HC
Hanqun Cao
cs.LGq-bio.BMcs.AIartificial intelligencecs.CEcs.CVmachine learningProteinsq-bio.QMantimicrobial peptides
On Valency
published · living versionsW_62rs3ws9·v1 · currentpublished
ProteoCraft: Protein Design as Proposal-Verification Search
with Fang Wu, Hongbin Lin, Bingchen Duan, Yuchen Wang +22
1 version
W_ga2kwdz9·v1published
Preprints & journals
38 papers in the corpus · 2022–2026RiboBridge: protein-conditioned de novo RNA binder structure design2610.30668v1 · Zhou Zhang, Hanqun Cao, Minghao Sun et al.2026 · 0 citationsarXivon Valency
From code to cure: Harnessing AI for antibiotic discovery and design.42873898 · Krishnan, Aarti, Cao, Hanqun, Collins, James J et al.2026 · 0 citationsScience translational medicine. 2026;18(871):eaee4629
MAGIC: an international network for evaluating generative artificial intelligence in global health.42839102 · Yang, Rui, Xuan, Weihao, Liu, Tianyu et al.2026 · 0 citationsNature medicine. 2026
RNADyn: A Benchmark for Generating and Understanding RNA Dynamics2610.03712v1 · Yiming Huang, Lennart Bastian, Hanqun Cao et al.2026 · 0 citationsarXiv
MinkowskiPE: Minkowski Positional Encoding for Spatiotemporal Perception2609.33804v1 · Yuhao Li, Louie Hong Yao, Tianyi Shi et al.2026 · 0 citationsarXiv
AgentFold: Closed-Loop Agentic Search for Protein Folding Model Design2608.26747v2 · Mingquan Liu, Jiangyu Chen, Hanqun Cao et al.2026 · 0 citationsarXiv
Peptide structural plasticity is predictable from sequence and environment.42845475 · Torres, Marcelo D T, Cao, Hanqun, de la Fuente-Nunez, Cesar2026 · 0 citationsbioRxiv : the preprint server for biology. 2026
SF-Cluster: Frustration-Guided MSA Subsampling for Alternative Protein Conformation Recovery2607.00180v1 · Hanqun Cao, Zijun Gao, Chunbin Gu et al.2026 · 0 citationsarXiv
AlloGen: Conformation-Selective Binder Generation with Differential State Scoring2606.05474v1 · Hanqun Cao, Zachary Quinn, Aastha Pal et al.2026 · 1 citationarXiv
GeoCycler: Reward-Aligned 3D Diffusion for Constraint-Conditioned Cyclic Peptide Design2605.23407v1 · Jingjie Zhang, Hanqun Cao, Haosen Shi et al.2026 · 0 citationsarXiv
Learning the PTM code through a coarse-to-fine mechanism-aware framework.42140942 · Zhang, Jingjie, Cao, Hanqun, Gao, Zijun et al.2026 · 2 citationsNature communications. 2026;17(1)
TD3B: Transition-Directed Discrete Diffusion for Allosteric Binder Generation2605.09810v1 · Hanqun Cao, Aastha Pal, Sophia Tang et al.2026 · 0 citationsarXiv
CA-DEL: An Open Multi-Target, Multi-Modal Benchmark for Learning from DNA-Encoded Library Screens2605.07439v1 · Mutian He, Hanqun Cao, Cheng Tan et al.2026 · 1 citationarXiv
NoiseRater: Meta-Learned Noise Valuation for Diffusion Model Training2605.08144v2 · Haokai Zhao, Da Xing, Hanqun Cao et al.2026 · 0 citationsarXiv
Proteo-R1: Reasoning Foundation Models for De Novo Protein Design2605.02937v2 · Fang Wu, Weihao Xuan, Heli Qi et al.2026 · 0 citationsICML 2026
RiboSphere: Learning Unified and Efficient Representations of RNA Structures2603.19636v2 · Zhou Zhang, Hanqun Cao, Cheng Tan et al.2026 · 0 citationsarXiv
Bi-TEAM: A Unified Cross-Scale Representation Learning Framework for Chemically Modified Biomolecules2603.01873v1 · Chunbin Gu, Zijun Gao, Mutian He et al.2026 · 0 citationsarXiv
Designing AI-programmable therapeutics with the EDEN family of foundation models10.64898/2026.01.12.699009v2 · Munsamy, G., Ayres, G., Greco, C. et al.2026 · 5 citationsbioRxiv
CONFIDE: Hallucination Assessment for Reliable Biomolecular Structure Prediction and Design2512.02033v1 · Zijun Gao, Mutian He, Shijia Sun et al.2025 · 0 citationsarXiv
Microbial Primer: Artificial intelligence for microbiologists.41231537 · Cao, Hanqun, de la Fuente-Nunez, Cesar2025 · 4 citationsMicrobiology (Reading, England). 2025;171(11)
Lost in Tokenization: Context as the Key to Unlocking Biomolecular Understanding in Scientific LLMs2510.23127v2 · Kai Zhuang, Jiawei Zhang, Yumou Liu et al.2025 · 0 citationsarXiv
ODesign: A World Model for Biomolecular Interaction Design2510.22304v2 · Odin Zhang, Xujun Zhang, Haitao Lin et al.2025 · 3 citationsarXiv
RiboPO: Preference Optimization for Structure- and Stability-Aware RNA Design2510.21161v2 · Minghao Sun, Hanqun Cao, Zhou Zhang et al.2025 · 0 citationsarXiv
From Supervision to Exploration: What Does Protein Language Model Learn During Reinforcement Learning?2510.01571v1 · Hanqun Cao, Hongrui Zhang, Junde Xu et al.2025 · 1 citationarXiv
Position: The Hidden Costs and Measurement Gaps of Reinforcement Learning with Verifiable Rewards2509.21882v3 · Fang Wu, Aaron Tu, Weihao Xuan et al.2025 · 0 citationsarXiv
A deep reinforcement learning platform for antibiotic discovery.41040195 · Cao, Hanqun, Torres, Marcelo D T, Zhang, Jingjie et al.2025 · 9 citationsbioRxiv : the preprint server for biology. 2025
Lightweight MSA Design Advances Protein Folding From Evolutionary Embeddings2507.07032v3 · Hanqun Cao, Xinyi Zhou, Zijun Gao et al.2025 · 1 citationarXiv
Gated-GPS: enhancing protein-protein interaction site prediction with scalable learning and imbalance-aware optimization.40462513 · Gao, Xin, Cao, Hanqun, Li, Jinpeng et al.2025 · 3 citationsBriefings in bioinformatics. 2025;26(3)
SAGEPhos: Sage Bio-Coupled and Augmented Fusion for Phosphorylation Site Detection2502.07384v2 · Jingjie Zhang, Hanqun Cao, Zijun Gao et al.2025 · 1 citationarXiv
R3Design: deep tertiary structure-based RNA sequence design and beyond.39737572 · Tan, Cheng, Zhang, Yijie, Gao, Zhangyang et al.2024 · 9 citationsBriefings in bioinformatics. 2024;26(1)
DEL-Ranking: Ranking-Correction Denoising Framework for Elucidating Molecular Affinities in DNA-Encoded Libraries2410.14946v2 · Hanqun Cao, Mutian He, Ning Ma et al.2024 · 0 citationsarXiv
Unlocking Potential Binders: Multimodal Pretraining DEL-Fusion for Denoising DNA-Encoded Libraries2409.05916v1 · Chunbin Gu, Mutian He, Hanqun Cao et al.2024 · 0 citationsarXiv
Deep Learning-Based Quasi-Conformal Surface Registration for Partial 3D Faces Applied to Facial Recognition2405.09880v1 · Yuchen Guo, Hanqun Cao, Lok Ming Lui2024 · 0 citationsarXiv
InstructPLM: Aligning Protein Language Models to Follow Protein Structure Instructions10.1101/2024.04.17.589642v1 · Qiu, J., Xu, J., Hu, J. et al.2024 · 8 citationsbioRxiv
ChemMiner: A Large Language Model Agent System for Chemical Literature Data Mining2402.12993v2 · Kexin Chen, Yuyang Du, Junyou Li et al.2024 · 14 citationsarXiv
Efficient and accurate large library ligand docking with KarmaDock.38177786 · Zhang, Xujun, Zhang, Odin, Shen, Chao et al.2024 · 170 citationsNature computational science. 2023;3(9):789-804
A Survey on Generative Diffusion Model2209.02646v10 · Hanqun Cao, Cheng Tan, Zhangyang Gao et al.2022 · 75 citationsarXiv
Career total: 53 works. 38 are in this corpus.Showing the 37 most recent.
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