Jingqi Chen-Institute of Science and Technology for Brain-inspired Intelligence

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Jingqi Chen
Research Direction：Computational genomics+，AI-facilitated methods for translational medicine
Email：jingqichen@fudan.edu.cn
Website：https://www.researchgate.net/profile/Jingqi_Chen

Brief Introduction：Dr Jingqi Chen is an associate professor at ISTBI, Fudan University. She owned a PhD degree in Bioinformatics in 2016 from Fudan University, mentored by Dr Weidong Tian. She was then trained as a postdoctoral researcher with Dr Steven E. Brenner at UC Berkeley (2016-2018). She joined ISTBI in Fudan University as a young research associate in 2019, and became a research-focusing associate professor in Dec 2022. In 2026, she started her own lab as an independent PI. She has published multiple papers in important journals such as Science Bulletin, Genome Medicine, Nucleic Acids Research, Alzheimer's and Dementia, and Molecular Psychiatry. On-going projects: (1) Deciphering the roles of genomic repeat elements in brain disorders, through integrative analysis of genomics data, single-cell and spatial omics data, among others. (2) Developing AI-facilitated computational methods and systems to improve the molecular diagnosis and therapeutic genome editing of brain disorders.
Achievement：

All Publications: https://www.researchgate.net/profile/Jingqi_Chen
Selected papers:
* corresponding author(s)
(a) Computational genomics of brain disorders:
(a1) An, Z., ..., Chen, J.* & Zhao, X. M.* Characterizing schizophrenia-relevant structural variants and tandem repeats through long-read sequencing. Science Bulletin, doi:10.1016/j.scib.2025.11.004 (2026).
(a2) Cao, J., Zhang, C., ..., Cheng, T. L.*, Chen, J.*, Zhao, X. M.* & for the Alzheimer's Disease Neuroimaging Initiative. Integrating rare pathogenic variant prioritization with gene-based association analysis to identify novel genes and relevant multimodal traits for Alzheimer's disease. Alzheimer's & Dementia. doi:10.1002/alz.14444 (2025).
(a3) Chen, J.*, ... ,& Zhao, X. M.* Disrupted long-range gene regulations elucidate shared tissue-specific mechanisms of neuropsychiatric disorders. Molecular Psychiatry, doi:10.1038/s41380-022-01529-3 (2022).
(a4) Chen, J. & Tian, W. Explaining the disease phenotype of intergenic SNP through predicted long range regulation. Nucleic Acids Research. doi:10.1093/nar/gkw519 (2016).
(b) Computational models to facilitate molecular diagnosis and genome editing systems
(b1) Zhang, C., Chen, Z., Cao, J., Zhang, Z., Li, W. K.,..., Zhao, X. M.*, Chen, J.*, Zhan, C.* & Cheng, T. L.* RNA inosine sensor-guided TadA mutational scanning for toxicity minimization of adenine base editors. Molecular Therapy, doi:10.1016/j.ymthe.2025.10.011 (2025).
(b2) Yuan, B., Zhang, S., Song, L., ..., Chen, J.*, Zhao, X. M.* & Cheng, T. L.* Engineering of cytosine base editors with DNA damage minimization and editing scope diversification. Nucleic Acids Res 51, e105, doi:10.1093/nar/gkad855 (2023).
(b3) Chen, J.* A fully-automated event-based variant prioritizing solution to the CAGI5 intellectual disability gene panel challenge. Human Mutation. doi:10.1002/humu.23781 (2019).