分享到:

交流信息

学术系列讲座(130)——RNA structurome reveals the second layer of genetic information

新闻类型:交流信息    发布时间:2016/3/20 0:00:00    作者:SKLBC     浏览次数:1214

 

有害生物控制与资源利用国家重点实验室

系列学术报告第130

                                                           

                                        

 

报告人 :张强锋 教授,Principle Investigator  

清华大学生命科学学院,清华大学-北京大学生命科学联合中心

 

人:屈良鹄教授

报告时间: 2016321 10:00 AM

报告地点:  南校区生命科学学院205会议室

 

Title (报告题目):

RNA structurome reveals the second layer of genetic information

 

Abstract (摘要):

The most remarkable findings in the past two decades in biology include how the mammalian genome is largely transcribed and how versatile functions RNA molecules can have. RNA structure may play a critical role in defining its function and regulation. However, due to lack of information, our knowledge on RNA structural language is very limited. In this talk, I will describe our recent effort in using new chemistry and deep sequencing techniques to probe RNA structures on a genome-wide scale. The study provides both the landscape and also the variation of human and mouse structural transcriptome. Analysis reveals structure features of stable and dynamic elements, long-range interactions, alternative structures, etc., in the context of biological processes including translation, RNA methylation, and RNA-protein interaction etc. Our results demonstrate that by leveraging on the power of next generation sequencing we can now approach to the structural dimension, i.e., the second layer of the complexity of post-transcriptional regulation.

 

Bibliography(个人简介):

Dr. Qiangfeng ZHANG , Ph.D., is an assistant professor and principle investigator in the Tsinghua-Peking Center for Life Sciences, School of Life Sciences, Tsinghua University. Dr. Zhang received his B.S. and his first Ph.D. from University of Science and Technology of China in 2000 and 2006, respectively, and his second Ph.D. from Columbia University in 2012. He worked as a postdoc at Columbia and Stanford, before he joined Tsinghua in 2015. Dr. Zhang’s research interest focuses on the new area of Structural Systems Biology by combining computational and high-throughput experimental investigations. Dr. Zhang developed a coarse-grained structural modeling method that can accurately and effectively reconstruct protein-protein interaction networks s on a genome-wide scale (Nature 2012, PNAS 2010). Dr. Zhang also developed high-throughput experimental methods to profile in vitro and in vivo structures of the whole transcriptome (Nature 2014, Nature 2015). Dr. Zhang also involved in the development of a technique to identify protein-RNA interactions, a method is specifically useful for the study of non-coding RNA regulation and functions (Cell 2015).

 

代表性论文

1.    Flynn RA*, Zhang QC*, Spitale RC*, Lee B, Mumbach MR, Chang HY. Transcriptome-wide interrogation of RNA secondary structure in living cells with icSHAPE. Nat Protoc. 2016;11(2):273-90. (*Co-first authorship).

2.        Spitale R*, Flynn RA*, Zhang QC*, Pete Crisalli, Byron Lee, Jong-Wha Jung, Hannes Y. Kuchelmeister, Pedro J. Batista, Eduardo A. Torre, Eric T. Kool, and Chang HY. (2015) Structural imprints in vivo decode mechanisms of RNA regulation. Nature. 519 (7544): 486-90. (*Co-first authorship)

3.        Chu C, Zhang QC, Texira S, Bharadwaj M, Calabrese M, Magnuson T, Heard H and Chang HY. (2015) Developmentally regulated and modular assembly of Xist RNA binding proteins coordinate chromatin silencing. Cell. 161 (2): 404-16.

4.        Wan Y*, Qu K*, Zhang QC, Manor O, Ouyang Z, Zhang J, Snyder MP, Segal E and Chang HY. (2014) Landscape and variation of RNA secondary structure across the human transcriptome. Nature, 505 (7485), 706-9.

5.        Kasowski M*, Kyriazopoulou-Panagiotopoulou S*, Grubert F*, Zaugg JB*, Kundaje A*, Liu Y, Boyle AP, Zhang QC, Zakharia F, Spacek DV, Li J, Xie D, Steinmetz LM, Hogenesch JB, Kellis M, Batzoglou S, Snyder M. Extensive Variation in Chromatin States Across Human Individuals and Populations. (2013) Science 342 (6159), 750-752.

6.        Zhang QC, Petrey D, Garzon J, Deng L, and Honig B. (2013) PrePPI: A structure-informed database of protein-protein interactions. Nucleic Acids Research, 41:D828-33.

7.        Zhang QC*, Petrey D*, Deng L, Qiang L, Shi Y, Chan AT, Bisikirska B, Lefebvre C, Accili D, Hunter T, Maniatis T, Califano A, and Honig B. (2012) Structure-based prediction of protein-protein interactions on a genome-wide scale. Nature, 490 (7421): 556-560 (*Co-first authorship)

8.        Zhang QC*, Deng L*, Guan J, Honig B and Petrey D. PredUs: a web server for predicting protein interfaces using structural neighbors. (2011) Nucleic Acids Research, 39: W283-87 (*Co-first authorship)

9.        Zhang QC, Petrey D, Norel R, and Honig B, (2010) Protein interface conservation across structural space. Proceedings of the National Academy of Sciences, 107(24): 10896-109