Chenfei Wang

Affiliated Investigator
Investigating Computational Biology, AI, Single-cell Genomics, System Immunology, Gene Regulation
the National Science Fund for Excellent Young Scholars
the Ray Wu Prize

Biography

Chenfei Wang is a tenured professor in the Department of Bioinformatics at the School of Life Sciences and Technology, Tongji University. He is an Affiliated Investigator at the Sycamore Research Institute of Life Sciences, Shanghai.

His research focuses on bioinformatics and artificial intelligence, as well as the microenvironment  regulation and disease occurrence. In recent years, he has developed a series of intelligent algorithms for enhancing, generating, and functionally analyzing single-cell spatial-temporal multi-omics data, revealing the mechanisms linking multicellular cooperation and disease occurrence in complex microenvironments. He has published over twenty papers as corresponding author (including co-corresponding) in journals such as Nature Genetics, Nature Cancer, Cell Stem Cell, Genome Biology, and Nucleic Acids Research. He serves as a reviewer for journals including Nature Reviews Genetics, Nature Methods, Nature Cell Biology, Genome Biology, and Nature Communications, and is an editorial board member of BMC Bioinformatics. He leads and participates in several national research projects, including key R&D youth projects from the Ministry of Science and Technology, and national, young, and general research funds. He has received honors such as the Wu Rui Scholarship, the Boshin Program, and the Shanghai Science and Technology Rising Star award. He serves as a council member and chair of the Youth Committee of the Shanghai Bioinformatics Society.

 

Representative Publications

2025
Reference-guided computational framework identifies microenvironment metabolic subtypes and targets using pan-cancer single-cell datasets
Ke Tang, Ya Han, Dongqing Sun, Xin Dong, Tong Han, Hailin Wei, Wenwen Shao, Junjie Hu, Zhaoyang Liu, Lele Zhang, Taiwen Li, Peng Zhang, Qiu Wu, Chenfei Wang
Genome Medicine DOI
2025
Cisformer: a scalable cross-modality generation framework for decoding transcriptional regulation at single-cell resolution
Luzhang Ji, Qihang Zou, Ke Tang, Chenfei Wang
Genome Biology DOI
2025
Spatiotemporal analyses of the pan-cancer single-cell landscape reveal widespread profibrotic ecotypes associated with tumor immunity
Ya Han, Lele Zhang, Dongqing Sun, Guangxu Cao, Yuting Wang, Jiali Yue, Junjie Hu, Zhonghua Dong, Fang Li, Taiwen Li, Peng Zhang, Qiu Wu, Chenfei Wang
Nature Cancer DOI
2025
Multi-omic profiling highlights factors associated with resistance to immuno-chemotherapy in non-small-cell lung cancer
Yilv Yan, Dongqing Sun, Junjie Hu, Yue Chen, Liangdong Sun, Huansha Yu, Yicheng Xiong, Zhida Huang, Haoran Xia, Xinsheng Zhu, Dongliang Bian, Fenghuan Sun, Likun Hou, Chunyan Wu, Orion R. Fan, Haiyang Hu, An Zeng, Lele Zhang, Yi Eve Sun, Chenfei Wang, Peng Zhang
Nature Genetics DOI
2023
Cancer Cell Resistance to IFNγ Can Occur via Enhanced Double-Strand Break Repair Pathway Activity
Tong Han, Xujun Wang, Sailing Shi, Wubing Zhang, Jue Wang, Qiu Wu, Ziyi Li, Jingxin Fu, Rongbin Zheng, Jiamin Zhang, Qin Tang, Peng Zhang, Chenfei Wang
Cancer Immunology Research DOI
2022
Single-cell gene regulation network inference by large-scale data integration
Xin Dong, Ke Tang, Yunfan Xu, Hailin Wei, Tong Han, Chenfei Wang
Nucleic Acids Research DOI
2022
Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information
Zhaoyang Liu, Dongqing Sun, Chenfei Wang
Genome Biology DOI
2022
STRIDE: accurately decomposing and integrating spatial transcriptomics using single-cell RNA sequencing
Dongqing Sun, Zhaoyang Liu, Taiwen Li, Qiu Wu, Chenfei Wang
Nucleic Acids Research DOI
2021
TISCH: a comprehensive web resource enabling interactive single-cell transcriptome visualization of tumor microenvironment
Dongqing Sun, Jin Wang, Ya Han, Xin Dong, Jun Ge, Rongbin Zheng, Xiaoying Shi, Binbin Wang, Ziyi Li, Pengfei Ren, Liangdong Sun, Yilv Yan, Peng Zhang, Fan Zhang, Taiwen Li, Chenfei Wang
Nucleic Acids Research DOI