25. Rapid Screening of Lanthipeptide Analogs via In-Colony Removal of Leader Peptides in Escherichia coli.Tong Si^#, Qiqi Tian^#, Yuhao Min, Linzixuan Zhang, Jonathan V Sweedler, Wilfred A Van Der Donk*, Huimin Zhao* J. Am. Chem. Soc.,2018, 140(38), 11884-11888

24. Profiling of Microbial Colonies for High-Throughput Engineering of Multistep Enzymatic Reactions via Optically Guided Matrix-Assisted Laser Desorption/Ionization Mass Spectrometry. Tong Si^#, Bin Li^#, Troy J Comi^#, Yuwei Wu, Pingfan Hu, Yuying Wu, Yuhao Min, Douglas A Mitchell, Huimin Zhao*, Jonathan V Sweedler*. J. Am. Chem. Soc., 2017, 139(38), 12466-12473

23. Engineering biological systems using automated biofoundries. Ran Chao, Shekhar Mishra, Tong Si, Huimin Zhao*. Metab. Eng., 2017, 42, 92-108

22. Automated multiplex genome-scale engineering in yeast. Tong Si, Ran Chao, Yuhao Min, Yuying Wu, Wen Ren, Huimin Zhao*. Nat. Commun., 2017, 8, 15187

21. Fully automated one-step synthesis of single-transcript TALEN pairs using a biological foundry. Ran Chao, Jing Liang, Ipek Tasan, Tong Si, Linyang Ju, Huimin Zhao*. ACS Synth. Biol., 2017, 6(4), 678-685

20. Strain Development by Whole-Cell Directed Evolution. Tong Si^#, Jiazhang Lian^#, Huimin Zhao*. In Directed Enzyme Evolution: Advances and Applications, (M. Alcalde Ed.) pp. 173-200, Springer International Publishing AG, 2017. 

19. A brief overview of synthetic biology research programs and roadmap studies in the United States. Tong Si, Huimin Zhao*. Synth. Sys. Biotechnol., 2016, 1(4), 258-264

18. A one‐step matrix application method for MALDI mass spectrometry imaging of bacterial colony biofilms. Bin Li, Troy J Comi, Tong Si, Sage JB Dunham, Jonathan V Sweedler*. J. Mass Spectrum., 2016, 51(11), 1030-1035

17. Characterization of Bacillus subtilis Colony Biofilms via Mass Spectrometry and Fluorescence Imaging. Tong Si^#, Bin Li^#, Ke Zhang, Yiran Xu, Huimin Zhao*, Jonathan V Sweedler*. J. Proteome Res.,2016, 15, 1955-1962

16. Metabolic engineering of a synergistic pathway for n-butanol production in Saccharomyces cerevisiae. Shuobo Shi, Tong Si, Zihe Liu, Hongfang Zhang, Ee Lui Ang, Huimin Zhao*. Sci. Rep., 2016, 6, 25675

15. RNAi-Assisted Genome Evolution (RAGE) in Saccharomyces cerevisiae. Tong Si, Huimin Zhao*. In Methods in Molecular Biology, Volume 1470, pp. 183-198: High-Throughput RNAi Screening: Methods and Protocols, (D. Azorsa and S Arora, Eds.), Humana Press, 2016

14. Regulatory RNA-assisted genome engineering in microorganisms. Tong Si, Mohammad HamediRad, Huimin Zhao*. Curr. Opin. Chem. Biol., 2015, 36, 85-90

13. Rapid prototyping of microbial cell factories via genome-scale engineering. Tong Si^#, Han Xiao^#, Huimin Zhao*. Biotech. Adv., 2015, 33, 1420-1432

12. Development of a synthetic malonyl-CoA sensor in Saccharomyces cerevisiae for intracellular metabolite monitoring and genetic screening. Sijin Li, Tong Si, Meng Wang, Huimin Zhao*. ACS Synth. Biol., 2015, 4, 1308-1315

11. Homology-integrated CRISPR–Cas (HI-CRISPR) system for one-step multigene disruption in Saccharomyces cerevisiae. Zehua Bao, Han Xiao, Jing Liang, Lu Zhang, Xiong Xiong, Ning Sun, Tong Si, Huimin Zhao*. ACS Synth. Biol., 2015, 4, 585-594.

10. An engineered penta-functional minicellulosome for simultaneous saccharification and ethanol fermentation in Saccharomyces cerevisiae. Youyun Liang, Tong Si, Ee Lui Ang, Huimin Zhao*. Appl. Environ. Microbiol., 2014, 80, 6677-6684.

9. Design and construction of acetyl-CoA overproducing Saccharomyces cerevisiae strains. Jiazhang Lian, Tong Si, Nikhil U Nair, Huimin Zhao*. Metab. Eng., 2014, 24, 139-149

8. RNAi-assisted genome evolution in Saccharomyces cerevisiae for complex phenotype engineering. Tong Si, Yunzi Luo, Zehua Bao, Huimin Zhao*. ACS Synth. Biol., 2015, 4, 283-291

7. Utilizing an endogenous pathway for 1-butanol production in Saccharomyces cerevisiae. Tong Si, Yunzi Luo, Han Xiao, Huimin Zhao*. Metab. Eng., 2014, 22, 60-68

6. Directed evolution: an evolving and enabling synthetic biology tool. Ryan E Cobb, Tong Si, Huimin Zhao*. Curr. Opin. Chem. Biol., 2012, 16, 285-91

5. Towards achieving a flattop crystal size distribution by continuous seeding and controlled growth. Mo Jiang, Min Hao Wong, Zhilong Zhu, Jieqian Zhang, Lifang Zhou, Ke Wang, Ashlee N Ford Versypt, Tong Si, Lisa M Hasenberg, Yao-En Li, Richard D Braatz*.Chem. Eng. Sci., 2012, 77, 2-9

4. Biocatalyst development by directed evolution. Meng Wang^#, Tong Si^#, Huimin Zhao*. Bioresour. Technol., 2012, 115, 117-25

3. Customized optimization of metabolic pathways by combinatorial transcriptional engineering.Jing Du^#, Yongbo Yuan^#, Tong Si, Jiazhang Lian, Huimin Zhao*. Nucleic Acid Res.,2012, 40, e142

2. Direct conversion of xylan to ethanol by recombinant Saccharomyces cerevisiae strains displaying an engineered mini-hemicellulosome. Jie Sun, Fei Wen, Tong Si, Huimin Zhao*.Appl. Environ. Microbiol., 2012, 78, 3837-45 (Highlighted in Nat. Chem. Bio., 2012, 8, 502)

1. O-GlcNAcylation modulates the self-aggregation ability of the fourth microtubule-binding repeat of tau. * Chun-Hui Yu, Tong Si, Wei-Hui Wu, Jia Hu, Jin-Tang Du, Yu-Fen Zhao, Yan-Mei Li*. Biochem. Biophys. Res. Commun., 2009, 375, 20059-62