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21. Lishi Li *, Yulong Song *, Xinrui Shi, Jianheng Liu, Shaolei Xiong, Wanying Chen, Qiang Fu, Zichao Huang, Nannan Gu#, Rui Zhang# The landscape of miRNA editing in animals and its impact on miRNA biogenesis and targeting. (2017) Genome Research (IF = 14.6). 20. Rui Zhang*,#, Patricia Deng*, Dionna Jacobson, Jin Billy Li# (2017) Evolutionary analysis reveals regulatory and functional landscape of coding and non-coding RNA editing PLOS Genetics http://dx.doi.org/10.1371/journal.pgen.1006563 (IF = 7.5) Highlighted by Science: The evolution of edited RNA transcripts http://science.sciencemag.org/content/355/6331/1278.4 19. Gokul Ramaswami *, Patricia Deng *, Rui Zhang, Mary Anne Carbone, Trudy F.C. Mackay, Li Jin Billy (2015) Genetic mapping uncovers cis-regulatory landscape of RNA editing. Nature Communications. 6:8194. doi: 10.1038/ncomms9194 (IF = 11.5) 18. Leng Han*, Lixia Diao*, Shuangxing Yu*, Xiaoyan Xu*, Jie Li, Rui Zhang, Yang Yang, Henrica M.J. Werner, Karina A. Eterovic, Yuan Yuan, Jun Li, Nikitha Nair, Rosalba Minelli, Yiu-Huen Tsang, Lydia W.T. Cheung, Kang Jin Jeong, Jason Roszik, Zhenlin Ju, Scott Woodman, Yiling Lu, Kenneth L. Scott, Jin Billy Li , Gordon B. Mills, Han Liang (2015) The Genomic Landscape and Clinical Relevance of A-to-I RNA Editing in Human Cancers Cancer Cell 28 (4), 515–528 (IF = 23.5) 17. Manuel A Rivas, Matti Pirinen, Donald F Conrad, Monkol Lek, Emily K Tsang, Konrad J Karczewski, Julian B Maller, Kimberly R Kukurba, David S DeLuca, Menachem Fromer, Pedro G Ferreira, Kevin S Smith, Rui Zhang, Fengmei Zhao, Eric Banks, Ryan Poplin, Douglas M Ruderfer, Shaun M Purcell, Taru Tukiainen, Eric V Minikel, Peter D Stenson, David N Cooper, Katharine H Huang, Timothy J Sullivan, Jared Nedzel, Carlos D Bustamante, Jin Billy Li, Mark J Daly, Roderic Guigo, Peter Donnelly, Kristin Ardlie, Michael Sammeth, Emmanouil T Dermitzakis, Mark I McCarthy, Stephen B Montgomery, Tuuli Lappalainen, Daniel G MacArthur (2015) Effect of predicted protein-truncating genetic variants on the human transcriptome Science 348 (6235), 666-669 (IF = 33.6) 16. Yael Baran, Meena Subramaniam, Anne Biton, Taru Tukiainen, Emily K Tsang, Manuel A Rivas, Matti Pirinen, Maria Gutierrez-Arcelus, Kevin S Smith, Kim R Kukurba, Rui Zhang, Celeste Eng, Dara G Torgerson, Cydney Urbanek, Jin Billy Li, Jose R Rodriguez-Santana, Esteban G Burchard, Max A Seibold, Daniel G MacArthur, Stephen B Montgomery, Noah A Zaitlen, Tuuli Lappalainen (2015) The landscape of genomic imprinting across diverse adult human tissues Genome Research, gr. 192278.115 (IF = 14.6) 15. Tomas Babak, Brian DeVeale, Emily K Tsang, Yiqi Zhou, Xin Li, Kevin S Smith, Kim R Kukurba, Rui Zhang, Jin Billy Li, Derek van der Kooy, Stephen B Montgomery and Hunter B Fraser (2015) Genetic conflict reflected in tissue-specific maps of genomic imprinting Nature Genetics 47 (5), 544-549 (IF = 29.3) 14. Anne L. Sapiro, Patricia Deng, Rui Zhang, Jin Billy Li (2015) Cis regulatory effects on A-to-I RNA editing in related Drosophila species. Cell Reports, 11:697-703 (IF = 8.3) 13. Guojing Liu*, Rui Zhang*, Jin Xu, Chung-I Wu and Xuemei Lu (2014) Functional conservation of both CDS- and 3’-UTR-located microRNA binding sites between species Mol Biol Evol doi: 10.1093/molbev/msu323 (IF = 9.1) 12. Kimberly R. Kukurba, Rui Zhang, Xin Li, Kevin S. Smith, David A. Knowles, Meng How Tan, Robert Piskol, Monkol Lek, Michael Snyder, Daniel G. MacArthur, Jin Billy Li and Stephen B. Montgomery (2014) Allelic expression of deleterious protein-coding variants across human tissues PLOS Genetics 10(5):e1004304.doi:10.1371/journal.pgen.1004304 (IF = 7.5) 11. Rui Zhang, Xin Li, Gokul Ramaswami, Kevin S Smith, Gustavo Turecki, Stephen B Montgomery and Jin Billy Li (2014) Quantifying RNA allelic ratios by microfluidic multiplex PCR and sequencing. Nature Methods 11:51–54 (IF = 32) 10. Xin Hong, Hung Thanh Nguyen, Qingfeng Chen, Rui Zhang, Zandra Hagman, P Mathijs and Stephen Cohen (2014) Opposing activities of the Ras and Hippo pathways converge on regulation of YAP protein turnover. EMBO Journal, DOI: 10.15252/embj.201489385 (IF = 10.4) 9. Lily Bazak, Ami Haviv, Michal Barak, Jasmine Jacob-Hirsch, Patricia Deng, Rui Zhang, Farren J Isaacs, Gideon Rechavi, Jin Billy Li, Eli Eisenberg and Erez Y Levanon (2013) A-to-I RNA editing occurs at over a hundred million genomic sites, located in a majority of human genes Genome Res doi:10.1101/gr.164749.113 (IF = 14.6) 8. Jin Xu*, Rui Zhang*, Yang Shen, Guojing Liu, Xuemei Lu and Chung-I Wu (2013) The evolution of evolvability in microRNA target sites in vertebrates. Genome Res 23:1810-1816 (IF = 14.6) 7. Gokul Ramaswami*, Rui Zhang*, Robert Piskol, Liam P Keegan, Patricia Deng, Mary A O'Connell and Jin Billy Li (2013) Identifying RNA editing sites using RNA sequencing data alone. Nature Methods 10:128–132 (IF = 32) 6. Yang Shen, Yang Lv, Lei Huang, Wensheng Liu, Ming Wen, Tian Tang, Rui Zhang, Eric Hungate, Suhua Shi and Chung-I Wu (2011) Testing hypotheses on the rate of molecular evolution in relation to gene expression using microRNAs. PNAS 108:15942-15947 (IF = 9.2) 5. Wanzhong Ge, Yawen Chen, Ruifen Weng, Singfee Lim, Marita Buescher, Rui Zhang and Stephen M. Cohen (2011) Overlapping functions of microRNAs in control of apoptosis during Drosophila embryogenesis. Cell Death Differ 19:839-846 (IF = 8.2) 4. Xiaodong Fang*, Yanfeng Zhang*, Rui Zhang*, Lixin Yang, Ming Li, Kaixiong Ye, Xiaosen Guo, Jun Wang and Bing Su (2011) Genome sequence and global sequence variation map with 5.5 million SNPs in Chinese rhesus macaque. Genome Biol 12:R63 (IF = 10.8) 3. Rui Zhang, and Bing Su (2008) MicroRNA regulation and the variability of human cortical gene expression. Nucleic Acids Res 36:4621-4628 (IF = 9.1) 2. Rui Zhang, Yinqiu Wang and Bing Su (2008) Molecular evolution of a primate-specific microRNA family. Mol Biol Evol 25:1493-1502 (IF = 9.1)
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