CV

Education

• Ph.D. in Bioinformatics, Peking University, 2024
• Joint Ph.D. in Artificial intelligence, Tsinghua University, 2024
• B.S. in Marine biology, Zhejiang University, 2019

Positions and Scientific appointments

• Winter 2016: Research Internship
  • Second Institute of Oceanography, Ministry of Natural Resources
• Summer 2017: Research Assistant
  • School of Life Science and Technology, Shanghai Tech University
  • Supervisor: Professor Tian Chi
• 2017-2018: Student Research Training Program
  • Ocean College, Zhejiang University
  • Supervisor: Professor Daoqiong Zheng
• 2020-2024: Graduate Research Assistant
  • School of Life Science, Tsinghua University
  • Supervisor: Professor Qiangfeng Cliff Zhang

Honors and Awards

• 2016, 2017, 2018: 3rd Academic Scholarship, Zhejiang University
• 2016: 1st Research and Innovation Scholarship, Zhejiang University
• 2022, 2023: Award for Scientific Research, Peking University

Skills

• Deep Learning
• Data Analysis
  • Single cell data analysis
  • Spatial transcriptomics data analysis
  • NGS data analysis
• Genomics and epigenomics analysis

Publications

Tissue module discovery in single-cell resolution spatial transcriptomics data via cell-cell interaction-aware cell embedding.

Li, Y.*, Zhang J.*, Gao, X., and Zhang, Q.C. Tissue module discovery in single-cell resolution spatial transcriptomics data via cell-cell interaction-aware cell embedding. Cell Syst (2024) May 29: S2405-4712(24)00124-8.

Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space.

Xiong, L.*, Tian, K.*, Li, Y., Ning, W., Gao, X., and Zhang, Q.C. Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space. Nat Commun 13, 1–17 (2022).

CD127 imprints functional heterogeneity to diversify monocyte responses in inflammatory diseases.

Zhang, B. et al. CD127 imprints functional heterogeneity to diversify monocyte responses in inflammatory diseases. Journal of Experimental Medicine 219, e20211191 (2022).

The chromatin-remodeling enzyme Smarca5 regulates erythrocyte aggregation via Keap1-Nrf2 signaling.

Ding, Y.*, Li, Y.*, Zhao, Z.*, Zhang, Q.C., and Liu, F. The chromatin-remodeling enzyme Smarca5 regulates erythrocyte aggregation via Keap1-Nrf2 signaling. eLife 10, e72557 (2021).