About the LAB
About Dr. Li Yang
Address: Room 355, 2nd Floor PICB 320 Yue Yang Road, 200031 Shanghai, PRC

e-mail: liyang@picb.ac.cn

Curriculum Vitae

Li Yang

Address: Room 355, CAS-MPG Partner Institute for Computational Biology

Shanghai Institutes for Biological Sciences, Chinese Academy of Science

Tel: 86-21-54920233 (O)

E-mail: liyang@picb.ac.cn

EDUCATIONS:

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:

08/2011-date: Principle Investigator, Professor, Chinese Academy of Sciences - Max Planck Society Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences

10/2010-07/2011: Director, Professor, Department of Scientific Research Management, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences

01/2007-09/2010: Postdoctoral Fellow with Dr. Brenton R. Graveley, University of Connecticut Health Center, Farmington, CT 06030, USA.

08/2004-12/2006: Postdoctoral Associate with Dr. Sidney Altman (Nobel Laureate in Chemistry, 1989), Yale University, New Haven, CT 06520, USA.

09/1998-07/2004: Ph.D. student and research assistant with Dr. Bo-Liang Li, Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China.

AWARDS:

2010: Connecticut Stem Cell Seed Award by Connecticut State Department of Public Health and The Connecticut Stem Cell Research Advisory Committee, USA

2011: Shanghai Pujiang Program by Shanghai Science and Technology Commission, China

2011: 100 Talents Program by CAS-MPG Partner Institute for Computational Biology Faculty Search Committee, China

PUBLICATIONS: (*equal contributions)

1. 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, Celniker SE. The developmental transcriptome of Drosophila melanogaster. Nature, 2011, 471: 473-479

2. Yang L, Duff MO, Graveley BR, Carmichael GG, Chen LL. Genomewide characterization of non-polyadenylated RNAs. Genome Biol., 2011, 12(2):R16

3. Brooks AN*, Yang L*, Duff MO, Hansen K, Dudoit S, Brenner SE, Graveley BR. Using RNAi and RNA-seq to identify alternative exons regulated by pasilla and its associated regulatory motifs. Genome Res., 2011, 21:193-202

4. Cherbas L, Willingham A, Zhang D, Yang L, Zou Y, Eads BD, Carlson JW, Landolin JM, Kapranov P, Dumais J, Samsonova A, Choi JH, Roberts J, Davis CA, Tang H, van Baren MJ, Ghosh S, Dobin A, Bell K, Lin W, Langton L, Duff MO, Tenney AE, Zaleski C, Brent MR, Hoskins RA, Kaufman TC, Andrews J, Graveley BR, Perrimon N, Celniker SE, Gingeras TR, Cherbas P. The transcriptional diversity of 25 Drosophila cell lines. Genome Res., 2011, 21: 301-314

5. Hoskins RA, Landolin JM, Brown JB, Sandler JE, Takahashi H, Lassmann T, Yu C, Booth BW, Zhang D, Wan KH, Yang L, Boley N, Andrews J, Kaufman TC, Graveley BR, Bickel PJ, Carninci P, Carlson JW, Celniker SE. Genome-wide analysis of promoter architecture in Drosophila melanogaster. Genome Res., 2011, 21: 182-192

6. Peng SP, Chen LL, Lei XX, Yang L, Lin HF, Carmichael GG, HuangYQ. Genome-wide Studies Reveal that Lin28 Enhances the Translation of Genes Important for Growth and Survival of Human Embryonic Stem Cells. Stem Cells, 2011, 29:496-504

7. The modENCODE Consortium. Identification of Functional Elements and Regulatory Circuits by Drosophila modENCODE. Science, 2010, 330: 1787-1797

8. Chen LL, Yang L, Carmichael GG. Molecular basis for an attenuated cytoplasmic dsRNA response in human embryonic stem cells.. Cell Cycle, 2010, 9: 3552-3564

9. Celniker SE, Dillon LA, Gerstein MB, Gunsalus KC, Henikoff S, Karpen GH, Kellis M, Lai EC, Lieb JD, MacAlpine DM, Micklem G, Piano F, Snyder M, Stein L, White KP, Waterston RH; modENCODE Consortium. Unlocking the secrets of the genome. Nature, 2009, 459: 927-930

10. Chen J, Zhao XN, Yang L, Hu GJ, Lu M, Xiong Y, Yang XY, Chang CC, Song BL, Chang TY, Li BL. RNA secondary structures located in the interchromosomal region of human ACAT1 chimeric mRNA are required to produce the 56-kDa isoform. Cell Res., 2008, 18: 921-936

11. Yang L, Park J, Graveley BR. Splicing from the Outside In. Mol. Cell, 2007, 27: 861-862

12. Yang L, Altman S. A non-coding RNA in Saccharomyces cerevisiae is a RNase P substrate. RNA, 2007, 13: 682-690

13. Song BL, Wang CH, Yao XM, Yang L, Zhang WJ, Wang ZZ, Zhao XN, Yang JB, Qi W, Yang XY, Inoue K, Lin ZX, Zhang HZ, Kodama T, Chang CC, Liu YK, Chang TY, Li BL. Human acyl-CoA:cholesterol acyltransferase 2 gene expression in intestinal Caco-2 cells and in hepatocellular carcinoma. Biochem. J., 2006, 394: 617-626

14. Yang L, Wesolowski D, Li Y, Altman S. Analysis of putative RNase P RNA from orthopoxvirus. J. Mol. Biol., 2005, 354: 529-535

15. Kovrigina E, Yang L, Pfund E, Altman S. Regulated expression of functional external guide sequences in mammalian cells sing a U6 RNA polymerase III promoter. RNA, 2005, 11: 1588-1595

16. Yang L, Lee O, Chen J, Chen J, Chang CC, Wang ZZ, Ma HH, Sha HF, Feng JX, Wang Y, Yang XY, Wang L, Ornvold K, Li BL, Chang TY. Human acyl-coenzyme A:cholesterol acyltransferase 1 (acat1) sequences located in two different chromosomes (7 and 1) are required to produce a novel ACAT1 isoenzyme with additional sequence at the N-terminal. J. Biol. Chem., 2004, 279: 46253-46262

17. Yang L, Yang JB, Chen J, Yu GY, Zhou P, Lei L, Wang ZZ, Chang CC, Yang XY, Chang TY, Li BL. Enhancement of human ACAT1 gene expression to promote the macrophage-derived foam cell formation by dexamethasone. Cell Res., 2004, 14: 315-323

18. Yang L, Chen J, Chang CC, Yang XY, Wang ZZ, Chang TY, Li BL. A stable upstream stem-loop structure enhances selection of the first 5'-ORF-AUG as a main start codon for translation initiation of human ACAT1 mRNA. Acta Bioch. Bioph. Sin., 2004, 36: 259-268

19. Ma HH, Yang L, Xu ZP, Yang XY, Li BL. Bacterial expression, purification and in vitro N-myristoylation of fusion hepatitis B virus preS1 with the native type-N-terminal. Protein Express. Purif., 2003, 27: 49-54

20. Ma HH, Yang L, Li BL. Expression, purification and in vitro N-myristoylation of human Src N-terminal region. Acta Bioch. Bioph. Sin., 2003, 35: 13-17

21. Ma HH, Yang L, Yang XY, Li BL. Fusion expression, purification and NMT substrate of HIV-1 gag P17m (Chinese). Chin. J. Biochem. Mol. Biol., 2001, 17: 458-462

22. Yang JB, Duan ZJ, Yao W, Lee O, Yang L, Yang XY, Sun X, Chang CC, Chang TY, Li BL. Synergistic transcriptional activation of human ACAT-1 gene by IFN-g and ATRA in THP-1 cells. J. Biol. Chem., 2001, 276: 20989-2099

SELECTED ABSTRACT PRESENTATIONS:
10/2011: A Single Nucleotide-Resolution Map of RNA Complexity in Eukaryotes. 2011 International Symposium of Developmental System Biology on Transcriptional Regulation, Shanghai, China

09/2009: Alternative splices regulated by individual RNA binding proteins and their associated regulatory motifs. 2009 Drosophila modENCODE consortium meeting, Lawrence Berkeley National Laboratory, Berkeley, CA, USA

08/2009: Using RNAi and RNA-seq to identify alternative exons regulated by individual RNA binding proteins and their associated regulatory motifs. 2009 Eukaryotic-mRNA Processing, Cold Spring Harbor, NY, USA
06/2006: Inhibited Expression of Human Nuclear Ribonuclease P Protein Subunit Rpp40 With Specific External Guide Sequences. The 11th Annual Meeting of the RNA Society, Seattle, WA, USA

07/2002 (ORAL): Non-AUG translation initiation of the trans-spliced human ACAT-1 mRNA. The 9th East Asian Joint Symposium on Biomedical Research, Suwon, South Korea