>> Colab · CUHK-Shenzhen

Decoding the language of life
through computation.

We build computational and machine-learning models to decode genome regulation, cellular state, and disease mechanisms — turning high-dimensional biological data into testable hypotheses for human health.

1 Publications
1 Postdocs
1 PhD students
1 Research assistants

Recent news

Selected updates from the lab.

2026-06

Zhijian accepts an offer to join the School of Medicine, CUHK-Shenzhen, as Assistant Professor.

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About the PI

Principal Investigator at the School of Medicine, CUHK-Shenzhen.

Profile photo placeholder for Zhijian Li

Zhijian Li, Ph.D. is a Principal Investigator at the School of Medicine, The Chinese University of Hong Kong, Shenzhen. His research sits at the intersection of computational biology, genomics, and machine learning, with the goal of understanding how genome regulation shapes cellular identity, development, and disease.

Before joining CUHK-Shenzhen, he trained in computational genomics and developed methods for single-cell multi-omics, regulatory element discovery, and statistical inference from sparse, high-dimensional measurements. The lab continues this work by combining principled probabilistic models with modern deep learning, and collaborates closely with wet-lab partners on hypothesis-driven validation.

Position
Principal Investigator, Assistant Professor
Affiliation
School of Medicine, CUHK-Shenzhen
Email
zhijianli [at] cuhk.edu.cn
Office
School of Medicine, 2001 Longxiang Blvd, Longgang, Shenzhen

Research highlights

Three threads, one question: how is biological information encoded, read, and rewritten?

α

Genome regulation

Modeling cis-regulatory grammar from sequence and chromatin data to predict how non-coding variation reshapes gene expression and disease risk.

β

Single-cell & spatial

Probabilistic and deep-learning methods for single-cell multi-omics and spatial transcriptomics — recovering cell states, lineages, and tissue architecture from sparse measurements.

γ

AI for human disease

Translating regulatory and cellular models into mechanism-aware predictors for cancer, immune, and metabolic phenotypes — built to be interpretable and clinically actionable.

See full research overview →

Selected publications

Representative papers — full list on the publications page.

  1. Mapping disease critical spatially variable gene programs by integrating spatial transcriptomics with human genetics Preprint

    Hanbyul Lee, Haochen Sun, Xuewei Cao, Berke Karaahmet, Zhijian Li, Hans-Ulrich Klein, Mariko Taga, Gao Wang, Philip L. De Jager, David A. Bennett, Luca Pinello, Xin Jin, Rahul Mazumder, Kushal K. Dey

    bioRxiv

  2. Chemokine Landscapes of the Tumor Microenvironment Preprint

    Lukas M Altenburger, Aditya Patil, Jakob Jobst, Raphael Kfuri-Rubens, Taylor T Chrisikos, Kazuhiro Taguchi, Meredith F Ellis, Nicolas Roehrle, Murat Tekguc, Zhijian Li, Ryuji Morizane, Luca Pinello, Fabian Theis, Andrew D Luster, Orr Ashenberg, Ramnik J Xavier, Lloyd Bod, Rod A Rahimi, Gary Reynolds, Thorsten R Mempel

    bioRxiv

  3. EPInformer: scalable and integrative prediction of gene expression from promoter–enhancer sequences with multimodal epigenomic profiles

    Jiecong Lin, Zhijian Li, Yajie Zhao, Ruibang Luo, Luca Pinello

    Nature Communications 17, 3975 (2026).

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We are looking for curious people.

Postdocs, PhD students, research assistants and visiting scholars with backgrounds in computational biology, statistics, machine learning, or molecular biology — we'd love to hear from you.

See open positions →