Yang Tan

According to our database, Yang Tan authored at least 25 papers between 2023 and 2026.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2026

ViroBench: Benchmarking Nucleotide Foundation Models on Viral Genomics Tasks.

Dongxin Ye, Fang Hu, Han Hu, Shu Hu, Yang Tan, Wanli Ouyang, Stan Z. Li, Jie Cui, Nanqing Dong

CoRR, May, 2026

Self-evolving AI agents for protein discovery and directed evolution.

Yang Tan, Lingrong Zhang, Mingchen Li, Yuanxi Yu, Bozitao Zhong, Bingxin Zhou, Nanqing Dong, Liang Hong

CoRR, March, 2026

Rank-and-Reason: Multi-Agent Collaboration Accelerates Zero-Shot Protein Mutation Prediction.

Yang Tan, Yuanxi Yu, Can Wu, Bozitao Zhong, Mingchen Li, Guisheng Fan, Jiankang Zhu, Yafeng Liang, Nanqing Dong, Liang Hong

CoRR, February, 2026

2025

Fast and Interpretable Protein Substructure Alignment via Optimal Transport.

Zhiyu Wang, Bingxin Zhou, Jing Wang, Yang Tan, Weishu Zhao, Pietro Liò, Liang Hong

CoRR, October, 2025

VenusX: Unlocking Fine-Grained Functional Understanding of Proteins.

Yang Tan, Wenrui Gou, Bozitao Zhong, Liang Hong, Huiqun Yu, Bingxin Zhou

CoRR, May, 2025

VenusFactory: A Unified Platform for Protein Engineering Data Retrieval and Language Model Fine-Tuning.

Yang Tan, Chen Liu, Jingyuan Gao, Banghao Wu, Mingchen Li, Ruilin Wang, Lingrong Zhang, Huiqun Yu, Guisheng Fan, Liang Hong, Bingxin Zhou

CoRR, March, 2025

SRPM-Sol: A Structure Robust Protein Multimodal Model for Solubility Prediction.

Wenhui Ge, Yang Tan, Huiqun Yu, Guisheng Fan, Mingchen Li

IEEE Trans. Comput. Biol. Bioinform., 2025

Graph with Residue-Based Cross-Modal Framework Enhances Cell Function-Related Protein Properties Prediction.

Wenrui Gou, Yang Tan, Chen Liu, Mingchen Li, Guisheng Fan, Huiqun Yu

J. Chem. Inf. Model., 2025

Sequence-only prediction of binding affinity changes: a robust and interpretable model for antibody engineering.

Chen Liu, Mingchen Li, Yang Tan, Wenrui Gou, Guisheng Fan, Bingxin Zhou

Bioinform., 2025

From high-throughput evaluation to wet-lab studies: advancing mutation effect prediction with a retrieval-enhanced model.

Yang Tan, Ruilin Wang, Banghao Wu, Liang Hong, Bingxin Zhou

Bioinform., 2025

Immunogenicity Prediction with Dual Attention Enables Vaccine Target Selection.

Song Li, Yang Tan, Song Ke, Liang Hong, Bingxin Zhou

Proceedings of the Thirteenth International Conference on Learning Representations, 2025

VenusFactory: An Integrated System for Protein Engineering with Data Retrieval and Language Model Fine-Tuning.

Yang Tan, Chen Liu, Jingyuan Gao, Banghao Wu, Mingchen Li, Ruilin Wang, Lingrong Zhang, Huiqun Yu, Guisheng Fan, Liang Hong, Bingxin Zhou

Proceedings of the 63rd Annual Meeting of the Association for Computational Linguistics (Volume 3: System Demonstrations), 2025

2024

PETA: evaluating the impact of protein transfer learning with sub-word tokenization on downstream applications.

Yang Tan, Mingchen Li, Ziyi Zhou, Pan Tan, Huiqun Yu, Guisheng Fan, Liang Hong

J. Cheminformatics, December, 2024

Protein Engineering with Lightweight Graph Denoising Neural Networks.

Bingxin Zhou, Lirong Zheng, Banghao Wu, Yang Tan, Outongyi Lv, Kai Yi, Guisheng Fan, Liang Hong

J. Chem. Inf. Model., 2024

Simple, Efficient, and Scalable Structure-Aware Adapter Boosts Protein Language Models.

Yang Tan, Mingchen Li, Bingxin Zhou, Bozitao Zhong, Lirong Zheng, Pan Tan, Ziyi Zhou, Huiqun Yu, Guisheng Fan, Liang Hong

J. Chem. Inf. Model., 2024

Retrieval-Enhanced Mutation Mastery: Augmenting Zero-Shot Prediction of Protein Language Model.

Yang Tan, Ruilin Wang, Banghao Wu, Liang Hong, Bingxin Zhou

CoRR, 2024

CPE-Pro: A Structure-Sensitive Deep Learning Method for Protein Representation and Origin Evaluation.

Wenrui Gou, Wenhui Ge, Yang Tan, Mingchen Li, Guisheng Fan, Huiqun Yu

CoRR, 2024

A PLMs based protein retrieval framework.

Yuxuan Wu, Xiao Yi, Yang Tan, Huiqun Yu, Guisheng Fan

CoRR, 2024

MedChatZH: A tuning LLM for traditional Chinese medicine consultations.

Yang Tan, Zhixing Zhang, Mingchen Li, Fei Pan, Hao Duan, Zijie Huang, Hua Deng, Zhuohang Yu, Chen Yang, Guoyang Shen, Peng Qi, Chengyuan Yue, Yuxian Liu, Liang Hong, Huiqun Yu, Guisheng Fan, Yun Tang

Comput. Biol. Medicine, 2024

ProSST: Protein Language Modeling with Quantized Structure and Disentangled Attention.

Mingchen Li, Yang Tan, Xinzhu Ma, Bozitao Zhong, Huiqun Yu, Ziyi Zhou, Wanli Ouyang, Bingxin Zhou, Pan Tan, Liang Hong

Proceedings of the Advances in Neural Information Processing Systems 37: Annual Conference on Neural Information Processing Systems 2024, 2024

PROTSOLM: Protein Solubility Prediction with Multi-modal Features.

Yang Tan, Jia Zheng, Liang Hong, Bingxin Zhou

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2024

Protein Representation Learning with Sequence Information Embedding: Does it Always Lead to a Better Performance?

Yang Tan, Lirong Zheng, Bozitao Zhong, Liang Hong, Bingxin Zhou

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2024

Secondary Structure-Guided Novel Protein Sequence Generation with Latent Graph Diffusion.

Yutong Hu, Yang Tan, Andi Han, Lirong Zheng, Liang Hong, Bingxin Zhou

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2024

2023

MedChatZH: a Better Medical Adviser Learns from Better Instructions.

Yang Tan, Mingchen Li, Zijie Huang, Huiqun Yu, Guisheng Fan

CoRR, 2023

Multi-level Protein Representation Learning for Blind Mutational Effect Prediction.

Yang Tan, Bingxin Zhou, Yuanhong Jiang, Yu Guang Wang, Liang Hong

CoRR, 2023