Zefeng Wang

Summary

Affiliation: University of North Carolina
Country: USA

Publications

  1. pmc Splicing regulation: from a parts list of regulatory elements to an integrated splicing code
    Zefeng Wang
    Department of Pharmacology, School of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    RNA 14:802-13. 2008
  2. pmc A complex network of factors with overlapping affinities represses splicing through intronic elements
    Yang Wang
    Department of Pharmacology, Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina, USA
    Nat Struct Mol Biol 20:36-45. 2013
  3. pmc Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules
    Yang Wang
    Department of Pharmacology, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
    Nat Struct Mol Biol 19:1044-52. 2012
  4. pmc A day in the life of the spliceosome
    A Gregory Matera
    Department of Biology, Department of Genetics and Integrative Program for Biological and Genome Sciences, Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    Nat Rev Mol Cell Biol 15:108-21. 2014
  5. pmc Engineered proteins with Pumilio/fem-3 mRNA binding factor scaffold to manipulate RNA metabolism
    Yang Wang
    Department of Pharmacology, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
    FEBS J 280:3755-67. 2013
  6. pmc The splicing factor RBM4 controls apoptosis, proliferation, and migration to suppress tumor progression
    Yang Wang
    Institute of Cancer Stem Cell, Second Affiliated Hospital, Cancer Center, Dalian Medical University, Dalian 116044, China Department of Pharmacology and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA Electronic address
    Cancer Cell 26:374-89. 2014
  7. pmc Engineering splicing factors with designed specificities
    Yang Wang
    Department of Pharmacology, School of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
    Nat Methods 6:825-30. 2009
  8. pmc Treatment of type 1 myotonic dystrophy by engineering site-specific RNA endonucleases that target (CUG)(n) repeats
    Wenjing Zhang
    1 Institute of Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, China 2 Department of Pharmacology and Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
    Mol Ther 22:312-20. 2014
  9. pmc Quantitative analysis of focused a-to-I RNA editing sites by ultra-high-throughput sequencing in psychiatric disorders
    Hu Zhu
    Department of Pharmacology, University of North Carolina Chapel Hill Medical School, Chapel Hill, North Carolina, United States of America
    PLoS ONE 7:e43227. 2012
  10. pmc Transcriptome-wide identification and study of cancer-specific splicing events across multiple tumors
    Yihsuan S Tsai
    Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, NC 27599, USA
    Oncotarget 6:6825-39. 2015

Collaborators

  • Gene Yeo
  • Xinshu Xiao
  • Traci M Tanaka Hall
  • Shawn M Gomez
  • Yan Liu
  • Yongfeng Jin
  • Gang Lu
  • C B Burge
  • A Gregory Matera
  • Yang Wang
  • Rajarshi Choudhury
  • Yihsuan S Tsai
  • Daniel Dominguez
  • Shuyun Dong
  • Wenjing Zhang
  • Meng Ma
  • Hu Zhu
  • Piotr Mieczkowski
  • Bryan L Roth
  • Wesley K Kroeze
  • Daniel J Urban
  • Atheir I Abbas
  • Christin E Burd
  • Shujuan Shao
  • Ashutosh Tripathy
  • Quentin Liu
  • Haili Qian
  • Sreerupa Ghose Roy
  • Dan Chen
  • Lee M Graves
  • James C Morris
  • Jianming Zhang
  • Kai Li
  • Traci M Tanaka Hall
  • Alex Robertson
  • Gouri J Mahajan
  • James C Overholser
  • George J Jurjus
  • Lesa Dieter
  • Grazyna Rajkowska
  • Patrick F Sullivan
  • Craig A Stockmeier
  • Jared Blashka
  • Matthew T McPheeters
  • Rebecca Bigler
  • Caleb Cassidy-Amstutz
  • Chunhua Li
  • Mark R Jezyk
  • William R Jeck
  • Martilias S Farrell
  • Norman E Sharpless
  • Niels H Jensen
  • Hanna K Sanoff
  • Cheom Gil Cheong
  • Mark E Drew
  • Paul T Englund

Detail Information

Publications22

  1. pmc Splicing regulation: from a parts list of regulatory elements to an integrated splicing code
    Zefeng Wang
    Department of Pharmacology, School of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, USA
    RNA 14:802-13. 2008
    ..Here, we summarize the current state of knowledge of splicing cis-regulatory elements and their context-dependent effects on splicing, emphasizing recent global/genome-wide studies and open questions...
  2. pmc A complex network of factors with overlapping affinities represses splicing through intronic elements
    Yang Wang
    Department of Pharmacology, Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina, USA
    Nat Struct Mol Biol 20:36-45. 2013
    ..This arrangement enables individual cis elements to function differently in distinct cellular contexts, depending on the spectrum of regulatory factors present...
  3. pmc Intronic splicing enhancers, cognate splicing factors and context-dependent regulation rules
    Yang Wang
    Department of Pharmacology, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
    Nat Struct Mol Biol 19:1044-52. 2012
    ..We provide a comprehensive picture of general ISE activities and suggest new models of how single elements can function oppositely, depending on locations and binding factors...
  4. pmc A day in the life of the spliceosome
    A Gregory Matera
    Department of Biology, Department of Genetics and Integrative Program for Biological and Genome Sciences, Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    Nat Rev Mol Cell Biol 15:108-21. 2014
    ..This assembly process can also affect the regulation of alternative splicing and has implications for human disease. ..
  5. pmc Engineered proteins with Pumilio/fem-3 mRNA binding factor scaffold to manipulate RNA metabolism
    Yang Wang
    Department of Pharmacology, Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, NC, USA
    FEBS J 280:3755-67. 2013
    ..We summarize the advances made with respect to developing RNA regulatory tools, as well as opportunities for the future. ..
  6. pmc The splicing factor RBM4 controls apoptosis, proliferation, and migration to suppress tumor progression
    Yang Wang
    Institute of Cancer Stem Cell, Second Affiliated Hospital, Cancer Center, Dalian Medical University, Dalian 116044, China Department of Pharmacology and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, USA Electronic address
    Cancer Cell 26:374-89. 2014
    ..In addition to providing mechanistic insights of cancer-related splicing dysregulation, this study establishes RBM4 as a tumor suppressor with therapeutic potential and clinical values as a prognostic factor. ..
  7. pmc Engineering splicing factors with designed specificities
    Yang Wang
    Department of Pharmacology, School of Medicine, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
    Nat Methods 6:825-30. 2009
    ..Our approach permitted the creation of artificial factors to target virtually any pre-mRNA, providing a strategy to study splicing regulation and to manipulate disease-associated splicing events...
  8. pmc Treatment of type 1 myotonic dystrophy by engineering site-specific RNA endonucleases that target (CUG)(n) repeats
    Wenjing Zhang
    1 Institute of Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, China 2 Department of Pharmacology and Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina, USA
    Mol Ther 22:312-20. 2014
    ..Taken together, the application of ASRE provides a new route of gene therapy for DM1 treatment. ..
  9. pmc Quantitative analysis of focused a-to-I RNA editing sites by ultra-high-throughput sequencing in psychiatric disorders
    Hu Zhu
    Department of Pharmacology, University of North Carolina Chapel Hill Medical School, Chapel Hill, North Carolina, United States of America
    PLoS ONE 7:e43227. 2012
    ....
  10. pmc Transcriptome-wide identification and study of cancer-specific splicing events across multiple tumors
    Yihsuan S Tsai
    Curriculum in Bioinformatics and Computational Biology, University of North Carolina, Chapel Hill, NC 27599, USA
    Oncotarget 6:6825-39. 2015
    ..This study uncovers a common set of cancer-specific AS events altered across multiple cancers, providing mechanistic insight into how splicing is mis-regulated in cancers. ..
  11. pmc The splicing activator DAZAP1 integrates splicing control into MEK/Erk-regulated cell proliferation and migration
    Rajarshi Choudhury
    Department of Pharmacology, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    Nat Commun 5:3078. 2014
    ..Knockdown or over-expression of DAZAP1 causes a cell proliferation defect. Taken together, these studies reveal a molecular mechanism that integrates splicing control into MEK/Erk-regulated cell proliferation. ..
  12. pmc Specific and modular binding code for cytosine recognition in Pumilio/FBF (PUF) RNA-binding domains
    Shuyun Dong
    Department of Pharmacology, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA
    J Biol Chem 286:26732-42. 2011
    ..This work deepens our understanding of natural PUF protein target recognition and expands the ability to engineer PUF domains to recognize any RNA sequence...
  13. doi request reprint Manipulation of RNA using engineered proteins with customized specificity
    Rajarshi Choudhury
    Department of Pharmacology, University of North Carolina, 4113 Genetic Medicine, 120 Mason Farm Rd, Chapel Hill, NC, 27599, USA
    Adv Exp Med Biol 825:199-225. 2014
    ..Here we discuss the current advances in engineering RNA binding proteins, with emphasis on the design principles and their potential applications as new therapeutic reagents and basic biological tools. ..
  14. pmc Efficient backsplicing produces translatable circular mRNAs
    Yang Wang
    Institute of Cancer Stem Cell, The Second Affiliated Hospital, Cancer Center, Dalian Medical University, Dalian 116044, China Department of Pharmacology and Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, North Carolina 27599, USA
    RNA 21:172-9. 2015
    ..Unlike linear mRNA, poly-adenosine or poly-thymidine in 3' UTR can inhibit circular mRNA translation. This study revealed that backsplicing can occur efficiently in diverse eukaryotes to generate circular mRNAs. ..
  15. pmc Engineering RNA endonucleases with customized sequence specificities
    Rajarshi Choudhury
    Department of Pharmacology and Lineberger Comprehensive Cancer Center, University of North Carolina at Chapel Hill, Chapel Hill, North Carolina 27599, USA
    Nat Commun 3:1147. 2012
    ....
  16. pmc Systematical identification of splicing regulatory cis-elements and cognate trans-factors
    Yang Wang
    Department of Pharmacology, Lineberger Comprehensive Cancer Center, University of North Carolina, Chapel Hill, NC 27599, United States Electronic address
    Methods 65:350-8. 2014
    ..This approach will help us to collect a molecular part-list for splicing regulation, providing a rich data source that enables a better understanding of the "splicing code". ..
  17. pmc Expression of linear and novel circular forms of an INK4/ARF-associated non-coding RNA correlates with atherosclerosis risk
    Christin E Burd
    The Curriculum in Toxicology, The Lineberger Comprehensive Cancer Center, The University of North Carolina School of Medicine, Chapel Hill, North Carolina, United States of America
    PLoS Genet 6:e1001233. 2010
    ..These results identify novel circular RNA products emanating from the ANRIL locus and suggest causal variants at 9p21.3 regulate INK4/ARF expression and ASVD risk by modulating ANRIL expression and/or structure...
  18. pmc Assessing serotonin receptor mRNA editing frequency by a novel ultra high-throughput sequencing method
    Atheir I Abbas
    Department of Biochemistry, School of Medicine, Case Western Reserve University, Cleveland, OH 44106, USA
    Nucleic Acids Res 38:e118. 2010
    ....
  19. pmc Coevolutionary networks of splicing cis-regulatory elements
    Xinshu Xiao
    Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Proc Natl Acad Sci U S A 104:18583-8. 2007
    ..Thus, the splicing elements defining exons coevolve in a way that preserves overall exon strength, allowing specific elements to substitute for loss or weakening of others...
  20. pmc General and specific functions of exonic splicing silencers in splicing control
    Zefeng Wang
    Department of Biology, Massachusetts Institute of Technology, Cambridge, 02139, USA
    Mol Cell 23:61-70. 2006
    ..Together, our findings provide a comprehensive picture of the functions of ESSs in the control of diverse types of splicing decisions...
  21. ncbi request reprint Systematic identification and analysis of exonic splicing silencers
    Zefeng Wang
    Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA
    Cell 119:831-45. 2004
    ..ExonScan and related bioinformatic analyses suggest that these ESS motifs play important roles in suppression of pseudoexons, in splice site definition, and in AS...
  22. pmc Glycolysis modulates trypanosome glycoprotein expression as revealed by an RNAi library
    James C Morris
    Department of Biological Chemistry, Johns Hopkins Medical School, 725 N Wolfe Street, Baltimore, MD 21205, USA
    EMBO J 21:4429-38. 2002
    ..These data suggest that T.brucei 'senses' changes in glucose level and modulates procyclin expression accordingly...