• 14144 Citations
  • 66 h-Index
1993 …2022

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Article
1993

Temperature-induced changes in photosynthetic activities and thylakoid membrane properties of Euglena gracilis

Zhong, S., Nolan, W. G. & Shi, P., 1993, In : Plant Science. 92, 2, p. 121-127 7 p.

Research output: Contribution to journalArticle

5 Scopus citations
1996

Cell proteins bind specifically to West Nile virus minus-strand 3' stem-loop RNA

Shi, P. Y., Wei, L. I. & Brinton, M. A., Sep 1 1996, In : Journal of virology. 70, 9, p. 6278-6287 10 p.

Research output: Contribution to journalArticle

57 Scopus citations

Evidence for the existence of a pseudoknot structure at the 3′ terminus of the flavivirus genomic RNA

Shi, P. Y., Brinton, M. A., Veal, J. M., Zhong, Y. Y. & Wilson, W. D., Apr 2 1996, In : Biochemistry. 35, 13, p. 4222-4230 9 p.

Research output: Contribution to journalArticle

108 Scopus citations
1997

Analysis of the structure and folding of the 3' genomic RNA of flaviviruses.

Shi, P. Y., Sklyarevskaya, T., Kebbekus, P., Brinton, M. & Wilson, W. D., 1997, In : Nucleic acids symposium series. 36, p. 52-55 4 p.

Research output: Contribution to journalArticle

Recovery of soluble, active recombinant protein from inclusion bodies

Shi, P. Y., Maizels, N. & Weiner, A. M., Dec 19 1997, In : BioTechniques. 23, 6, p. 1036-1038 3 p.

Research output: Contribution to journalArticle

39 Scopus citations
1998

A top-half tDNA minihelix is a good substrate for the eubacterial CCA- adding enzyme

Shi, P. Y., Weiner, A. M. & Maizels, N., Mar 1 1998, In : RNA. 4, 3, p. 276-284 9 p.

Research output: Contribution to journalArticle

59 Scopus citations

CCA addition by tRNA nucleotidyltransferase: Polymerization without translocation?

Shi, P. Y., Maizels, N. & Weiner, A. M., Jun 1 1998, In : EMBO Journal. 17, 11, p. 3197-3206 10 p.

Research output: Contribution to journalArticle

89 Scopus citations

Immune mediated and inherited defences against flaviviruses

Brinton, M. A., Kurane, I., Mathew, A., Zeng, L., Yong Shi, P., Rothman, A. & Ennis, F. A., Jul 15 1998, In : Clinical and Diagnostic Virology. 10, 2-3, p. 129-139 11 p.

Research output: Contribution to journalArticle

30 Scopus citations
1999

New evidence for the genomic tag hypothesis: Archaeal CCA-adding enzymes and tDNA substrates

Maizels, N., Weiner, A. M., Yue, D. & Shi, P. Y., Jan 1 1999, In : Biological Bulletin. 196, 3, p. 331-334 4 p.

Research output: Contribution to journalArticle

18 Scopus citations
2001

High-throughput detection of West Nile virus RNA

Shi, P. Y., Kauffman, E. B., Ren, P., Felton, A., Tai, J. H., Dupuis, A. P., Jones, S. A., Ngo, K. A., Nicholas, D. C., Maffei, J., Ebel, G. D., Bernard, K. A. & Kramer, L. D., Apr 18 2001, In : Journal of Clinical Microbiology. 39, 4, p. 1264-1271 8 p.

Research output: Contribution to journalArticle

172 Scopus citations

Partial genetic characterization of West Nile virus strains, New York State, 2000

Ebel, G. D., Dupuis, A. P., Ngo, K., Nicholas, D., Kauffman, E., Jones, S. A., Young, D., Maffei, J., Shi, P. Y., Bernard, K. & Kramer, L. D., Jan 1 2001, In : Emerging infectious diseases. 7, 4, p. 650-653 4 p.

Research output: Contribution to journalArticle

Open Access
104 Scopus citations

West Nile virus infection in birds and mosquitoes, New York State, 2000

Bernard, K. A., Maffei, J. G., Jones, S. A., Kauffman, E. B., Ebel, G. D., Dupuis, A. P., Ngo, K. A., Nicholas, D. C., Young, D. M., Shi, P. Y., Kulasekera, V. L., Eidson, M., White, D. J., Stone, W. B., Backenson, P. B., Gotham, I., Hagiwara, Y., Johnson, G. S., Lukacik, G., Schmit, K. & 2 others, Willsey, A. L. & Kramer, L. D., Jan 1 2001, In : Emerging infectious diseases. 7, 4, p. 679-685 7 p.

Research output: Contribution to journalArticle

Open Access
190 Scopus citations
2002

Construction and characterization of subgenomic replicons of New York strain of West Nile virus

Shi, P. Y., Tilgner, M. & Lo, M. K., Jan 1 2002, In : Virology. 296, 2, p. 219-233 15 p.

Research output: Contribution to journalArticle

112 Scopus citations

Infectious cDNA clone of the epidemic West Nile virus from New York City

Shi, P. Y., Tilgner, M., Lo, M. K., Kent, K. A. & Bernard, K. A., Jun 5 2002, In : Journal of virology. 76, 12, p. 5847-5856 10 p.

Research output: Contribution to journalArticle

163 Scopus citations
2003

Discovery of 4-benzoyl-1-[(4-methoxy-1H-pyrrolo[2,3-b]pyridin-3-yl)oxoacetyl]-2-(R) -methylpiperazine (BMS-378806): A novel HIV-1 attachment inhibitor that interferes with CD4-gp120 interactions

Wang, T., Zhang, Z., Wallace, O. B., Deshpande, M., Fang, H., Yang, Z., Zadjura, L. M., Tweedie, D. L., Huang, S., Zhao, F., Ranadive, S., Robinson, B. S., Gong, Y. F., Ricarrdi, K., Spicer, T. P., Deminie, C., Rose, R., Wang, H. G. H., Blair, W. S., Shi, P. Y. & 3 others, Lin, P. F., Colonno, R. J. & Meanwell, N. A., Sep 25 2003, In : Journal of Medicinal Chemistry. 46, 20, p. 4236-4239 4 p.

Research output: Contribution to journalArticle

180 Scopus citations
147 Scopus citations

Immunoassay targeting nonstructural protein 5 to differentiate West Nile virus infection from dengue and St. Louis encephalitis virus infections and from flavivirus vaccination

Wong, S. J., Boyle, R. H., Demarest, V. L., Woodmansee, A. N., Kramer, L. D., Li, H., Drebot, M., Koski, R. A., Fikrig, E., Martin, D. A. & Shi, P. Y., Sep 1 2003, In : Journal of Clinical Microbiology. 41, 9, p. 4217-4223 7 p.

Research output: Contribution to journalArticle

96 Scopus citations

Potential High-Throughput Assay for Screening Inhibitors of West Nile Virus Replication

Lo, M. K., Tilgner, M. & Shi, P. Y., Dec 1 2003, In : Journal of virology. 77, 23, p. 12901-12906 6 p.

Research output: Contribution to journalArticle

54 Scopus citations
2004

Structure and function of the 3′ terminal six nucleotides of the West Nile virus genome in viral replication

Tilgner, M. & Shi, P. Y., Aug 1 2004, In : Journal of virology. 78, 15, p. 8159-8171 13 p.

Research output: Contribution to journalArticle

60 Scopus citations

Tetracycline-Inducible Packaging Cell Line for Production of Flavivirus Replicon Particles

Harvey, T. J., Liu, W. J., Wang, X. J., Linedale, R., Jacobs, M., Davidson, A., Le, T. T. T., Anraku, I., Suhrbier, A., Shi, P. Y. & Khromykh, A. A., Jan 1 2004, In : Journal of virology. 78, 1, p. 531-538 8 p.

Research output: Contribution to journalArticle

58 Scopus citations

The host response to West Nile Virus infection limits viral spread through the activation of the interferon regulatory factor 3 pathway

Fredericksen, B. L., Smith, M., Katze, M. G., Shi, P. Y. & Gale, M., Jul 1 2004, In : Journal of virology. 78, 14, p. 7737-7747 11 p.

Research output: Contribution to journalArticle

111 Scopus citations
2005

High-throughput assays using a luciferase-expressing replicon, virus-like particles, and full-length virus for West Nile virus drug discovery

Puig-Basagoiti, F., Deas, T. S., Ren, P., Tilgner, M., Ferguson, D. M. & Shi, P. Y., Dec 1 2005, In : Antimicrobial agents and chemotherapy. 49, 12, p. 4980-4988 9 p.

Research output: Contribution to journalArticle

85 Scopus citations

Inhibition of flavivirus infections by antisense oligomers specifically suppressing viral translation and RNA replication

Deas, T. S., Binduga-Gajewska, I., Tilgner, M., Ren, P., Stein, D. A., Moulton, H. M., Iversen, P. L., Kauffman, E. B., Kramer, L. D. & Shi, P. Y., Apr 1 2005, In : Journal of virology. 79, 8, p. 4599-4609 11 p.

Research output: Contribution to journalArticle

139 Scopus citations

Inhibition of interferon signaling by the New York 99 strain and Kunjin subtype of West Nile virus involves blockage of STAT1 and STAT2 activation by nonstructural proteins

Liu, W. J., Wang, X. J., Mokhonov, V. V., Shi, P. Y., Randall, R. & Khromykh, A. A., Feb 1 2005, In : Journal of virology. 79, 3, p. 1934-1942 9 p.

Research output: Contribution to journalArticle

217 Scopus citations

Stimulation of hepatitis C virus (HCV) nonstructural protein 3 (NS3) helicase activity by the NS3 protease domain and by HCV RNA-dependent RNA polymerase

Zhang, C., Cai, Z., Kim, Y. C., Kumar, R., Yuan, F., Shi, P. Y., Kao, C. & Luo, G., Jul 1 2005, In : Journal of virology. 79, 14, p. 8687-8697 11 p.

Research output: Contribution to journalArticle

61 Scopus citations
72 Scopus citations
2006

Detection of antibodies to West Nile virus in equine sera using microsphere immunoassay

Balasuriya, U. B. R., Shi, P. Y., Wong, S. J., Demarest, V. L., Gardner, I. A., Hullinger, P. J., Ferraro, G. L., Boone, J. D., De Cino, C. L., Glaser, A. L., Renshaw, R. W., Ledizet, M., Koski, R. A. & MacLachlan, N. J., Jul 2006, In : Journal of Veterinary Diagnostic Investigation. 18, 4, p. 392-395 4 p.

Research output: Contribution to journalArticle

Open Access
27 Scopus citations

Identification of compounds with anti-West Nile virus activity

Goodell, J. R., Puig-Basagoiti, F., Forshey, B. M., Shi, P. Y. & Ferguson, D. M., Mar 23 2006, In : Journal of Medicinal Chemistry. 49, 6, p. 2127-2137 11 p.

Research output: Contribution to journalArticle

117 Scopus citations

Triaryl pyrazoline compound inhibits flavivirus RNA replication

Puig-Basagoiti, F., Tilgner, M., Forshey, B. M., Philpott, S. M., Espina, N. G., Wentworth, D. E., Goebel, S. J., Masters, P. S., Falgout, B., Ren, P., Ferguson, D. M. & Shi, P. Y., Apr 1 2006, In : Antimicrobial agents and chemotherapy. 50, 4, p. 1320-1329 10 p.

Research output: Contribution to journalArticle

101 Scopus citations

West Nile virus 5′-cap structure is formed by sequential guanine N-7 and ribose 2′-O methylations by nonstructural protein 5

Ray, D., Shah, A., Tilgner, M., Guo, Y., Zhao, Y., Dong, H., Deas, T. S., Zhou, Y., Li, H. & Shi, P. Y., Sep 1 2006, In : Journal of virology. 80, 17, p. 8362-8370 9 p.

Research output: Contribution to journalArticle

242 Scopus citations

West Nile virus infection of the placenta

Julander, J. G., Winger, Q. A., Rickords, L. F., Shi, P. Y., Tilgner, M., Binduga-Gajewska, I., Sidwell, R. W. & Morrey, J. D., Mar 30 2006, In : Virology. 347, 1, p. 175-182 8 p.

Research output: Contribution to journalArticle

21 Scopus citations
2007

A mouse cell-adapted NS4B mutation attenuates West Nile virus RNA synthesis

Puig-Basagoiti, F., Tilgner, M., Bennett, C. J., Zhou, Y., Muñoz-Jordán, J. L., García-Sastre, A., Bernard, K. A. & Shi, P. Y., Apr 25 2007, In : Virology. 361, 1, p. 229-241 13 p.

Research output: Contribution to journalArticle

41 Scopus citations

Distinct RNA elements confer specificity to flavivirus RNA cap methylation events

Dong, H., Ray, D., Ren, S., Zhang, B., Puig-Basagoiti, F., Takagi, Y., Ho, C. K., Li, H. & Shi, P. Y., May 1 2007, In : Journal of virology. 81, 9, p. 4412-4421 10 p.

Research output: Contribution to journalArticle

82 Scopus citations

Incidence and effects of West Nile virus infection in vaccinated and unvaccinated horses in California

Gardner, I. A., Wong, S. J., Ferraro, G. L., Balasuriya, U. B., Hullinger, P. J., Wilson, W. D., Shi, P. Y. & MacLachlan, N. J., Jan 1 2007, In : Veterinary Research. 38, 1, p. 109-116 8 p.

Research output: Contribution to journalArticle

32 Scopus citations

Interaction between the cellular protein eEF1A and the 3′-terminal stem-loop of west nile virus genomic RNA facilitates viral minus-strand RNA synthesis

Davis, W. G., Blackwell, J. L., Shi, P. Y. & Brinton, M. A., Sep 1 2007, In : Journal of virology. 81, 18, p. 10172-10187 16 p.

Research output: Contribution to journalArticle

107 Scopus citations

In vitro resistance selection and in vivo efficacy of morpholino oligomers against west nile virus

Deas, T. S., Bennett, C. J., Jones, S. A., Tilgner, M., Ren, P., Behr, M. J., Stein, D. A., Iversen, P. L., Kramer, L. D., Bernard, K. A. & Shi, P. Y., Jul 1 2007, In : Antimicrobial Agents and Chemotherapy. 51, 7, p. 2470-2482 13 p.

Research output: Contribution to journalArticle

60 Scopus citations

Role of the mutant spectrum in adaptation and replication of West Nile virus

Ciota, A. T., Ngo, K. A., Lovelace, A. O., Payne, A. F., Zhou, Y., Shi, P. Y. & Kramer, L. D., Mar 1 2007, In : Journal of General Virology. 88, 3, p. 865-874 10 p.

Research output: Contribution to journalArticle

64 Scopus citations

Structure and function of flavivirus NS5 methyltransferase

Zhou, Y., Ray, D., Zhao, Y., Dong, H., Ren, S., Li, Z., Guo, Y., Bernard, K. A., Shi, P. Y. & Li, H., Apr 1 2007, In : Journal of virology. 81, 8, p. 3891-3903 13 p.

Research output: Contribution to journalArticle

225 Scopus citations

The West Nile virus mutant spectrum is host-dependant and a determinant of mortality in mice

Jerzak, G. V. S., Bernard, K., Kramer, L. D., Shi, P. Y. & Ebel, G. D., Apr 10 2007, In : Virology. 360, 2, p. 469-476 8 p.

Research output: Contribution to journalArticle

84 Scopus citations
2008

A Highly Structured, Nuclease-Resistant, Noncoding RNA Produced by Flaviviruses Is Required for Pathogenicity

Pijlman, G. P., Funk, A., Kondratieva, N., Leung, J., Torres, S., van der Aa, L., Liu, W. J., Palmenberg, A. C., Shi, P. Y., Hall, R. A. & Khromykh, A. A., Dec 11 2008, In : Cell Host and Microbe. 4, 6, p. 579-591 13 p.

Research output: Contribution to journalArticle

250 Scopus citations

Co-selection of West Nile virus nucleotides that confer resistance to an antisense oligomer while maintaining long-distance RNA/RNA base pairings

Zhang, B., Dong, H., Stein, D. A. & Shi, P. Y., Dec 5 2008, In : Virology. 382, 1, p. 98-106 9 p.

Research output: Contribution to journalArticle

11 Scopus citations

Genetic diversity and purifying selection in West Nile virus populations are maintained during host switching

Jerzak, G. V. S., Brown, I., Shi, P. Y., Kramer, L. D. & Ebel, G. D., May 10 2008, In : Virology. 374, 2, p. 256-260 5 p.

Research output: Contribution to journalArticle

53 Scopus citations

Genetic interactions among the West Nile virus methyltransferase, the RNA-dependent RNA polymerase, and the 5′ stem-loop of genomic RNA

Zhang, B., Dong, H., Zhou, Y. & Shi, P. Y., Jul 1 2008, In : Journal of virology. 82, 14, p. 7047-7058 12 p.

Research output: Contribution to journalArticle

44 Scopus citations

Separate molecules of West Nile virus methyltransferase can independently catalyze the N7 and 2′-O methylations of viral RNA cap

Dong, H., Ren, S., Li, H. & Shi, P. Y., Jul 20 2008, In : Virology. 377, 1, p. 1-6 6 p.

Research output: Contribution to journalArticle

28 Scopus citations

Terminal structures of West Nile virus genomic RNA and their interactions with viral NS5 protein

Dong, H., Zhang, B. & Shi, P. Y., Nov 10 2008, In : Virology. 381, 1, p. 123-135 13 p.

Research output: Contribution to journalArticle

52 Scopus citations

West Nile virus genome cyclization and RNA replication require two pairs of long-distance RNA interactions

Zhang, B., Dong, H., Stein, D. A., Iversen, P. L. & Shi, P. Y., Mar 30 2008, In : Virology. 373, 1, p. 1-13 13 p.

Research output: Contribution to journalArticle

70 Scopus citations

West Nile virus infection of Drosophila melanogaster induces a protective RNAi response

Chotkowski, H. L., Ciota, A. T., Jia, Y., Puig-Basagoiti, F., Kramer, L. D., Shi, P. Y. & Glaser, R. L., Jul 20 2008, In : Virology. 377, 1, p. 197-206 10 p.

Research output: Contribution to journalArticle

78 Scopus citations

West Nile virus methyltransferase catalyzes two methylations of the viral RNA cap through a substrate-repositioning mechanism

Dong, H., Ren, S., Zhang, B., Zhou, Y., Puig-Basagoiti, F., Li, H. & Shi, P. Y., May 1 2008, In : Journal of virology. 82, 9, p. 4295-4307 13 p.

Research output: Contribution to journalArticle

75 Scopus citations
2009

An adenosine nucleoside inhibitor of dengue virus

Yin, Z., Chen, Y. L., Schul, W., Wang, Q. Y., Gu, F., Duraiswamy, J., Kondreddi, R. R., Niyomrattanakit, P., Lakshminarayana, S. B., Goh, A., Xu, H. Y., Liu, W., Liu, B., Lim, J. Y. H., Ng, C. Y., Qing, M., Lim, C. C., Yip, A., Wang, G., Chan, W. L. & 14 others, Tan, H. P., Lin, K., Zhang, B., Zou, G., Bernard, K. A., Garrett, C., Beltz, K., Dong, M., Weaver, M., He, H., Pichota, A., Dartois, V., Keller, T. H. & Shi, P. Y., Dec 1 2009, In : Proceedings of the National Academy of Sciences of the United States of America. 106, 48, p. 20435-20439 5 p.

Research output: Contribution to journalArticle

215 Scopus citations

Antiviral effect of interferon lambda against West Nile virus

Ma, D., Jiang, D., Qing, M., Weidner, J. M., Qu, X., Guo, H., Chang, J., Gu, B., Shi, P. Y., Block, T. M. & Guo, J. T., Jul 1 2009, In : Antiviral research. 83, 1, p. 53-60 8 p.

Research output: Contribution to journalArticle

39 Scopus citations