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人工智能和合成生物学的交叉研究，关注通过人工智能技术开发蛋白质设计、核酸设计、肿瘤免疫治疗和基因编辑工具等前沿技术

1. Dacheng Ma, Zhimeng Xu, Zhaoyu Zhang, Xi Chen, Xiangzhi Zeng, Yiyang Zhang, Tingyue Deng et al. "Engineer chimeric Cas9 to expand PAM recognition based on evolutionary information." Nature Communications 10, no. 1 (2019): 560.
2. Dacheng Ma#, Shuguang Peng#, and Zhen Xie. "Integration and exchange of split dCas9 domains for transcriptional controls in mammalian cells." Nature Communications 7, no. 1 (2016): 13056.
3. Dacheng Ma#, Qichen Yuan#, Fei Peng#, Victor Paredes, Hongzhi Zeng, Emmanuel C. Osikpa, Qiaochu Yang et al. "Engineered PROTAC-CID systems for mammalian inducible gene regulation." Journal of the American Chemical Society 145, no. 3 (2023): 1593-1606.
4. Dacheng Ma, Shuguang Peng, Weiren Huang, Zhiming Cai, and Zhen Xie. "Rational design of mini-Cas9 for transcriptional activation." ACS Synthetic Biology 7, no. 4 (2018): 978-985.
5. Guo, Tingxi#, Dacheng Ma#, and Timothy K. Lu. "Sense-and-respond payload delivery using a novel antigen-inducible promoter improves suboptimal CAR-T activation." ACS Synthetic Biology 11, no. 4 (2022): 1440-1453.
6. Xu, Zhimeng, Dacheng Ma, Houzhen Su, Xiaodong Jia, Yinqing Li, Yinying Lu, and Zhen Xie. "Explore the dominant factor in prime editing via a view of DNA processing." Synthetic and Systems Biotechnology 8, no. 3 (2023): 371-377.
7. Zeng, Hongzhi, Qichen Yuan, Fei Peng, Dacheng Ma, Ananya Lingineni, Kelly Chee, Peretz Gilberd, Emmanuel C. Osikpa, Zheng Sun, and Xue Gao. "A split and inducible adenine base editor for precise in vivo base editing." Nature Communications 14, no. 1 (2023): 5573.
8. Guo, Jianying, Dacheng Ma, Rujin Huang, Jia Ming, Min Ye, Kehkooi Kee, Zhen Xie, and Jie Na. "An inducible CRISPR-ON system for controllable gene activation in human pluripotent stem cells." Protein & cell 8, no. 5 (2017): 379-393.
9. Liu, Xinyue, Yueying Yang, Maria Eugenia Inda, Shaoting Lin, Jingjing Wu, Yoonho Kim, Xiaoyu Chen, Dacheng Ma, Timothy K. Lu, and Xuanhe Zhao. "Magnetic living hydrogels for intestinal localization, retention, and diagnosis." Advanced Functional Materials 31, no. 27 (2021): 2010918.
10. Guo, Yucheng, Chen Bao, Dacheng Ma, Yubing Cao, Yanda Li, Zhen Xie, and Shao Li. "Network-based combinatorial CRISPR-Cas9 screens identify synergistic modules in human cells." ACS Synthetic Biology 8, no. 3 (2019): 482-490.

1、利用拆分Cas系统进行基因编辑和表达调控方法 授权公告日：2019年09月27日
2、基于进化信息构建嵌合SaCas9用于增强和扩展 PAM 位点的识别 授权公告日：2021年12月31日
3、双sgRNA表达质粒及其文库的构建方法 授权公告日：2020年02月28日
4、工程化改造用于由增强的指导RNA优化的基因编辑和转录调节的最小化SaCas9 CRISPR/Cas 授权公告日：2023年04月28日

1、国家重点研发计划青年科学家项目 宏基因组挖掘新型元器件蛋白构建复杂基因线路用于肿瘤精准识别的研究，主持，300万 2023.10-2026.10
2、国家自然科学基金面上基金 基于宏基因组大规模蛋白复合物挖掘的蛋白相互作用位点预测深度学习模型的研究，主持，50万 2026.01-2029.12
3、国家自然科学基金青年基金 小分子诱导的DNA编辑工具的开发及其性能研究，主持，30万 2024.01-2026.12

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