Publications

1. Jian TY, Huang SY, Chang CY, et al. HLA-C-derived peptide MH-1 as an early-stage intervention against SARS-CoV-2 infection. Mol Med. 2026;32(1). doi:10.1186/s10020-026-01434-3

2. Li WC, Chang CY, Liu YP, et al. Intensive reassortment and frequent intercontinental transmission revealed by long-term genetic analysis of H10 avian influenza viruses in Taiwan. Emerg Microbes Infect. 2025;14(1):2556794. doi:10.1080/22221751.2025.2556794

3. Shi TH, Kuo C, Lin YT, Liu YC, Huang CG, Shih SR. Moringin as a Lead Compound for Anti-Enteroviruses and Coronaviruses Broad-Spectrum Inhibition of Viral Proteases: Comparative Evaluation With  Glucomoringin and Antiviral Agents. J Med Virol. 2025;97(11):e70665. doi:10.1002/jmv.70665

4. Gong YN, Kuo NY, Yeh TS, Shih SR, Chen GW. Genomic surveillance of SARS-CoV-2 in Taiwan: A perspective on evolutionary data interpretation and sequencing issues. Biomed J. 2025;48(4):100820. doi:10.1016/j.bj.2024.100820

5. Kung YA, Chuang CH, Chen YC, et al. Worldwide SARS-CoV-2 Omicron variant infection: Emerging sub-variants and future vaccination perspectives. J Formos Med Assoc. 2025;124(7):592-599. doi:10.1016/j.jfma.2024.08.021

6. Lee KM, Wu CC, Fan YT, et al. Subversion of phosphorylated SR proteins by enterovirus A71 in IRES-dependent translation revealed by RNA-interactome analysis. PLoS Pathog. 2025;21(6):e1013242. doi:10.1371/journal.ppat.1013242

7. Huang PN, Hsia SH, Huang KYA, et al. Reflecting on the 1998 enterovirus outbreak: A 25-year retrospective and learned lessons. Biomed J. 2025;48(1):100715. doi:10.1016/j.bj.2024.100715

8. Reinig S, Kuo C, Huang SY, et al. COVID-19 vaccination induces cross-reactive dengue virus antibodies with altered isotype profiles and in vitro antibody-dependent enhancement. Front Immunol. 2025;16:1683070. doi:10.3389/fimmu.2025.1683070

9. Cheng CY, Su YS, Chen CL, et al. Safety, tolerability, and efficacy of intranasally-administered detoxified LTh(αK) in mild-to-moderate COVID-19 patients: A randomized, double-blinded,  placebo-controlled phase 2 study. Hum Vaccin Immunother. 2024;20(1):2432105. doi:10.1080/21645515.2024.2432105

10. Hsiung KC, Chiang HJ, Reinig S, Shih SR. Vaccine Strategies Against RNA Viruses: Current Advances and Future Directions. Vaccines (Basel). 2024;12(12). doi:10.3390/vaccines12121345

11. Huang CG, Hsieh MJ, Wu YC, et al. Influence of Donor-Specific Characteristics on Cytokine Responses in H3N2 Influenza A Virus Infection: New Insights from an Ex Vivo Model. Int J Mol Sci. 2024;25(20). doi:10.3390/ijms252010941

12. Reinig S, Kuo C, Wu CC, Huang SY, Yu JS, Shih SR. Specific long-term changes in anti-SARS-CoV-2 IgG modifications and antibody functions in mRNA, adenovector, and protein subunit vaccines. J Med Virol. 2024;96(7):e29793. doi:10.1002/jmv.29793

13. Li YJ, Chen CY, Kuo YS, et al. OTUB1 contributes to the stability and function of Influenza A virus NS2. PLoS Pathog. 2024;20(5):e1012279. doi:10.1371/journal.ppat.1012279

14. Reinig S, Shih SR. Non-neutralizing functions in anti-SARS-CoV-2 IgG antibodies. Biomed J. 2024;47(1):100666. doi:10.1016/j.bj.2023.100666

15. Chiang HJ, Peng HH, Weng KF, et al. Mineralo-organic particles inhibit influenza A virus infection by targeting viral hemagglutinin activity. Nanomedicine (Lond). 2024;19(28):2375-2390. doi:10.1080/17435889.2024.2403326

16. Wu GH, Lee KM, Kao CY, Shih SR. The internal ribosome entry site determines the neurotropic potential of enterovirus A71. Microbes Infect. 2023;25(5):105107. doi:10.1016/j.micinf.2023.105107

17. Shao PL, Tu HC, Gong YN, et al. Emergence and Persistent Dominance of SARS-CoV-2 Omicron BA.2.3.7 Variant, Taiwan. Emerg Infect Dis. 2023;29(4):792-796. doi:10.3201/eid2904.221497

18. Mackeown M, Kung YA, Davila-Calderon J, et al. The 5’UTR of HCoV-OC43 adopts a topologically constrained structure to intrinsically repress translation. J Biol Chem. 2023;299(4):103028. doi:10.1016/j.jbc.2023.103028

19. Han YJ, Lee KM, Wu GH, Gong YN, Dutta A, Shih SR. Targeting influenza A virus by splicing inhibitor herboxidiene reveals the importance of subtype-specific signatures around splice sites. J Biomed Sci. 2023;30(1):10. doi:10.1186/s12929-023-00897-4

20. Kung YA, Huang SY, Huang CG, et al. Factors influencing neutralizing antibody titers elicited by coronavirus disease 2019 vaccines. Microbes Infect. 2023;25(1-2):105044. doi:10.1016/j.micinf.2022.105044

21. Chen W, Chen YH, Liao YC, Huang XW, Lu TJ, Shih SR. Effect of hot water extracts of Arthrospira maxima (spirulina) against respiratory syncytial virus. Phytomedicine. 2023;110:154611. doi:10.1016/j.phymed.2022.154611

22. Huang CG, Wu YC, Hsieh MJ, et al. Impact of patient characteristics on innate immune responses and inflammasome activation in ex vivo human lung tissues infected with influenza A virus. Front Cell Infect Microbiol. 2023;13:1269329. doi:10.3389/fcimb.2023.1269329

23. Chuang CH, Huang CG, Huang CT, et al. Titers and breadth of neutralizing antibodies against SARS-CoV-2 variants after heterologous booster vaccination in health care workers primed with two doses of  ChAdOx1 nCov-19: A single-blinded, randomized clinical trial. J Clin Virol. 2022;157:105328. doi:10.1016/j.jcv.2022.105328

24. Lee CH, Huang PN, Mwale PF, et al. The Bottlenecks of Preparing Virus Particles by Size Exclusion for Antibody Generation. Int J Mol Sci. 2022;23(21). doi:10.3390/ijms232112967

25. Chen CJ, Yang LY, Chang WY, et al. A randomized controlled trial of heterologous ChAdOx1 nCoV-19 and recombinant subunit vaccine MVC-COV1901 against COVID-19. Nat Commun. 2022;13(1):5466. doi:10.1038/s41467-022-33146-7

26. Chen CP, Huang KYA, Shih SR, et al. Anti-Spike Antibody Response to Natural Infection with SARS-CoV-2 and Its Activity against Emerging Variants. Microbiol Spectr. 2022;10(4):e0074322. doi:10.1128/spectrum.00743-22

27. Hsieh SM, Chang SC, Cheng HY, Shih SR, Lien CE. Durability and Immunogenicity of Neutralizing Antibodies Response Against Omicron Variants After Three Doses of Subunit SARS-CoV-2 Vaccine MVC-COV1901: An  Extension to an Open-Label, Dose-Escalation Phase 1 Study. Infect Dis Ther. 2022;11(4):1493-1504. doi:10.1007/s40121-022-00652-6

28. Wang PJ, Pang YH, Huang SY, et al. Microwave resonant absorption of SARS-CoV-2 viruses. Sci Rep. 2022;12(1):12596. doi:10.1038/s41598-022-16845-5

29. Kung YA, Lee KM, Chiang HJ, Huang SY, Wu CJ, Shih SR. Molecular Virology of SARS-CoV-2 and Related Coronaviruses. Microbiol Mol Biol Rev. 2022;86(2):e0002621. doi:10.1128/mmbr.00026-21

30. Chen CY, Liu KT, Shih SR, et al. Adequacy of Hemodialysis Serves as an Independent Predictor of Humoral Response to ChAdOx1 Prime-Boost Vaccination in Hemodialysis Patients. Viruses. 2022;14(6). doi:10.3390/v14061149

31. Nguyen TT, Chiu CH, Lin CY, et al. Efficacy, safety, and immunogenicity of an inactivated, adjuvanted enterovirus 71 vaccine in infants and children: a multiregion, double-blind, randomised,  placebo-controlled, phase 3 trial. Lancet. 2022;399(10336):1708-1717. doi:10.1016/S0140-6736(22)00313-0

32. Liu KT, Gong YN, Huang CG, et al. Quantifying Neutralizing Antibodies in Patients with COVID-19 by a Two-Variable Generalized Additive Model. mSphere. 2022;7(1):e0088321. doi:10.1128/msphere.00883-21

33. Kung YA, Chiang HJ, Li ML, et al. Acyl-Coenzyme A Synthetase Long-Chain Family Member 4 Is Involved in Viral Replication Organelle Formation and Facilitates Virus Replication via  Ferroptosis. mBio. 2022;13(1):e0271721. doi:10.1128/mbio.02717-21

34. Chen CY, Liu KT, Shih SR, et al. Neutralization Assessments Reveal High Cardiothoracic Ratio and Old Age as Independent Predictors of Low Neutralizing Antibody Titers in Hemodialysis  Patients Receiving a Single Dose of COVID-19 Vaccine. J Pers Med. 2022;12(1). doi:10.3390/jpm12010068

35. Gong YN, Lee KM, Shih SR. Evolution and Epidemiology of SARS-CoV-2 Virus. Methods Mol Biol. 2022;2452:3-18. doi:10.1007/978-1-0716-2111-0_1

36. Chiu YF, Huang YW, Chen CY, et al. Visualizing Influenza A Virus vRNA Replication. Front Microbiol. 2022;13:812711. doi:10.3389/fmicb.2022.812711

37. Hsieh SM, Liu MC, Chen YH, et al. Safety and immunogenicity of CpG 1018 and aluminium hydroxide-adjuvanted SARS-CoV-2 S-2P protein vaccine MVC-COV1901: interim results of a large-scale,  double-blind, randomised, placebo-controlled phase 2 trial in Taiwan. Lancet Respir Med. 2021;9(12):1396-1406. doi:10.1016/S2213-2600(21)00402-1

38. Janissen R, Woodman A, Shengjuler D, et al. Induced intra- and intermolecular template switching as a therapeutic mechanism against RNA viruses. Mol Cell. 2021;81(21):4467-4480.e7. doi:10.1016/j.molcel.2021.10.003

39. Chen YC, Kung YA, Janapatla RP, et al. Neutralization antibody titers against SARS-CoV-2 in an infant born to a mother with COVID-19. Pediatr Neonatol. 2021;62(6):661-663. doi:10.1016/j.pedneo.2021.07.007

40. Lin JY, Weng KF, Chang CK, et al. Enterovirus A71 Induces Neurological Diseases and Dynamic Variants in Oral Infection of Human SCARB2-Transgenic Weaned Mice. J Virol. 2021;95(21):e0089721. doi:10.1128/JVI.00897-21

41. Liu YC, Mok BWY, Wang P, Kuo RL, Chen H, Shih SR. Cellular 5’-3’ mRNA Exoribonuclease XRN1 Inhibits Interferon Beta Activation and Facilitates Influenza A Virus Replication. mBio. 2021;12(4):e0094521. doi:10.1128/mBio.00945-21

42. Hsieh SM, Liu WD, Huang YS, et al. Safety and immunogenicity of a Recombinant Stabilized Prefusion SARS-CoV-2 Spike Protein Vaccine (MVC-COV1901) Adjuvanted with CpG 1018 and Aluminum Hydroxide in  healthy adults: A Phase 1, dose-escalation study. EClinicalMedicine. 2021;38:100989. doi:10.1016/j.eclinm.2021.100989

43. Kiew LV, Chang CY, Huang SY, et al. Development of flexible electrochemical impedance spectroscopy-based biosensing platform for rapid screening of SARS-CoV-2 inhibitors. Biosens Bioelectron. 2021;183:113213. doi:10.1016/j.bios.2021.113213

44. Huang CG, Dutta A, Huang CT, et al. Relative COVID-19 Viral Persistence and Antibody Kinetics. Pathogens. 2021;10(6). doi:10.3390/pathogens10060752

45. Kuo RL, Chen YT, Li HA, et al. Molecular determinants and heterogeneity underlying host response to EV-A71 infection at single-cell resolution. RNA Biol. 2021;18(5):796-808. doi:10.1080/15476286.2021.1872976

46. Mwale PF, Lee CH, Huang PN, et al. In Vitro Characterization of Neutralizing Hen Antibodies to Coxsackievirus A16. Int J Mol Sci. 2021;22(8). doi:10.3390/ijms22084146

47. Huang SY, Kung YA, Huang PN, et al. Stability of SARS-CoV-2 Spike G614 Variant Surpasses That of the D614 Variant after Cold Storage. mSphere. 2021;6(2). doi:10.1128/mSphere.00104-21

48. Li ML, Shih SR, Tolbert BS, Brewer G. Enterovirus A71 Vaccines. Vaccines (Basel). 2021;9(3). doi:10.3390/vaccines9030199

49. Huang KYA, Tan TK, Chen TH, et al. Breadth and function of antibody response to acute SARS-CoV-2 infection in humans. PLoS Pathog. 2021;17(2):e1009352. doi:10.1371/journal.ppat.1009352

50. Wang HC, Huang PN, Hung HC, et al. Effect of a Neuropilin-1-Derived Virus Receptor Trap on Enterovirus A71 Infection In Vitro. Antimicrob Agents Chemother. 2020;65(1). doi:10.1128/AAC.00695-20

51. Wang HC, Hung HC, Huang PN, et al. Engineering a novel IgG-like bispecific antibody against enterovirus A71. Biochem Biophys Rep. 2020;24:100860. doi:10.1016/j.bbrep.2020.100860

52. Gong YN, Tsao KC, Hsiao MJ, et al. SARS-CoV-2 genomic surveillance in Taiwan revealed novel ORF8-deletion mutant and clade possibly associated with infections in Middle East. Emerg Microbes Infect. 2020;9(1):1457-1466. doi:10.1080/22221751.2020.1782271

53. Lee KM, Gong YN, Shih SR. Methods for detection and study of virus-derived small RNAs produced from the intramolecular base-pairing region of the picornavirus genome. Methods. 2020;183:4-12. doi:10.1016/j.ymeth.2019.08.011

54. Zhou D, Duyvesteyn HME, Chen CP, et al. Structural basis for the neutralization of SARS-CoV-2 by an antibody from a convalescent patient. Nat Struct Mol Biol. 2020;27(10):950-958. doi:10.1038/s41594-020-0480-y

55. Huang KYA, Huang PN, Huang YC, et al. Emergence of genotype C1 Enterovirus A71 and its link with antigenic variation of virus in Taiwan. PLoS Pathog. 2020;16(9):e1008857. doi:10.1371/journal.ppat.1008857

56. Hung HC, Ke YY, Huang SY, et al. Discovery of M Protease Inhibitors Encoded by SARS-CoV-2. Antimicrob Agents Chemother. 2020;64(9). doi:10.1128/AAC.00872-20

57. Liu YC, Kuo RL, Shih SR. COVID-19: The first documented coronavirus pandemic in history. Biomed J. 2020;43(4):328-333. doi:10.1016/j.bj.2020.04.007

58. Lin RJ, Huang CH, Liu PC, et al. Zinc finger protein ZFP36L1 inhibits influenza A virus through translational repression by targeting HA, M and NS RNA transcripts. Nucleic Acids Res. 2020;48(13):7371-7384. doi:10.1093/nar/gkaa458

59. Huang CG, Lee KM, Hsiao MJ, et al. Culture-Based Virus Isolation To Evaluate Potential Infectivity of Clinical Specimens Tested for COVID-19. J Clin Microbiol. 2020;58(8). doi:10.1128/JCM.01068-20

60. Huang HI, Lin JY, Chiang HC, Huang PN, Lin QD, Shih SR. Exosomes Facilitate Transmission of Enterovirus A71 From Human Intestinal Epithelial Cells. J Infect Dis. 2020;222(3):456-469. doi:10.1093/infdis/jiaa174

61. Huang PN, Wang HC, Hung HC, et al. Antiviral Activity of a Llama-Derived Single-Domain Antibody against Enterovirus A71. Antimicrob Agents Chemother. 2020;64(5). doi:10.1128/AAC.01922-19

62. Lee KM, Wu CC, Wu SE, et al. The RNA-dependent RNA polymerase of enterovirus A71 associates with ribosomal proteins and positively regulates protein translation. RNA Biol. 2020;17(4):608-622. doi:10.1080/15476286.2020.1722448

63. Ho SY, Chiu CH, Huang YC, et al. Investigation and successful control of an echovirus 11 outbreak in neonatal intensive care units. Pediatr Neonatol. 2020;61(2):180-187. doi:10.1016/j.pedneo.2019.09.012

64. Hung SJ, Hsu YM, Huang SW, et al. Genetic variations on 31 and 450 residues of influenza A nucleoprotein affect viral replication and translation. J Biomed Sci. 2020;27(1):17. doi:10.1186/s12929-019-0612-z

65. Peltola V, Shih SR, To KKW. Editorial: Respiratory Virus Infection: Recent Advances. Front Med (Lausanne). 2020;7:257. doi:10.3389/fmed.2020.00257

66. Chen BS, Lee HC, Lee KM, Gong YN, Shih SR. Enterovirus and Encephalitis. Front Microbiol. 2020;11:261. doi:10.3389/fmicb.2020.00261

67. Huang CT, Hung CY, Hseih YC, et al. Effect of aloin on viral neuraminidase and hemagglutinin-specific T cell immunity in acute influenza. Phytomedicine. 2019;64:152904. doi:10.1016/j.phymed.2019.152904

68. Huang SY, Huang CH, Chen CJ, et al. Novel Role for miR-1290 in Host Species Specificity of Influenza A Virus. Mol Ther Nucleic Acids. 2019;17:10-23. doi:10.1016/j.omtn.2019.04.028

69. Lin JY, Kung YA, Shih SR. Antivirals and vaccines for Enterovirus A71. J Biomed Sci. 2019;26(1):65. doi:10.1186/s12929-019-0560-7

70. Lin RW, Chen GW, Sung HH, et al. Naturally occurring mutations in PB1 affect influenza A virus replication fidelity, virulence, and adaptability. J Biomed Sci. 2019;26(1):55. doi:10.1186/s12929-019-0547-4

71. Kuo RL, Chen CJ, Wang RYL, et al. Role of Enteroviral RNA-Dependent RNA Polymerase in Regulation of MDA5-Mediated Beta Interferon Activation. J Virol. 2019;93(10). doi:10.1128/JVI.00132-19

72. Gong YN, Tsao KC, Chen GW, et al. Population dynamics at neuraminidase position 151 of influenza A (H1N1)pdm09 virus in clinical specimens. J Gen Virol. 2019;100(5):752-759. doi:10.1099/jgv.0.001258

73. Woodman A, Lee KM, Janissen R, et al. Predicting Intraserotypic Recombination in Enterovirus 71. J Virol. 2019;93(4). doi:10.1128/JVI.02057-18

74. Li ML, Lin JY, Chen BS, et al. EV71 3C protease induces apoptosis by cleavage of hnRNP A1 to promote apaf-1 translation. PLoS One. 2019;14(9):e0221048. doi:10.1371/journal.pone.0221048

75. Yeung ML, Jia L, Yip CCY, et al. Human tryptophanyl-tRNA synthetase is an IFN-γ-inducible entry factor for Enterovirus. J Clin Invest. 2018;128(11):5163-5177. doi:10.1172/JCI99411

76. Gong YN, Kuo RL, Chen GW, Shih SR. Centennial review of influenza in Taiwan. Biomed J. 2018;41(4):234-241. doi:10.1016/j.bj.2018.08.002

77. Lee KM, Gong YN, Hsieh TH, et al. Discovery of Enterovirus A71-like nonstructural genomes in recent circulating viruses of the Enterovirus A species. Emerg Microbes Infect. 2018;7(1):111. doi:10.1038/s41426-018-0107-0

78. Huang CG, Lee LA, Wu YC, et al. A pilot study on primary cultures of human respiratory tract epithelial cells to predict patients’ responses to H7N9 infection. Oncotarget. 2018;9(18):14492-14508. doi:10.18632/oncotarget.24537

79. Chen CJ, Wu GH, Kuo RL, Shih SR. Role of the intestinal microbiota in the immunomodulation of influenza virus infection. Microbes Infect. 2017;19(12):570-579. doi:10.1016/j.micinf.2017.09.002

80. Arthur Huang KY, Chen MF, Huang YC, et al. Epitope-associated and specificity-focused features of EV71-neutralizing antibody repertoires from plasmablasts of infected children. Nat Commun. 2017;8(1):762. doi:10.1038/s41467-017-00736-9

81. Lee KM, Chen CJ, Shih SR. Regulation Mechanisms of Viral IRES-Driven Translation. Trends Microbiol. 2017;25(7):546-561. doi:10.1016/j.tim.2017.01.010

82. Kuo SM, Chen CJ, Chang SC, et al. Inhibition of Avian Influenza A Virus Replication in Human Cells by Host Restriction Factor TUFM Is Correlated with Autophagy. mBio. 2017;8(3). doi:10.1128/mBio.00481-17

83. Huang CG, Lee LA, Liao CT, et al. Molecular and serologic markers of HPV 16 infection are associated with local recurrence in patients with oral cavity squamous cell carcinoma. Oncotarget. 2017;8(21):34820-34835. doi:10.18632/oncotarget.16747

84. Huang PN, Jheng JR, Arnold JJ, Wang JR, Cameron CE, Shih SR. UGGT1 enhances enterovirus 71 pathogenicity by promoting viral RNA synthesis and viral replication. PLoS Pathog. 2017;13(5):e1006375. doi:10.1371/journal.ppat.1006375

85. Kung YA, Hung CT, Chien KY, Shih SR. Control of the negative IRES trans-acting factor KHSRP by ubiquitination. Nucleic Acids Res. 2017;45(1):271-287. doi:10.1093/nar/gkw1042

86. Chen MF, Weng KF, Huang SY, et al. Pretreatment with a heat-killed probiotic modulates monocyte chemoattractant protein-1 and reduces the pathogenicity of influenza and enterovirus 71  infections. Mucosal Immunol. 2017;10(1):215-227. doi:10.1038/mi.2016.31

87. Chang CK, Chen CJ, Wu CC, Chen SW, Shih SR, Kuo RL. Cellular hnRNP A2/B1 interacts with the NP of influenza A virus and impacts viral replication. PLoS One. 2017;12(11):e0188214. doi:10.1371/journal.pone.0188214

88. Chen MF, Shih SR. Motor coordination and balance measurements reveal differential pathogenicity of currently spreading enterovirus 71 strains in human SCARB2 transgenic mice. J Gen Virol. 2016;97(12):3243-3247. doi:10.1099/jgv.0.000640

89. Hung CT, Kung YA, Li ML, et al. Additive Promotion of Viral Internal Ribosome Entry Site-Mediated Translation by Far Upstream Element-Binding Protein 1 and an Enterovirus 71-Induced Cleavage  Product. PLoS Pathog. 2016;12(10):e1005959. doi:10.1371/journal.ppat.1005959

90. Li ML, Weng KF, Shih SR, Brewer G. The evolving world of small RNAs from RNA viruses. Wiley Interdiscip Rev RNA. 2016;7(5):575-588. doi:10.1002/wrna.1351

91. Huang HI, Chang YY, Lin JY, et al. Interactome analysis of the EV71 5’ untranslated region in differentiated neuronal cells SH-SY5Y and regulatory role of FBP3 in viral replication. Proteomics. 2016;16(17):2351-2362. doi:10.1002/pmic.201600098

92. Gong YN, Yang SL, Shih SR, et al. Molecular evolution and the global reemergence of enterovirus D68 by genome-wide analysis. Medicine (Baltimore). 2016;95(31):e4416. doi:10.1097/MD.0000000000004416

93. Kuo SM, Chen GW, Velu AB, et al. Circulating pattern and genomic characteristics of influenza B viruses in Taiwan from 2003 to 2014. J Formos Med Assoc. 2016;115(7):510-522. doi:10.1016/j.jfma.2016.01.017

94. Ho JY, Chern JH, Hsieh CF, et al. In vitro and in vivo studies of a potent capsid-binding inhibitor of enterovirus 71. J Antimicrob Chemother. 2016;71(7):1922-1932. doi:10.1093/jac/dkw101

95. Kuo RL, Li ZH, Li LH, et al. Interactome Analysis of the NS1 Protein Encoded by Influenza A H1N1 Virus Reveals a Positive Regulatory Role of Host Protein PRP19 in Viral Replication. J Proteome Res. 2016;15(5):1639-1648. doi:10.1021/acs.jproteome.6b00103

96. Kuo RL, Li LH, Lin SJ, et al. Role of N Terminus-Truncated NS1 Proteins of Influenza A Virus in Inhibiting IRF3 Activation. J Virol. 2016;90(9):4696-4705. doi:10.1128/JVI.02843-15

97. Chen YH, Chang GK, Kuo SM, et al. Well-tolerated Spirulina extract inhibits influenza virus replication and reduces virus-induced mortality. Sci Rep. 2016;6:24253. doi:10.1038/srep24253

98. Gong YN, Chen GW, Yang SL, Lee CJ, Shih SR, Tsao KC. A Next-Generation Sequencing Data Analysis Pipeline for Detecting Unknown Pathogens from Mixed Clinical Samples and Revealing Their Genetic Diversity. PLoS One. 2016;11(3):e0151495. doi:10.1371/journal.pone.0151495

99. Chen GW, Kuo SM, Yang SL, et al. Genomic Signatures for Avian H7N9 Viruses Adapting to Humans. PLoS One. 2016;11(2):e0148432. doi:10.1371/journal.pone.0148432

100. Huang HI, Shih SR. Neurotropic Enterovirus Infections in the Central Nervous System. Viruses. 2015;7(11):6051-6066. doi:10.3390/v7112920

101. Weng KF, Hsieh PT, Huang HI, Shih SR. Mammalian RNA virus-derived small RNA: biogenesis and functional activity. Microbes Infect. 2015;17(8):557-563. doi:10.1016/j.micinf.2015.04.005

102. Mok CK, Chang SC, Chen GW, et al. Pyrosequencing reveals an oseltamivir-resistant marker in the quasispecies of avian influenza A (H7N9) virus. J Microbiol Immunol Infect. 2015;48(4):465-469. doi:10.1016/j.jmii.2013.09.010

103. Chen GW, Gong YN, Shih SR. Influenza A virus plasticity-A temporal analysis of species-associated genomic signatures. J Formos Med Assoc. 2015;114(5):456-463. doi:10.1016/j.jfma.2015.01.015

104. Kuo RL, Lin YH, Wang RYL, et al. Proteomics analysis of EV71-infected cells reveals the involvement of host protein NEDD4L in EV71 replication. J Proteome Res. 2015;14(4):1818-1830. doi:10.1021/pr501199h

105. Velu AB, Chen GW, Hsieh PT, et al. BPR-3P0128 inhibits RNA-dependent RNA polymerase elongation and VPg uridylylation activities of Enterovirus 71. Antiviral Res. 2014;112:18-25. doi:10.1016/j.antiviral.2014.10.003

106. Lin SJ, Lo M, Kuo RL, et al. The pathological effects of CCR2+ inflammatory monocytes are amplified by an IFNAR1-triggered chemokine feedback loop in highly pathogenic influenza  infection. J Biomed Sci. 2014;21(1):99. doi:10.1186/s12929-014-0099-6

107. Weng KF, Hung CT, Hsieh PT, et al. A cytoplasmic RNA virus generates functional viral small RNAs and regulates viral IRES activity in mammalian cells. Nucleic Acids Res. 2014;42(20):12789-12805. doi:10.1093/nar/gku952

108. Kuo RL, Yang SL, Liu YC, et al. Influenza A/B virus detection and influenza A virus subtyping with emphasis on the novel H7N9 virus by using multiplex real-time RT-PCR. J Virol Methods. 2014;208:41-46. doi:10.1016/j.jviromet.2014.07.020

109. Huang HI, Lin JY, Chen HH, et al. Enterovirus 71 infects brain-derived neural progenitor cells. Virology. 2014;468-470:592-600. doi:10.1016/j.virol.2014.09.017

110. Kung YA, Hung CT, Liu YC, Shih SR. Update on the development of enterovirus 71 vaccines. Expert Opin Biol Ther. 2014;14(10):1455-1464. doi:10.1517/14712598.2014.935330

111. Tsao KC, Chiou CC, Chen TL, Huang CG, Hsieh EF, Shih SR. Detection of low copies of drug-resistant influenza viral gene by a single-tube reaction using peptide nucleic acid as both PCR clamp and sensor probe. J Microbiol Immunol Infect. 2014;47(3):254-256. doi:10.1016/j.jmii.2012.09.006

112. Liu YC, Kuo RL, Lin JY, et al. Cytoplasmic viral RNA-dependent RNA polymerase disrupts the intracellular splicing machinery by entering the nucleus and interfering with Prp8. PLoS Pathog. 2014;10(6):e1004199. doi:10.1371/journal.ppat.1004199

113. Huang PN, Shih SR. Update on enterovirus 71 infection. Curr Opin Virol. 2014;5:98-104. doi:10.1016/j.coviro.2014.03.007

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