I am currently a PhD student in the School of Life Sciences at Tsinghua University, focusing on biological omics foundation models, proteomics, and spatial proteomics. For any inquiries regarding potential academic collaborations, please don’t hesitate to reach out to me via email at zhuj21@mails.tsinghua.edu.cn.

Previously, I earned my bachelor’s degree from the School of Life Sciences and Technology at Tongji University. During my undergraduate studies, I was advised by Dr. Qi Liu in the Department of Bioinformatics.

News

2026.03 🚀 Our paper Bridging genetic and chemical screens from molecular representation to phenotype modeling accepted in principle at Cell 🎉
2025.10 🚀 Our paper “Cell Decoder: decoding cell identity with multi-scale explainable deep learning” has been accepted at Genome Biology 🎉
2024.12: 🚀 Our Paper “DUSTED: Dual-attention Enhanced Spatial Transcriptomics Denoiser” has been accepted by AAAI-2025 and selected as Oral pre.

Publications

DUSTED: Dual-attention Enhanced Spatial Transcriptomics Denoiser
Jun Zhu^#,*, Yifu Li^#, Zhenchao Tang^#, et al.
Proceedings of the AAAI Conference on Artificial Intelligence (AAAI), 2025 (Oral)
Cell Decoder: Decoding cell identity with multi-scale explainable deep learning
Jun Zhu^#, Zeyang Zhang^#, Yujia Xiang^#, et al.
Genome Biology, 2025
Bridging genetic and chemical screens from molecular representation to phenotype modeling
Yiming Li, Min Zeng, Jun Zhu, Linjing Liu, Fang Wang, Longkai Huang, Fan Yang, Min Li^*, Jianhua Yao^*
Cell, 2026 (Accepted in Principle)

Honors and Awards

2025.09 National Scholarship (Top 1%), Tsinghua university
2023.02 MICOS (THE MAMMOTH INTERNATIONAL CONTEST ON OMICS SCIENCES), First Award
2021.12 iGEM 2021, Best Software & Gold Medal, Team advisor.
2021.06 Outstanding Graduates of Shanghai (Top 1%)
2020.11 iGEM 2020, Gold Medal, Team leader.
2019.10,2020.10 National Scholarship (Top 1%)
2016.09 National Bronze, China National Biology Olympiad. (Ranked 12th in Sichuan Province)

Educations

2021.09-now, PhD, Tsinghua University, Beijing.
2017.09-2021.06, Undergraduate, Tongji Univeristy, Shanghai.

Invited Talks

2025.02, Oral Presentation, AAAI Conference on Artificial Intelligence (AAAI-2025). (Philadelphia, USA)
2024.09, Oral Pre, BENZON SYMPOSIUM No. 68 INTEGRATION OF MASS SPECTROMETRY-BASED PROTEOMICS AND AI TO REVOLUTIONIZE PERSONALIZED MEDICINE. (Copenhagen, Denmark)
2023.11, The Fifth Chemical Biology Graduate Forum, Peking University.（Beijing, China）

Internships