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  Homepage >    People   >  Principal Investigators   

 Ph.D.,Professor,Principal Investigator,Director

Email : liyangpicb.ac.cn
Lab Name :  Computational Transcriptomics and Bioinformatics
Group Page : http://www.picb.ac.cn/rnomics

    Research Areas  

  • Computational Biology
  • Computational Transcriptomics and Bioinformatics
  • RNomics

  •     Interests  

    RNA regulation has important roles in shaping cell-specific gene expression patterns and organism development, functioning to diversify genetic output and providing multiple regulatory layers at which gene expression can be finely controlled. On one hand, alternative splicing and RNA editing largely expand the number/possibility of functions encoded by protein-coding genes, and more importantly, evolutionary changes of alternative splicing and RNA editing at the transcriptome level underlie structural and regulatory differences associated with species-specific characteristics. On the other hand, the multifaceted transcriptome has become even more complex with the pervasive transcription of noncoding RNAs, leading to new appreciation of transcription regulation, especially from noncoding regions.

    With technological improvements and the application of integrated methodologies, significant progress has been achieved in uncovering new noncoding molecules and achieving new insights into their functions. Specifically, my research group is applying high throughput sequencing methods combined with genetic, biochemical, and bioinformatic strategies to focus on identifying and characterizing new isoforms of regulatory noncoding RNAs and new events of RNA editing. This is done by developing novel computational pipelines/algorithms and high throughput sequencing technologies at the whole transcriptome level.


    1. Young and Middle-aged Leading Scientists, Engineers and Innovators (2015)
    2. UCAS-BHPB Mentor Award (2015)
    3. Mentor Award of Chinese Academy of Science (2015)
    4. Meiji Life Science Award (2014)
    5. Hundred Talents by Chinese Academy of Sciences, China (2012)
    6. Scientific Research Foundation for Returned Chinese Scholars (2012)
    7. Pujiang Talent by Shanghai Science and Technology Commission, China (2011)
    8. Connecticut Stem Cell Seed Award by Connecticut State Department of Public Health, USA (2010)

        Selected Publications  

    1. Zhang Y*, Xue W*, Li X, Zhang J, Chen S, Zhang JL, Yang L# and Chen LL#. The Biogenesis of Nascent Circular RNAs. Cell Rep, 2016, 15: 611-624 

    2. Dong R, Zhang XO, Zhang Y, Ma XK, Chen LL and Yang L. CircRNA-derived pseudogenes. Cell Res, 2016, doi:10.1038/cr.2016.42 

    3. Zhong C*, Xie Z*, Yin Q*, Dong R, Yang S, Wu Y, Yang L and Li J. Parthenogenetic haploid embryonic stem cells efficiently support mouse generation by oocyte injection. Cell Res, 2016, 26: 131-134

    4. Yang L. Splicing noncoding RNAs from the inside out. WIREs RNA, 2015, doi: 10.1002/wrna.1307 (Invited review)

    5. Zhong C*, Yin Q*, Xie Z*, Bai M*, Dong R*, Tang W, Xing YH, Zhang H, Yang S, Chen LL, Bartolomei MS, Ferguson-Smith A, Li D, Yang L#, Wu Y# and Li J#. CRISPR-Cas9-Mediated Genetic Screening in Mice with Haploid Embryonic Stem Cells Carrying a Guide RNA Library. Cell Stem Cell, 2015, 17: 1-12 

    6. Chen LL# and Yang L#. Gear up in circles. Mol Cell, 2015, 58:715-717 (Preview) 

    7. Chen LL# and Yang L#. Regulation of circRNA biogenesis. RNA Biology, 2015, 12: 381-388 

    8. Chen T*, Xiang JF*, Zhu S*, Chen S, Yin QF, Zhang XO, Zhang J, Feng H, Dong R, Li XJ, Yang L# and Chen LL#. 2015. ADAR1 is required for differentiation and neural induction by regulating microRNA processing in a catalytically independent manner. Cell Res, 2015, 25: 459-476 

    9. Yang L# and Chen LL#. Microexons go big. Cell, 2014, 159: 1488-1489 (Invited preview) 

    10. Zhang XO*, Wang HB*, Zhang Y, Lu X, Chen LL# and Yang L#. Complementary sequence-mediated exon circularization. Cell, 2014, 159: 134-147 (Issue Highlight) 

    11. Zhang XO*, Yin QF*, Wang HB, Zhang Y, Chen T, Zheng P, Lu X, Chen LL# and Yang L#. Species-specific alternative splicing leads to unique expression of sno-lncRNAs. BMC Genomics, 2014, 15: 287 (Highly Accessed) 

    12. Zhang Y*, Zhang XO*, Chen T, Xiang JF, Yin QF, Xing YH, Zhu S, Yang L# and Chen LL#. Circular intronic long noncoding RNAs. Mol Cell, 2013, 51: 792-806 (Issue Highlight) 

    13. Zhu S*, Xiang JF*, Tian C, Chen LL# and Yang L#. Prediction of constitutive A-to-I editing sites from human transcriptomes in the absence of genomic sequences. BMC Genomics, 2013,14: 206 (Highly Accessed)

    14. Yang L, Duff MO, Graveley BR, Carmichael GG and Chen LL. Genomewide characterization of non-polyadenylated RNAs. Genome Biol, 2011, 12: R16 (Editor’s Pick and Highly Accessed) 

    15. Graveley BR*, Brooks AN*, Carlson JW*, Duff MO*, Landolin JM*, Yang L*, Artieri CG, van Baren MJ, Boley N, Booth BW, Brown JB, Cherbas L, Davis CA, Dobin A, Li R, Lin W, Malone JH, Mattiuzzo NR, Miller D, Sturgill D, Tuch BB, Zaleski C, Zhang D, Blanchette M, Dudoit S, Eads B, Green RE, Hammonds A, Jiang L, Kapranov P, Langton L, Perrimon N, Sandler JE, Wan KH, Willingham A, Zhang Y, Zou Y, Andrews J, Bickel PJ, Brenner SE, Brent MR, Cherbas P, Gingeras TR, Hoskins RA, Kaufman TC, Oliver B and Celniker SE. The developmental transcriptome of Drosophila melanogaster. Nature, 2011, 471: 473-479

        Education & Academic Background  

    1998-2004: Ph.D., Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences(CAS),Shanghai, China Major: Biochemistry and Molecular Biology
    1994-1998: B.S., Lanzhou University (LZU), Lanzhou, China Major: Biochemistry

    Work Experience
    2004-2006: Postdoctoral Associate, Yale University, lab of Sidney Altman
    2007-2010: Postdoctoral Fellow, University of Connecticut Health Center, lab of Brenton R. Graveley
    2010-2011: Director, Department of Scientific Research Management, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences (CAS), China
    2011-date: Principal Investigator, Group leader, CAS-MPG Partner Institute of Computational Biology (PICB), SIBS, CAS, China
    2012-date: Director, Omics Core Facility, PICB, CAS, China
    2015-date: Adjunct Professor, School of Life Science, ShanghaiTech University