​The development of DNA synthesis enabling technologies and instrument, Synthetic genomics and its downstream applications, and DNA based data storage.

2014 - 2019 PhD, School of Biological Sciences, University of Edinburgh, UK

2009 - 2010 Master of Engineering, University of Melbourne, Australia

2004 - 2008 Bachelor of Engineering, South China University of Technology, China

   

2010 - Current Chief Scientist of Synthetic Biology

                Institute of Biochemistry, BGI-Shenzhen, China

2022 - Current         Director 

                                 BGI Research-Changzhou, BGI, China

2022 – Current         Director 

                                 BGI Changzhou Life Science and Technology Co., Ltd.

2019 – Current         Visiting Researcher

                                Shenzhen Institute of Synthetic Biology,    

                                Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, China

2020 – Current         Visiting Researcher

                                 Synthetic Genomics Center, Shenzhen Institutes of Advanced Technology,

                                 Chinese Academy of Sciences, China

2020 – 2023             Distinguished Research Fellow

                                 Tianjin Institute of Industrial Biotechnology, Chinese Academy of Sciences, China

   

1. Zhang, H., Fu, X., Gong, X., Wang, Y., Zhang, H., Zhao, Y., & Shen, Y. (2022). Systematic dissection of key factors governing recombination outcomes by GCE-SCRaMbLE. Nature communications, 13(1), 1-11. Corresponding Author

2. Fu, X., Huang, Y., & Shen, Y. (2022). Improving the Efficiency and Orthogonality of Genetic Code Expansion. BioDesign Research, 2022. Corresponding Author

3. Ping, Z., Chen, S., Zhou, G., Huang, X., Zhu, S. J., Zhang, H., ... & Shen, Y. (2022). Towards practical and robust DNA-based data archiving using the yin–yang codec system. Nature Computational Science, 2(4), 234-242. Corresponding Author

4. Zhang, H., Gong, X., Zhao, Q., Mukai, T., Vargas-Rodriguez, O., Zhang, H., ...Shen, Y., S¨ oll, D. & Fu, X. (2022). The tRNA discriminator base defines the mutual orthogonality of two distinct pyrrolysyl-tRNA synthetase/tRNAPyl pairs in the same organism. Nucleic acids research, 50(8), 4601-4615. Co-corresponding author

5. Ping, Z., Yang, H., & Shen, Y. (2022). A new era of mass data storage in artificial chromosome. Science China Life Sciences, 1-2. Corresponding Author

6. Zhang, D., Zhou, S., Zhou, Z., Jiang, X., Chen, D., Sun, H. X., ...Shen, Y., & Chen, F. (2021). BDdb: a comprehensive platform for exploration and utilization of birth defect multi-omics data. BMC Medical Genomics, 14(1), 1-10. Co-corresponding author

7.  Zhang, J., Chen, S., Zhang, H., Shen, Y., & Ping, Z. (2021, November). DNA Image Storage Using a Scheme Based on Fuzzy Matching on Natural Genome. In International Symposium on Bioinformatics Research and Applications (pp. 572-583). Springer, Cham. Co-corresponding author

8. Jiang XE, Wang Y, Shen Y. The review of DNA synthesis technologies and instruments development [J]. Journal of Integration Technology, 2021, 10(5): 80-95. Corresponding Author

9. Zhang, Y., Chiu, T. Y., Zhang, J. T., Wang, S. J., Wang, S. W., Liu, L. Y., ... & Shen, Y. (2021). Systematical Engineering of Synthetic Yeast for Enhanced Production of Lycopene. Bioengineering, 8(1), 14. Corresponding Author

10. PING Zhi，ZHANG Haoling，CHEN Shihong，NI Ming，XU Xun，ZHU Sha，SHEN Yue. Chamaeleo：an integrated evaluation platform for DNA storage. Synthetic Biology Journal，2021，2（3）：412-427. Corresponding Author

11. FU Xian，LIN Tao，ZHANG Fan，ZHANG Huiming，ZHANG Wenwei，YANG Huanming，ZHU Shida，XU Xun，SHEN Yue. Progress in the study of genetic code expansion related methods, principles and applications. Synthetic Biology Journal，2020，1（1）：103-119. Corresponding Author

12. Ping, Z., Ma, D., Huang, X., Chen, S., Liu, L., Guo, F., ... & Shen, Y. (2019). Carbon-based archiving: current progress and future prospects of DNA-based data storage. GigaScience, 8(6), giz075. Corresponding Author

13. Wu, T., Li, L., Jiang, X., Yang, Y., Song, Y., Chen, L., ... Shen, Y., & Gu, Y. (2019). Sequencing and comparative analysis of three Chlorella genomes provide insights into strain-specific adaptation to wastewater. Scientific reports, 9(1), 1-12. Co-corresponding author

14. Chang, Z., Shen, Y., Lang, Q., Zheng, H., Tokuyasu, T. A., Huang, S., & Liu, C. (2019). Microfluidic synchronizer using a synthetic nanoparticle-capped bacterium. ACS synthetic biology, 8(5), 962-967. Co-first author

15. Shen, Y., Wang, Y., Chen, T., Gao, F., Gong, J., Abramczyk, D., ... & Yang, H. (2017). Deep functional analysis of synII, a 770-kilobase synthetic yeast chromosome. Science, 355(6329), eaaf4791.First author

16. Shen, Y., Stracquadanio, G., Wang, Y., Yang, K., Mitchell, L. A., Xue, Y., ... & Bader, J. S. (2016). SCRaMbLE generates designed combinatorial stochastic diversity in synthetic chromosomes. Genome research, 26(1), 36-49. First author

17. Kanigowska, P., Shen, Y., Zheng, Y., Rosser, S., & Cai, Y. (2016). Smart DNA fabrication using sound waves: applying acoustic dispensing technologies to synthetic biology. Journal of laboratory automation, 21(1), 49-56. Co-first author

18. Gao, C., Wang, Y., Shen, Y., Yan, D., He, X., Dai, J., & Wu, Q. (2014). Oil accumulation mechanisms of the oleaginous microalga Chlorella protothecoides revealed through its genome, transcriptomes, and proteomes. BMC genomics, 15(1), 1-14. Co-first author

1. High-throughput detection method for DNA synthesis product, US10179934B2

2. Saccharomyces cerevisiae strain with artificially synthesized chromosome II, ZL201510008356.4

3. Oligonucleotide and uses thereof, ZL201580075708.6

4. Integration method of artificial semi-synthesized chromosome and microbe comprising complete synthesized chromosomes, ZL201510367496.0

5. Method for using dna to store text information, decoding method therefor and application thereof, US 10839295 B2/ZL201680085320.9

6. Method for constructing artificial chromosome in target cell and eukaryotic cell, ZL201610474430.6

7. Yeast strain for brewing lemon-flavored beer, its preparation method and beer brewing method, ZL201910470328.2

8. Microfluidic chip for nucleic acid synthesis, ZL201880068740.5

2017 The Top Ten Scientific Advances of China of 2017

2017 The National Leading Talents of Shenzhen

2019 The Top Prize of the 2019 Tianjin Science and Technology Awards of Natural Science

2019 The Top Young Talents in Science and Technology Innovation of Guangdong special support program

2021 The May 4th Youth Award of Shenzhen

2021        The Shenzhen Science and Technology Youth Awards

2021        The first prize of the 2021 Shenzhen Science and Technology Awards of the Natural Science