Martin Saveski

Bio

I am a forth-year Ph.D. candidate (2021~) at Zhejiang University & Westlake University, advised by Stan Z. Li. My research focuses on AI for Science and scientific reasoning model.

Looking forward to any academic communications and feel free to contact me!

News

[2025/04] One co-first author paper on, Cryo-EM structure determination, is accepted by Nature Machine Intelligence.
[2025/04] One first author paper on, Spatiotemporal predictive learning, is accepted by TPAMI.
[2025/04] One first author paper on, Multimodal reasoning, is accepted by IJCAI 2025.
[2025/01] One co-first author paper on, Multimodal reasoning, is accepted by CVPR 2025 (Highlight).
[2025/01] One first author paper on, Post-translational modification prediction, is accepted by ICLR 2025.
[2024/12] One first author paper on, Antibody design, is accepted by AAAI 2025 (Oral).
[2024/12] One first author paper on, Spatiotemporal predictive learning, is accepted by TMM.
[2024/09] Three co-first papers on, Protein function prediction, are accepted by NeurIPS 2024.
[2024/07] One first author paper on, Multimodal Chain-of-Thought, is accepted by ECCV 2024.
[2024/05] One first author paper on, RNA secondary structure prediction, is accepted by ICML 2024.
[2024/01] One co-first author paper on, Diffusion model, is accepted by TKDE.
[2024/01] Two first/co-first author papers on, RNA design and protein design, are accepted by ICLR 2024.
[2023/12] One first author paper on, Antibody design, is accepted by AAAI 2024.
[2023/10] I have been honored with the National Scholarship.
[2023/09] Two first/co-first author papers on, Video prediction/protein design, are accepted by NeurIPS 2023.
[2023/02] One first author paper on, Video prediction, is accepted by CVPR 2023.
[2023/01] One co-first paper is on, Protein design, accepted by ICLR 2023.
[2022/03] Two first/co-first author papers on, Video prediction and SSL, are accepted by CVPR 2022.
[2021/08] One first author paper on, Noisy label learning, is accepted by ACM MM 2021.

Publications

Most recent publications on Google Scholar.
^‡ indicates equal contribution.

Selected
All

One-shot Cryo-EM Complex Structure Determination with High Accuracy and Ultra-fast Speed

Jue Wang^‡, Cheng Tan^‡, Zhangyang Gao^‡, GuiJun Zhang, Yang Zhang, Stan Z. Li

Nature Machine Intelligence, 2025.

USTEP: Spatio-Temporal Predictive Learning under A Unified View

Cheng Tan^‡, Jue Wang^‡, Zhangyang Gao^‡, Siyuan Li, Stan Z. Li

TPAMI, 2025.

SketchAgent: Generating Structured Diagrams from Hand-Drawn Sketches

Cheng Tan^‡, Qi Chen^‡, Jingxuan Wei^‡, Gaowei Wu, Zhangyang Gao, Siyuan Li, Bihui Yu, Ruifeng Guo, Stan Z. Li

IJCAI, 2025.

From Words to Structured Visuals: A Benchmark and Framework for Text-to-Diagram Generation and Editing

Jingxuan Wei^‡, Cheng Tan^‡, Qi Chen, Gaowei Wu, Siyuan Li, Zhangyang Gao, Linzhuang Sun, Bihui Yu, Ruifeng Guo

CVPR, 2025 (Highlight).

Paper Code

MeToken: Uniform Micro-environment Token Boosts Post-Translational Modification Prediction

Cheng Tan, Zhenxiao Cao, Zhangyang Gao, Lirong Wu, Siyuan Li, Yufei Huang, Jun Xia, Bozhen Hu, Stan Z. Li

ICLR, 2025.

Paper Code

dyAb: Flow Matching for Flexible Antibody Design with AlphaFold-driven Pre-binding Antigen

Cheng Tan^‡, Yijie Zhang^‡, Zhangyang Gao^‡, Yufei Huang, Haitao Lin, Lirong Wu, Fandi Wu, Mathieu Blanchette, Stan Z. Li

AAAI, 2025 (Oral).

Paper Code

FoldToken: Learning Protein Language via Vector Quantization and Beyond

Zhangyang Gao^‡, Cheng Tan^‡, Jue Wang, Yufei Huang, Lirong Wu, Stan Z. Li

AAAI, 2025.

Paper Code

SimVPv2: Towards Simple yet Powerful Spatiotemporal Predictive Learning

Cheng Tan^‡, Zhangyang Gao^‡, Siyuan Li^‡, Stan Z. Li

TMM: IEEE Transactions on Multimedia, 2024.

Paper Code

Learning Complete Protein Representation by Dynamically Coupling of Sequence and Structure

Bozhen Hu^‡, Cheng Tan^‡, Jun Xia, Yue Liu, Lirong Wu, Jiangbin Zheng, Yongjie Xu, Yufei Huang, Stan Z. Li

NeurIPS, 2024.

Paper Code

ProtGO: Function-Guided Protein Modeling for Unified Representation Learning

Bozhen Hu^‡, Cheng Tan^‡, Yongjie Xu, Zhangyang Gao, Jun Xia, Lirong Wu, Stan Z. Li

NeurIPS, 2024.

Paper Code

UniIF: Unified Molecule Inverse Folding

Zhangyang Gao^‡, Jue Wang^‡, Cheng Tan^‡, Lirong Wu, Yufei Huang, Siyuan Li, Zhirui Ye, Stan Z. Li

NeurIPS, 2024.

Paper Code

Boosting the Power of Small Multimodal Reasoning Models to Match Larger Models with Self-Consistency Training

Cheng Tan^‡, Jingxuan Wei^‡, Zhangyang Gao, Linzhuang Sun, Siyuan Li, Bihui Yu, Ruifeng Guo, Stan Z. Li

ECCV, 2024

Paper Code

RFold: Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective

Cheng Tan^‡, Zhangyang Gao^‡, Hanqun Cao, Xingran Chen, Ge Wang, Lirong Wu, Jun Xia, Jiangbin Zheng, Stan Z. Li

ICML, 2024.

Paper Code

A Survey on Generative Diffusion Model

Hanqun Cao^‡, Cheng Tan^‡, Zhangyang Gao^‡, Yilun Xu, Guangyong Chen, Pheng-Ann Heng, Stan Z. Li

TKDE, 2024.

Paper Code

RDesign: Hierarchical Data-efficient Representation Learning for Tertiary Structure-based RNA Design

Cheng Tan^‡, Yijie Zhang^‡, Zhangyang Gao^‡, Bozhen Hu, Siyuan Li, Zicheng Liu, Stan Z. Li

ICLR, 2024.

Paper Code

KW-Design: Pushing the Limit of Protein Design via Knowledge Refinement

Zhangyang Gao^‡, Cheng Tan^‡, Xingran Chen, Yijie Zhang, Jun Xia, Siyuan Li, Stan Z. Li

ICLR, 2024.

Paper Code

Cross-Gate MLP with Protein Complex Invariant Embedding is A One-Shot Antibody Designer

Cheng Tan^‡, Zhangyang Gao^‡, Lirong Wu, Jun Xia, Jiangbin Zheng, Xihong Yang, Yue Liu, Bozhen Hu, Stan Z. Li

AAAI, 2024.

Paper Code

OpenSTL: A Comprehensive Benchmark of Spatio-Temporal Predictive Learning

Cheng Tan^‡, Siyuan Li^‡, Zhangyang Gao, Wenfei Guan, Zedong Wang, Zicheng Liu, Lirong Wu, Stan Z. Li

NeurIPS, 2023.

Paper Code

Proteininvbench: Benchmarking Protein Inverse Folding on Diverse Tasks, Models, and Metrics

Zhangyang Gao^‡, Cheng Tan^‡, Yijie Zhang, Xingran Chen, Lirong Wu, Stan Z. Li

NeurIPS, 2023.

Paper Code

Temporal Attention Unit: Towards Efficient Spatiotemporal Predictive Learning

Cheng Tan^‡, Zhangyang Gao^‡, Lirong Wu, Yongjie Xu, Jun Xia, Siyuan Li, Stan Z. Li

CVPR, 2023.

Paper Code

PiFold: Toward Effective and Efficient Protein Inverse Folding

Zhangyang Gao^‡, Cheng Tan^‡, Stan Z. Li

ICLR, 2023 (Spotlight).

Paper Code

Hyperspherical Consistency Regularization

Cheng Tan^‡, Zhangyang Gao^‡, Lirong Wu, Siyuan Li, Stan Z. Li

CVPR, 2022.

Paper Code

SimVP: Simpler yet Better Video Prediction

Zhangyang Gao^‡, Cheng Tan^‡, Lirong Wu, Stan Z. Li

CVPR, 2022.

Paper Code

Co-learning: Learning from Noisy Labels with Self-supervision

Cheng Tan, Jun Xia, Lirong Wu, Stan Z. Li

ACM MM, 2021 (Oral).

Paper Code

Self-supervised Learning on Graphs: Contrastive, Generative, or Predictive

Lirong Wu, Haitao Lin, Cheng Tan, Zhangyang Gao, Stan Z. Li

TKDE, 2021.

Paper Code

One-shot Cryo-EM Complex Structure Determination with High Accuracy and Ultra-fast Speed

Jue Wang^‡, Cheng Tan^‡, Zhangyang Gao^‡, GuiJun Zhang, Yang Zhang, Stan Z. Li

Nature Machine Intelligence, 2025.

USTEP: Spatio-Temporal Predictive Learning under A Unified View

Cheng Tan^‡, Jue Wang^‡, Zhangyang Gao^‡, Siyuan Li, Stan Z. Li

TPAMI, 2025.

SketchAgent: Generating Structured Diagrams from Hand-Drawn Sketches

Cheng Tan^‡, Qi Chen^‡, Jingxuan Wei^‡, Gaowei Wu, Zhangyang Gao, Siyuan Li, Bihui Yu, Ruifeng Guo, Stan Z. Li

IJCAI, 2025.

From Words to Structured Visuals: A Benchmark and Framework for Text-to-Diagram Generation and Editing

Jingxuan Wei^‡, Cheng Tan^‡, Qi Chen, Gaowei Wu, Siyuan Li, Zhangyang Gao, Linzhuang Sun, Bihui Yu, Ruifeng Guo

CVPR, 2025 (Highlight).

Paper Code

MeToken: Uniform Micro-environment Token Boosts Post-Translational Modification Prediction

Cheng Tan, Zhenxiao Cao, Zhangyang Gao, Lirong Wu, Siyuan Li, Yufei Huang, Jun Xia, Bozhen Hu, Stan Z. Li

ICLR, 2025.

Paper Code

dyAb: Flow Matching for Flexible Antibody Design with AlphaFold-driven Pre-binding Antigen

Cheng Tan^‡, Yijie Zhang^‡, Zhangyang Gao^‡, Yufei Huang, Haitao Lin, Lirong Wu, Fandi Wu, Mathieu Blanchette, Stan Z. Li

AAAI, 2025 (Oral).

Paper Code

FoldToken: Learning Protein Language via Vector Quantization and Beyond

Zhangyang Gao^‡, Cheng Tan^‡, Jue Wang, Yufei Huang, Lirong Wu, Stan Z. Li

AAAI, 2025.

Paper Code

SimVPv2: Towards Simple yet Powerful Spatiotemporal Predictive Learning

Cheng Tan^‡, Zhangyang Gao^‡, Siyuan Li^‡, Stan Z. Li

TMM: IEEE Transactions on Multimedia, 2024.

Paper Code

Learning Complete Protein Representation by Dynamically Coupling of Sequence and Structure

Bozhen Hu^‡, Cheng Tan^‡, Jun Xia, Yue Liu, Lirong Wu, Jiangbin Zheng, Yongjie Xu, Yufei Huang, Stan Z. Li

NeurIPS, 2024.

Paper Code

ProtGO: Function-Guided Protein Modeling for Unified Representation Learning

Bozhen Hu^‡, Cheng Tan^‡, Yongjie Xu, Zhangyang Gao, Jun Xia, Lirong Wu, Stan Z. Li

NeurIPS, 2024.

Paper Code

UniIF: Unified Molecule Inverse Folding

Zhangyang Gao^‡, Jue Wang^‡, Cheng Tan^‡, Lirong Wu, Yufei Huang, Siyuan Li, Zhirui Ye, Stan Z. Li

NeurIPS, 2024.

Paper Code

Boosting the Power of Small Multimodal Reasoning Models to Match Larger Models with Self-Consistency Training

Cheng Tan^‡, Jingxuan Wei^‡, Zhangyang Gao, Linzhuang Sun, Siyuan Li, Bihui Yu, Ruifeng Guo, Stan Z. Li

ECCV, 2024

Paper Code

RFold: Deciphering RNA Secondary Structure Prediction: A Probabilistic K-Rook Matching Perspective

Cheng Tan^‡, Zhangyang Gao^‡, Hanqun Cao, Xingran Chen, Ge Wang, Lirong Wu, Jun Xia, Jiangbin Zheng, Stan Z. Li

ICML, 2024.

Paper Code

A Survey on Generative Diffusion Model

Hanqun Cao^‡, Cheng Tan^‡, Zhangyang Gao^‡, Yilun Xu, Guangyong Chen, Pheng-Ann Heng, Stan Z. Li

TKDE, 2024.

Paper Code

RDesign: Hierarchical Data-efficient Representation Learning for Tertiary Structure-based RNA Design

Cheng Tan^‡, Yijie Zhang^‡, Zhangyang Gao^‡, Bozhen Hu, Siyuan Li, Zicheng Liu, Stan Z. Li

ICLR, 2024.

Paper Code

KW-Design: Pushing the Limit of Protein Design via Knowledge Refinement

Zhangyang Gao^‡, Cheng Tan^‡, Xingran Chen, Yijie Zhang, Jun Xia, Siyuan Li, Stan Z. Li

ICLR, 2024.

Paper Code

Cross-Gate MLP with Protein Complex Invariant Embedding is A One-Shot Antibody Designer

Cheng Tan^‡, Zhangyang Gao^‡, Lirong Wu, Jun Xia, Jiangbin Zheng, Xihong Yang, Yue Liu, Bozhen Hu, Stan Z. Li

AAAI, 2024.

Paper Code

OpenSTL: A Comprehensive Benchmark of Spatio-Temporal Predictive Learning

Cheng Tan^‡, Siyuan Li^‡, Zhangyang Gao, Wenfei Guan, Zedong Wang, Zicheng Liu, Lirong Wu, Stan Z. Li

NeurIPS, 2023.

Paper Code

Proteininvbench: Benchmarking Protein Inverse Folding on Diverse Tasks, Models, and Metrics

Zhangyang Gao^‡, Cheng Tan^‡, Yijie Zhang, Xingran Chen, Lirong Wu, Stan Z. Li

NeurIPS, 2023.

Paper Code

Temporal Attention Unit: Towards Efficient Spatiotemporal Predictive Learning

Cheng Tan^‡, Zhangyang Gao^‡, Lirong Wu, Yongjie Xu, Jun Xia, Siyuan Li, Stan Z. Li

CVPR, 2023.

Paper Code

PiFold: Toward Effective and Efficient Protein Inverse Folding

Zhangyang Gao^‡, Cheng Tan^‡, Stan Z. Li

ICLR, 2023 (Spotlight).

Paper Code

Hyperspherical Consistency Regularization

Cheng Tan^‡, Zhangyang Gao^‡, Lirong Wu, Siyuan Li, Stan Z. Li

CVPR, 2022.

Paper Code

SimVP: Simpler yet Better Video Prediction

Zhangyang Gao^‡, Cheng Tan^‡, Lirong Wu, Stan Z. Li

CVPR, 2022.

Paper Code

Co-learning: Learning from Noisy Labels with Self-supervision

Cheng Tan, Jun Xia, Lirong Wu, Stan Z. Li

ACM MM, 2021 (Oral).

Paper Code

Self-supervised Learning on Graphs: Contrastive, Generative, or Predictive

Lirong Wu, Haitao Lin, Cheng Tan, Zhangyang Gao, Stan Z. Li

TKDE, 2021.

Paper Code

Service

Conference - Program committee member:

ICML, NeurIPS, ICLR, AISTATS, CVPR, ECCV, ICCV, AAAI, ACL, EMNLP, ACM MM, ECML-PKDD, ICASSP, etc.

Journal - Reviewer:

IEEE TPAMI - Transactions on Pattern Analysis and Machine Intelligence
IEEE TIP - Transactions on Image Processing
IEEE TMM - Transactions on Multimedia
IEEE TCSVT - Transactions on Circuits and Systems for Video Technology
IEEE TNNLS - Transactions on Neural Networks and Learning Systems
IEEE TCBB - Transactions on Computational Biology and Bioinformatics
Pattern Recognition
EAAI - Engineering Applications of Artificial Intelligence
Neurocomputing

Talks

2023/08/30: Talk on "Antibody Design" @ Betta Pharmaceuticals.
2023/11/16: Talk on "Spatiotemporal Modeling and Its Applications on Weather Forecasting" @ Microsoft Suzhou.
2023/11/29: Talk on "OpenSTL Applications" @ Inner Mongolia Meteorological Service.
2024/12/20: Talk on "AI-driven Controllable Biomolecular Design" @ Hunan University.
2025/02/21: Talk on "Deep Learning Towards Scientific Challenges" @ Beijing Zhongguancun Academy.

Awards and Honors

2023/10: National Scholarship.
2023/12: AAAI-24 Scholarship Award.

Vitæ

Zhejiang University & Westlake University Sept 2021 - present

Ph.D. Student
Computer Science and Technology
Supervisor: Prof. Stan Z. Li
Biomap Dec 2024 - April 2025

Research on Antibody Design
Tecent AI Lab Oct 2023 - Oct 2024

Research on Controllable Protein Design
Supervisor: Dr. Fandi Wu
University of Alberta, Canada. July 2019 - Oct 2019

Research Assistant
Artificial General Intelligence Lab
Prof. Vadim Bulitko (Professor, Computer Science)
Prof. Erin Bayne (Professor, Biology)
Northwest A&F University Sept 2017 - June 2021

B.Sc. Student
Computer Science and Technology

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