Yongsheng Shi

Title(s)Professor, Microbiology and Molecular Genetics
SchoolSchool of Medicine
Address1001 Health Sciences Road
Irvine CA 92697-3950
Phone(949) 824-0358
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    Collapse Research 
    Collapse Research Activities and Funding
    Molecular basis of the anti-cancer and anti-inflammation activities of JTE607
    NIH R21AI166703Sep 24, 2021 - Aug 31, 2023
    Role: Principal Investigator
    Nuclear functions co-opted by human rhinovirus during replication in the cytoplasm of infected cells
    NIH R01AI155962Jul 2, 2021 - Aug 31, 2026
    Role: Co-Principal Investigator
    Translational control in neurogenesis by ZNF804A
    NIH R01MH122556Apr 1, 2020 - Jan 30, 2025
    Role: Co-Principal Investigator
    Herpes simplex virus-mediated regulation of host gene expression
    NIH R01GM128441May 1, 2018 - Mar 31, 2022
    Role: Principal Investigator
    Coordinated regulation of alternative pre-mRNA processing in colon cancer
    NIH R01CA177651May 1, 2014 - Oct 30, 2020
    Role: Co-Principal Investigator
    Characterization of the mammalian mRNA 3'-end processing complex
    NIH R01GM090056Mar 15, 2010 - Apr 30, 2023
    Role: Principal Investigator
    Phosphorylation regulation of SRp38 by cell signaling
    NIH F32GM070113May 1, 2004 - Apr 30, 2007
    Role: Principal Investigator

    Collapse Bibliographic 
    Collapse Publications
    Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help. to make corrections and additions.
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    Altmetrics Details PMC Citations indicate the number of times the publication was cited by articles in PubMed Central, and the Altmetric score represents citations in news articles and social media. (Note that publications are often cited in additional ways that are not shown here.) Fields are based on how the National Library of Medicine (NLM) classifies the publication's journal and might not represent the specific topic of the publication. Translation tags are based on the publication type and the MeSH terms NLM assigns to the publication. Some publications (especially newer ones and publications not in PubMed) might not yet be assigned Field or Translation tags.) Click a Field or Translation tag to filter the publications.
    1. The anticancer compound JTE-607 reveals hidden sequence specificity of the mRNA 3' processing machinery. Nat Struct Mol Biol. 2023 Dec; 30(12):1947-1957. Liu L, Yu AM, Wang X, Soles LV, Teng X, Chen Y, Yoon Y, Sarkan KSK, Valdez MC, Linder J, England W, Spitale R, Yu Z, Marazzi I, Qiao F, Li W, Seelig G, Shi Y. PMID: 38087090.
      View in: PubMed   Mentions:    Fields:    Translation:Cells
    2. Human pre-mRNA 3' end processing: reconstituting is believing. Genes Dev. 2022 02 01; 36(3-4):106-107. Yoon Y, Shi Y. PMID: 35193945; PMCID: PMC8887131.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    3. Diverse functional elements in RNA predicted transcriptome-wide by orthogonal RNA structure probing. Nucleic Acids Res. 2021 11 18; 49(20):11868-11882. Chan D, Feng C, England WE, Wyman D, Flynn RA, Wang X, Shi Y, Mortazavi A, Spitale RC. PMID: 34634799; PMCID: PMC8599799.
      View in: PubMed   Mentions: 4     Fields:    Translation:HumansCells
    4. PAS-seq 2: A fast and sensitive method for global profiling of polyadenylated RNAs. Methods Enzymol. 2021; 655:25-35. Yoon Y, Soles LV, Shi Y. PMID: 34183125.
      View in: PubMed   Mentions: 3     Fields:    Translation:HumansCells
    5. Mechanism and consequences of herpes simplex virus 1-mediated regulation of host mRNA alternative polyadenylation. PLoS Genet. 2021 03; 17(3):e1009263. Wang X, Liu L, Whisnant AW, Hennig T, Djakovic L, Haque N, Bach C, Sandri-Goldin RM, Erhard F, Friedel CC, Dölken L, Shi Y. PMID: 33684133; PMCID: PMC7971895.
      View in: PubMed   Mentions: 9     Fields:    Translation:HumansCells
    6. Crosstalk Between mRNA 3'-End Processing and Epigenetics. Front Genet. 2021; 12:637705. Soles LV, Shi Y. PMID: 33613650; PMCID: PMC7890070.
      View in: PubMed   Mentions: 9  
    7. Publisher Correction: Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt. Commun Biol. 2020 Sep 03; 3(1):495. Habowski AN, Flesher JL, Bates JM, Tsai CF, Martin K, Zhao R, Ganesan AK, Edwards RA, Shi T, Wiley HS, Shi Y, Hertel KJ, Waterman ML. PMID: 32884070; PMCID: PMC7471919.
      View in: PubMed   Mentions:
    8. Transcriptomic and proteomic signatures of stemness and differentiation in the colon crypt. Commun Biol. 2020 08 19; 3(1):453. Habowski AN, Flesher JL, Bates JM, Tsai CF, Martin K, Zhao R, Ganesan AK, Edwards RA, Shi T, Wiley HS, Shi Y, Hertel KJ, Waterman ML. PMID: 32814826; PMCID: PMC7438495.
      View in: PubMed   Mentions: 18  Translation:AnimalsCells
    9. Herpes simplex virus blocks host transcription termination via the bimodal activities of ICP27. Nat Commun. 2020 01 15; 11(1):293. Wang X, Hennig T, Whisnant AW, Erhard F, Prusty BK, Friedel CC, Forouzmand E, Hu W, Erber L, Chen Y, Sandri-Goldin RM, Dölken L, Shi Y. PMID: 31941886; PMCID: PMC6962326.
      View in: PubMed   Mentions: 40     Fields:    Translation:HumansAnimalsCells
    10. Molecular Mechanisms for CFIm-Mediated Regulation of mRNA Alternative Polyadenylation. Mol Cell. 2018 01 04; 69(1):62-74.e4. Zhu Y, Wang X, Forouzmand E, Jeong J, Qiao F, Sowd GA, Engelman AN, Xie X, Hertel KJ, Shi Y. PMID: 29276085; PMCID: PMC5756121.
      View in: PubMed   Mentions: 98     Fields:    Translation:HumansAnimalsCells
    11. Purification of mRNA Processing Complexes Using an RNA Affinity Approach. Methods Mol Biol. 2017; 1648:53-63. Wang X, Shi Y. PMID: 28766289.
      View in: PubMed   Mentions: 2     Fields:    Translation:HumansAnimalsCells
    12. Coupling between alternative polyadenylation and alternative splicing is limited to terminal introns. RNA Biol. 2016 07 02; 13(7):646-55. Movassat M, Crabb TL, Busch A, Yao C, Reynolds DJ, Shi Y, Hertel KJ. PMID: 27245359; PMCID: PMC4962795.
      View in: PubMed   Mentions: 18     Fields:    Translation:HumansCells
    13. Poly(A) code analyses reveal key determinants for tissue-specific mRNA alternative polyadenylation. RNA. 2016 06; 22(6):813-21. Weng L, Li Y, Xie X, Shi Y. PMID: 27095026; PMCID: PMC4878608.
      View in: PubMed   Mentions: 12     Fields:    Translation:HumansCells
    14. The end of the message: multiple protein-RNA interactions define the mRNA polyadenylation site. Genes Dev. 2015 May 01; 29(9):889-97. Shi Y, Manley JL. PMID: 25934501; PMCID: PMC4421977.
      View in: PubMed   Mentions: 148     Fields:    Translation:Cells
    15. Two decades of RNA as I see it. RNA. 2015 Apr; 21(4):733-4. Shi Y. PMID: 25780213; PMCID: PMC4371355.
      View in: PubMed   Mentions:    Fields:    Translation:HumansAnimals
    16. CPSF30 and Wdr33 directly bind to AAUAAA in mammalian mRNA 3' processing. Genes Dev. 2014 Nov 01; 28(21):2370-80. Chan SL, Huppertz I, Yao C, Weng L, Moresco JJ, Yates JR, Ule J, Manley JL, Shi Y. PMID: 25301780; PMCID: PMC4215182.
      View in: PubMed   Mentions: 129     Fields:    Translation:HumansCells
    17. The polyadenylation code: a unified model for the regulation of mRNA alternative polyadenylation. J Zhejiang Univ Sci B. 2014 May; 15(5):429-37. Davis R, Shi Y. PMID: 24793760; PMCID: PMC4076599.
      View in: PubMed   Mentions: 11     Fields:    Translation:HumansAnimalsCells
    18. Global and quantitative profiling of polyadenylated RNAs using PAS-seq. Methods Mol Biol. 2014; 1125:179-85. Yao C, Shi Y. PMID: 24590790; PMCID: PMC4412162.
      View in: PubMed   Mentions: 7     Fields:    Translation:Cells
    19. Global protein-RNA interaction mapping at single nucleotide resolution by iCLIP-seq. Methods Mol Biol. 2014; 1126:399-410. Yao C, Weng L, Shi Y. PMID: 24549678; PMCID: PMC4412157.
      View in: PubMed   Mentions: 3     Fields:    Translation:AnimalsCells
    20. Transcriptome-wide analyses of CstF64-RNA interactions in global regulation of mRNA alternative polyadenylation. Proc Natl Acad Sci U S A. 2012 Nov 13; 109(46):18773-8. Yao C, Biesinger J, Wan J, Weng L, Xing Y, Xie X, Shi Y. PMID: 23112178; PMCID: PMC3503179.
      View in: PubMed   Mentions: 125     Fields:    Translation:HumansCells
    21. Alternative polyadenylation: new insights from global analyses. RNA. 2012 Dec; 18(12):2105-17. Shi Y. PMID: 23097429; PMCID: PMC3504663.
      View in: PubMed   Mentions: 127     Fields:    Translation:HumansAnimalsCells
    22. Complex and dynamic landscape of RNA polyadenylation revealed by PAS-Seq. RNA. 2011 Apr; 17(4):761-72. Shepard PJ, Choi EA, Lu J, Flanagan LA, Hertel KJ, Shi Y. PMID: 21343387; PMCID: PMC3062186.
      View in: PubMed   Mentions: 255     Fields:    Translation:HumansAnimalsCells
    23. Pre-mRNA 3'-end processing complex assembly and function. Wiley Interdiscip Rev RNA. 2011 May-Jun; 2(3):321-35. Chan S, Choi EA, Shi Y. PMID: 21957020; PMCID: PMC3980678.
      View in: PubMed   Mentions: 80     Fields:    Translation:HumansAnimalsCells
    24. An up-close look at the pre-mRNA 3'-end processing complex. RNA Biol. 2009 Nov-Dec; 6(5):522-5. Shi Y, Chan S, Martinez-Santibañez G. PMID: 19713761.
      View in: PubMed   Mentions: 5     Fields:    Translation:HumansAnimalsCells
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