcription and Latency. Jean MJ, Power D, Kong W, Huang H, Santoso N, Zhu J. Viruses. 2017; 9(4).
SOX2 regulates multiple malignant processes of breast cancer development through the SOX2/miR-181a-5p, miR-30e-5p/TUSC3 axis. Liu K, Xie F, Gao A, Zhang R, Zhang L, Xiao Z, Hu Q, Huang W, Huang Q, Lin B, Zhu J, Wang H, Que J, Lan X. Mol Cancer. 2017: 16(1):62.
FACT Proteins, SUPT16H and SSRP1, Are Transcriptional Suppressors of HIV-1 and HTLV-1 That Facilitate Viral Latency. Huang H, Santoso N, Power D, Simpson S, Dieringer M, Miao H, Gurova K, Giam CZ, Elledge SJ, Zhu J. J Biol Chem. 2015; 290(45):27297-310.
IFI44 suppresses HIV-1 LTR promoter activity and facilitates its latency. Power D, Santoso N, Dieringer M, Yu J, Huang H, Simpson S, Seth I, Miao H, Zhu J. Virology. 2015; 481:142-50.
Discovery of protein interactions using parallel analysis of translated ORFs (PLATO). Larman HB, Liang AC, Elledge SJ, Zhu J. Nature Protocols. 2014; 9(1):90-103.
Comprehensive identification of host modulators of HIV-1 replication using multiple orthologous RNAi reagents. Zhu J, Davoli T, Perriera JM, Chin CR, Gaiha GD, John SP, Sigiollot FD, Gao G, Xu Q, Qu H, Pertel T, Sims JS, Smith JA, Baker RE, Maranda L, Ng A, Elledge SJ, Brass AL. Cell Reports. 2014; 9(2):752-66.
Protein interaction discovery using parallel analysis of translated ORFs (PLATO). Zhu J, Larman HB, Gao G, Somwar R, Zhang Z, Laserson U, Ciccia A, Pavlova N, Church G, Zhang W, Kesari S, Elledge SJ. Nature Biotechnology. 2013; 31(4):331-334.
Reactivation of latent HIV-1 by inhibition of BRD4. Zhu J, Gaiha GD, John SP, Pertel T, Chin CR, Gao G, Qu H, Walker BD, Elledge SJ, Brass AL. Cell Reports. 2012; 2(4):807-16.
A protein array screen for Kaposi's sarcoma-associated herpesvirus LANA interactors links LANA to TIP60, PP2A activity, and telomere shortening. Shamay M, Liu J, Li R, Liao G, Shen L, Greenway M, Hu S, Zhu J, Xie Z, Ambinder RF, Qian J, Zhu H, Hayward SD. J Virol. 2012; 86(9):5179-91.
Phosphorylation of the Chromatin Binding Domain of KSHV LANA. Woodard C, Shamay M, Liao G, Zhu J, Ng AN, Li R, Newman R, Rho HS, Hu J, Wan J, Qian J, Zhu H, Hayward SD. PLoS Pathogens. 2012; 8(10):e1002972.
Comparison of Humoral Immune Responses to Epstein-Barr Virus and Kaposi’s Sarcoma Associated Herpesvirus Using a Viral Proteome Microarray. Zheng D, Wan J, Cho YG, Wang L, Chiou CJ, Pai S, Woodard C, Zhu J, Liao G, Martinez-Maza O, Qian J, Zhu H, Hayward GS, Ambinder RF, Hayward SD. J Infect Dis. 2011; 204(11):1683-91.
Conserved herpesvirus kinases target the DNA damage response pathway and TIP60 histone acetyltransferase to promote virus replication. Li R*, Zhu J*, Xie Z, Liao G, Liu J, Chen MR, Hu S, Woodard C, Lin J, Taverna SD, Desai P, Ambinder RF, Hayward GS, Qian J, Zhu H, Hayward SD. Cell Host Microbe. 2011; 10(4):390-400. (* Equal contributions)
Protein array identification of substrates of the Epstein-Barr virus protein kinase BGLF4. Zhu J, Liao G, Shan L, Zhang J, Chen MR, Hayward GS, Hayward SD, Desai P, Zhu H. J Virol. 2009; 83(10):5219-31.
A Proteome Chip Approach Reveals New DNA Damage Recognition Activities in Escherichia coli. Chen CS, Korobkova E, Chen H, Zhu J, Jian X, Tao SC, He C, Zhu H. Nature Methods. 2008; 5(1):69-74.
Functional dissection of a HECT ubiquitin E3 ligase. Lu JY, Lin YY, Qian J, Tao SC, Zhu J, Pickart C, Zhu H. Mol Cell Proteomics. 2008 Jan;7(1):35-45. doi: 10.1074/mcp.M700353-MCP200. Epub 2007 Oct 19.
RNA-binding proteins that inhibit RNA virus infection. Zhu J, Gopinath K, Murali A, Yi G, Hayward SD, Zhu H, Kao C. Proc Natl Acad Sci U S A. 2007; 104(9):3129-34.
Regulation of the Interaction Between Glycogen Synthase Kinase 3 and the Kaposi's Sarcoma-Associated Herpesvirus Latency-Associated Nuclear Antigen. Fujimuro M, Liu J, Zhu J, Yokosawa H, Hayward SD. J Virol. 2005; 79(16):10429-41.
