1) AI for life science, especially at RNA/Protein level;

2) Gene regulation at transcription and post-transcription levels.

1. Yuan, Y., Chen, Y., Liu, R., Que, G., Yuan, Y., and Li, G.(2024). An AI-designed adenine base editor. 2024.04.28.591233. https://doi.org/10.1101/2024.04.28.591233. ( under review )
2. Fang, L., Li, , Sun, Z., Zhu, Q., Cui, H., Li, Y., Zhang, J., Liang, W., Wei, W., Hu, Y., & Chen, W. (2021). CASB: a concanavalin A-based sample barcoding strategy for single-cell sequencing. Molecular Systems Biology.(co-first author)
3. Fang, L., Wang, W., Li, , Zhang, L., Li, J., Gan, D., Yang, J., Tang, Y., Ding, Z., Zhang, M., Zhang, W., Deng, D., Song, Z., Zhu, Q., Cui, H., Hu, Y., & Chen, W. (2020). CIGAR-seq, a CRISPR/Cas-based method for unbiased screening of novel mRNA modification regulators. Molecular Systems Biology.(co-first author)
4. Yi, H., Li, , Long, Y., Liang, W., Cui, H., Zhang, B., Tan, Y., Li, Y., Shen, L., Deng, D., Tang, Y., Mao, C., Tian, S., Cai, Y., Zhu, Q., Hu, Y., Chen, W., & Fang, L. (2020). Integrative multi-omics analysis of a colon cancer cell line with heterogeneous Wnt activity revealed RUNX2 as an epigenetic regulator of EMT. Oncogene. (co-first author)
5. Chen, F., Li, , Zhang, M. Q., & Chen, Y. (2018). HiCDB: a sensitive and robust method for detecting contact domain boundaries. Nucleic Acids Research. (co-first author)
6. Li, , Chen, Y., Snyder, M. P., & Zhang, M. Q. (2017). ChIA-PET2: A versatile and flexible pipeline for ChIA-PET data analysis.Nucleic Acids Research