People
Principle Investigator
| 1239 Siping Road, Shanghai 200092 | |
| 08chenfeiwang@tongji.edu.cn | |
Chenfei Wang
Chenfei Wang received his B.S. and Ph.D. in Bioinformatics from Tongji University in 2012 and 2017, respectively. During his Ph.D. studies, he focused on epigenetic reprogramming and its effects on embryogenesis and cell fate determination in mammalian early embryos and SCNT embryos, utilizing computational methods. In 2018, he joined Xiaole Shirley Liu's lab as a postdoctoral researcher at Dana-Farber Cancer Institute and Harvard University, where he developed algorithms for the integrated analysis of single-cell multi-omic data. Currently, he is a Professor at the School of Life Science and Technology at Tongji University. His research centers on developing computational algorithms and conducting big data mining on high-throughput data to understand the roles of gene regulation and cellular crosstalk in cellular and individual phenotypes during disease development and aging.
Dr. Wang is a recipient of the Ray Wu Prize and a participant in the Shanghai Rising Star Program. He has also received support from the Excellent Youth Program and the General Program of the National Natural Science Foundation of China. He has published over 20 papers as a corresponding author in journals such as Nature Genetics, Nature Cancer, Cell Stem Cell, Genome Biology, and Nucleic Acids Research.
Staff
Dongqing Sun
Dongqing received her bachelor's degree in Bioinformatics from Huazhong Agricultural University in 2018 and Ph.D. in Bioinformatics from Tongji University in 2024. Her research focuses on understanding the tumor immunity and embryo development by using single cell and spatial technologies. Recently, she's working on developing computational methods to decipher spatial transcriptomics at single-cell resolution.
Luzhang Ji
Luzhang Ji received his B.S. in Bioengineering from East China University of Science and Technology in 2015, and earned his Ph.D. in Bioinformatics from Fudan University in 2020. He has published in Cell Reports, GPB (Genomics, Proteomics & Bioinformatics), BMC Genomics, and other journals as the (co-)first author. Now he is a postdoctoral researcher in the lab, focusing on developing computational algorithms to do cross-modality translation at single-cell resolution. He has been supported by the National Funded Postdoctoral Researcher Program and the National Natural Science Foundation Youth Fund.
Qiu Wu
Qiu received her Ph.D. in Biotechnology from Tongji University in 2018. She joined Prof. Shaorong Gao's lab as a postdoctoral research fellow and studied the epigenetic regulation of human embryo development. She has published in Cell Stem Cell, Nucleic Acids Research, and other journals. Starting in 2023, Qiu is an assistant professor in the lab, focusing on investigating the epigenetic and metabolic crosstalk in the tumor microenvironment. Qiu has been supported by the Shanghai Super Postdoctoral Program and the National Natural Science Foundation Youth Fund.
Xin Dong
Xin received his bachelor's degree in Biotechnology from Shandong Normal University in 2018 and Ph.D. in Bioinformatics from Tongji University in 2024. His research focuses on elucidating the mechanism of gene regulation and epigenome in cancer genome based on available public data. Recently he is working on developing computational approaches to investigate gene regulation with the power of single-cell technology.
Ya Han
Ya received her bachelor’s degree in Bioinformatics from Harbin Medical University in 2018. Her research focuses on collecting and processing tumor-related scRNA-seq datasets and exploring the difference of tumor-infiltrated immune cells between different conditions such as tumor, normal and metastasis.
Students
Hailin Wei
Hailin received his bachelor's degree in Bioinformatics from Tongji University in 2020. His research focuses on modeling gene regulation and perturbation efficiency from single-cell CRISPR screens data. Recently, he is working on developing a universal pipeline to analyze single-cell CRISPR screens data.
Ke Tang
Ke Tang received her bachelor's degree in Sichuan Normal University in 2020. Her research focuses on deciphering and achieving specific cell differentiation by construction of single-cell gene regulatory networks and prediction of cell-type-specific transcription factors based on avaliable public data. Recently she is working on developing computational approaches to investigate gene regulation with the power of single-cell technology.
Leyi Zhang
Leyi Zhang is studying bioinformatics at Tongji University. Her current research focuses on training large language models based on single-cell data and construction of Aging Clock based on blood single-cell datasets.
Pengpeng Wu
Pengpeng received his bachelor’s degree in Biopharmaceuticals from Anhui Agricultural University in 2024. His research focuses on the construction and benckmark of single-cell large language models.
Qihang Zou
Qihang received his bachelor's degree in Biotechnology from Shandong University in 2022. His research focuses on developing machine-learning tools to integrate public single-cell sequencing data. He is now working on developing machine-learning approaches to impute single-cell sequencing data based on available public bulk references and NPL approaches to link genes with related functional topics.
Tianrui Zhou
Tianrui received his bachelor's degree in Bioinformatics from Soochow University in 2023. His research focuses on exploring the spatial distribution of RNA using subcellular resolution spatial transcriptomics technology.
Wenwen Shao
Wenwen Shao received her bachelor's degree in Bioinformatics from Huazhong University of Science and Technology in 2023. Her research focuses on exploring spatial structure in the tumor microenvironment. Recently, she is working on developing a workflow for processing spatial transcriptomic data.
Xinwei Zheng
Xinwei Zheng is currently studying biotechnology at Tongji University.Her current research focuses on training large language models based on single-cell data.
Xuanxin Ding
Xuanxin Ding received his bachelor's degree in bioinformatics from Tongji University in 2024. Currently, his research focuses on integration of single cell data.
Yongyan Wang
Yongyan Wang received his bachelor's degree in bioinformatics from Fujian Medical University in 2024. Currently, his research focuses on the crawling and sorting of meta-information from single-cell data in GEO databases.
Yuting Wang
Yuting Wang received her bachelor's degree in Bio-medical Engineering from Harbin Medical University in 2021. Her research now focuses on single cell data integration of multiple datasets and explores the tumor microenvironment.
Zhaoyang Liu
Zhaoyang received his bachelor’s degree in Bioinformatics from Tongji University in 2021. His research focuses on exploring cell-cell interactions using single-cell and spatial transcriptomics. He is now working on the evaluation of public cell-cell interactions predicting tools using ST data.
Zhonghua Dong
Zhonghua received her bachelor's degree in Bioinformatics from Huazhong Agricultural University in 2022. Her research focuses on integrating single-cell and spatial transcriptomic data to study the spatial pattern and regulatory mechanisms of the tumor microenvironment.
Collaborating Students
Junjie Hu
Junjie received his Bachelor's degree in Clinical Medicine from Tongji University in 2019. His Current research is focusing on the transcriptome, genome and proteome of lung cancer.
Xiaoying Shi
Xiaoying received her bachelor degree in Bioinformatics from Dalian University of Technology. Her research interests utilize a combination of CRISPR screen, epigenetics and single-cell data to unravel the mystery behind Cancer Immunology. Recently she focuses on developing cell type annotation tools for Single-Cell data.
Xiyang Chen
Xiyang received her bachelor's degree in Biology from Shaanxi Normal University in 2017. Her research focuses on developing single cell ChIP-seq analysis methods and understanding the dynamic changes in histone modification during the development of somatic cell nuclear transfer embryos. Recently, she's working on developing analysis tools for a novel scChIP-seq method.
Yilv Yan
Yilv received his Bachelor's degree in Clinical Medicine from Tongji University in 2018. His Current research is focusing on the transcriptome, genome and proteome of lung cancer.
Yuhan Ren
Yuhan received her bachelor's degree in Biology from Qingdao University in 2022. Her research focuses on the application of single cell full-length RNA sequence technology to investigate the relationship between repeats and gene regulation.
Zhanhe Chang
Zhanhe received her bachelor's degree in Bioinformatics from Tianjin Medical University in 2020. Her research focuses on embryo development by using single cell and spatial multi-omics technologies. Recently, she's working on developing a multi-omics pipeline named SPRINT which integrated RNA Expression, DNA methylation and Chromatin Accessibility analysis in space.
Alumni
Students and current status
- Ya Han, PhD (2020-2024) Postdoc in Tongji University, Shanghai, China
- Liangdong Sun, PhD (2020-2024) Medical intern in Shanghai Pulmonary hospital, Shanghai, China
- Yunfan Xu, Master (2021-2024) Baimu Biotech Co., Shanghai, China
- Tong Han, PhD (2020-2023) Postdoc in BWH and Harvard Medical School, Boston, USA
- Jiali Yue, Master (2020-2023) Centre Testing International Group Co., Shanghai, China
- Pengfei Ren, Master (2020-2022) Phd in Peking University, Beijing, China
- Jin Wang, PhD (2020-2021) GV20 Oncotherapy, Shanghai, China