| He worked in College of Life Sciences, Peking University from 2006 to 2007 as a Research Scientist. In 2007, he moved to the University of Chicago as a postdoctoral scholar working on evolutionary genetics. In 2009, he was jointly employed by multiple labs in Chicagoland as a senior staff bioinformatitian. Since September 2011, he set up his lab in the Institute of Zoology, Chinese Academy of Sciences. His major research interests are mechanism, pattern and function of new gene origination.He was the recipient of the Excellent Young Scientists Award, funded by National Natural Science Fund of China (2013). Functional Evolution by New Gene Origination By combining evolutionary genomics and functional genomics in either fly or mammals, we explore how gene get duplicated in the beginning, and how duplicates shape phenotypic evolution subsequently. Several ongoing projects are like: 1) how LTR retrotransposons mediate gene retroposition in animals; 2) how duplicates drive meiotic drive in Drosophila; 3) how primate-specific genes shape human brain evolution. 1. Ma FQ, Lin P, Chen QJ, Lu Xuemei, Zhang YE*, Wu CI*.Direct measurement of pervasive weak repression by microRNAs and their role at the network level. 2018. BMC Genomics,19:362 2. Yu DQ(#), Shi WW(#)(*), Zhang YE(*). 2017. Underrepresentation of active histone modification marks in evolutionarily young genes. Insect Science.24(2):174-186. 3. Tan SJ(#)，Cardoso-Moreira M，Shi WW，Zhang D，Huang JW，Mao YN，Jia HX，Zhang YQ，Chen CY，Shao Y，Leng L，Liu ZH，Huang H，Long MY，Zhang YE(*). 2016. LTR-mediated retroposition as a mechanism of RNA-based duplication in metazoans. Genome Research, 26:1663-1675 4. Zhu ZL(#)(*)，Tan SJ (#)，Zhang YQ，Zhang YE(*). 2016. LINE-1-like retrotransposons contribute to RNA-based gene duplication in dicots. Scientific Reports, 6: 24755-24755 5. Yang HW(#)，He BZ(#), Ma HJ, Tsaur S-C, Ma CY, Wu Y ,Ting C-T, Zhang YE(*). 2015. Expression Profile and Gene Age Jointly Shaped the Genome-Wide Distribution of Premature Termination Codons in a Drosophila melanogaster Population. Molecular Biology and Evolutio, 32(1): 216-228 6. Zhang YE(#)(*), Long MY(*). 2014. New genes contribute to genetic and phenotypic novelties in human evolution. Current Opinion in Genetics & Development, 29: 90-96 7. Xie C(#), Zhang YE(#), Chen JY(#), Liu CJ, Zhou WZ, Li Y, Zhang M, Zhang RL, Wei LP(*)，Li CY(*). 2012. Hominoid-Specific De Novo Protein-Coding Genes Originating from Long Non-Coding RNAs. PLOS Genetics, 8(9): e1002942 8. Zhang YE(#), Landback P, Vibranovski MD, Long MY(*). 2012. New genes expressed in human brains: Implications for annotating evolving genomes. BioEssays, 34(11): 982-991 9. Ni X, Zhang YE, Negre N, Chen S, Long M, White KP (*) .2012. Adaptive evolution and the birth of CTCF binding sites in the Drosophila genome. PLOS Genetics, 10(11): e1001420. 10. Zhang YE (#)(*), Vibranovski MD, Krinsky BH, Long MY (*). 2011. A cautionary note for retrocopy identification: DNA-based duplication of intron-containing genes significantly contributes to the origination of single exon genes. Bioinformatics, 27(13):1749-1753 11. Zhang YE (#), Landback P，Vibranovski MD, Long MY(*). 2011. Accelerated recruitment of new brain development genes into the human genome. PLoS Biology, 9（10）: e1001179 12. Zhang YE (#), Vibranovski MD, Landback P, Marais GAB，Long MY(*). 2010. Chromosomal Redistribution of Male-Biased Genes in Mammalian Evolution with Two Bursts of Gene Gain on the X Chromosome，PLoS Biology, 8(10):e1000494 13. Zhang YE (#), Vibranovski MD, Krinsky BH，Long MY(*). 2010. Age-dependent chromosomal distribution of male-biased genes in Drosophila. Genome Research, 20(11)：1526-1533 14. Chen S, Zhang YE, Long M. 2010. New genes in Drosophila quickly become essential. Science,330:1682-1685 15. Zhang Y, Liu XS, Liu QR and Wei LP. (2006) Genome-wide in silico identification and analysis of cis natural antisense transcripts (cis-NATs) in ten species. Nucleic Acids Research, 34, 3465-3475. |
