Hehuan Ma

According to our database, Hehuan Ma authored at least 39 papers between 2020 and 2026.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of three.

2026

scpFormer: A Foundation Model for Unified Representation and Integration of the Single-Cell Proteomics.

Qifeng Zhou, Lei Yu, Yuzhi Guo, Yuwei Miao, Hehuan Ma, Wenliang Zhong, Lin Xu, Junzhou Huang

CoRR, April, 2026

Learning from Guidelines: Structured Prompt Optimization for Expert Annotation Tasks.

Wenliang Zhong, Haiqing Li, Thao M. Dang, Feng Jiang, Hehuan Ma, Yuzhi Guo, Jean Gao, Junzhou Huang

Proceedings of the Fortieth AAAI Conference on Artificial Intelligence, 2026

2025

Segment Any Cell: A SAM-Based Auto-Prompting Fine-Tuning Framework for Nuclei Segmentation.

Saiyang Na, Yuzhi Guo, Feng Jiang, Hehuan Ma, Jean Gao, Junzhou Huang

IEEE Trans. Neural Networks Learn. Syst., December, 2025

GRAM-TDI: adaptive multimodal representation learning for drug target interaction prediction.

Feng Jiang, Amina Mollaysa, Hehuan Ma, Tommaso Mansi, Junzhou Huang, Mangal Prakash, Rui Liao

CoRR, September, 2025

Leveraging Gait Patterns as Biomarkers: An attention-guided Deep Multiple Instance Learning Network for Scoliosis Classification.

Haiqing Li, Yuzhi Guo, Feng Jiang, Qifeng Zhou, Hehuan Ma, Junzhou Huang

CoRR, April, 2025

MLLM4PUE: Toward Universal Embeddings in Computational Pathology through Multimodal LLMs.

Qifeng Zhou, Thao M. Dang, Wenliang Zhong, Yuzhi Guo, Hehuan Ma, Saiyang Na, Junzhou Huang

CoRR, February, 2025

TRIDENT: Tri-Modal Molecular Representation Learning with Taxonomic Annotations and Local Correspondence.

Feng Jiang, Mangal Prakash, Hehuan Ma, Jianyuan Deng, Yuzhi Guo, Amina Mollaysa, Tommaso Mansi, Rui Liao, Junzhou Huang

Proceedings of the Advances in Neural Information Processing Systems 38: Annual Conference on Neural Information Processing Systems 2025, 2025

Text-Guided Multi-instance Learning for Scoliosis Screening via Gait Video Analysis.

Haiqing Li, Yuzhi Guo, Feng Jiang, Thao M. Dang, Hehuan Ma, Qifeng Zhou, Jean Gao, Junzhou Huang

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2025, 2025

HAGE: Hierarchical Alignment Gene-Enhanced Pathology Representation Learning with Spatial Transcriptomics.

Thao M. Dang, Haiqing Li, Yuzhi Guo, Hehuan Ma, Feng Jiang, Yuwei Miao, Qifeng Zhou, Jean Gao, Junzhou Huang

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2025, 2025

Contrastive Pretraining for Computational Pathology with Visual-Language Models.

Qifeng Zhou, Thao M. Dang, Yuzhi Guo, Hehuan Ma, Wenliang Zhong, Saiyang Na, Jean Gao, Junzhou Huang

Proceedings of the 22nd IEEE International Symposium on Biomedical Imaging, 2025

Zero-Shot Composed Image Retrieval via Dual-Stream Instruction-Aware Distillation.

Wenliang Zhong, Robert A. Barton, Weizhi An, Feng Jiang, Hehuan Ma, Yuzhi Guo, Abhishek Dan, Shioulin Sam, Karim Bouyarmane, Junzhou Huang

Proceedings of the IEEE/CVF International Conference on Computer Vision, 2025

GoBERT: Gene Ontology Graph Informed BERT for Universal Gene Function Prediction.

Yuwei Miao, Yuzhi Guo, Hehuan Ma, Jingquan Yan, Feng Jiang, Rui Liao, Junzhou Huang

Proceedings of the Thirty-Ninth AAAI Conference on Artificial Intelligence, 2025

2024

GTE: a graph learning framework for prediction of T-cell receptors and epitopes binding specificity.

Feng Jiang, Yuzhi Guo, Hehuan Ma, Saiyang Na, Wenliang Zhong, Yi Han, Tao Wang, Junzhou Huang

Briefings Bioinform., July, 2024

Toward Robust Self-Training Paradigm for Molecular Prediction Tasks.

Hehuan Ma, Feng Jiang, Yu Rong, Yuzhi Guo, Junzhou Huang

J. Comput. Biol., 2024

UniEntrezDB: Large-scale Gene Ontology Annotation Dataset and Evaluation Benchmarks with Unified Entrez Gene Identifiers.

Yuwei Miao, Yuzhi Guo, Hehuan Ma, Jingquan Yan, Feng Jiang, Weizhi An, Jean Gao, Junzhou Huang

CoRR, 2024

Compositional Image Retrieval via Instruction-Aware Contrastive Learning.

Wenliang Zhong, Weizhi An, Feng Jiang, Hehuan Ma, Yuzhi Guo, Junzhou Huang

CoRR, 2024

Segment Any Cell: A SAM-based Auto-prompting Fine-tuning Framework for Nuclei Segmentation.

Saiyang Na, Yuzhi Guo, Feng Jiang, Hehuan Ma, Junzhou Huang

CoRR, 2024

PathM3: A Multimodal Multi-task Multiple Instance Learning Framework for Whole Slide Image Classification and Captioning.

Qifeng Zhou, Wenliang Zhong, Yuzhi Guo, Michael Xiao, Hehuan Ma, Junzhou Huang

Proceedings of the Medical Image Computing and Computer Assisted Intervention - MICCAI 2024, 2024

Causal Subgraphs and Information Bottlenecks: Redefining OOD Robustness in Graph Neural Networks.

Weizhi An, Wenliang Zhong, Feng Jiang, Hehuan Ma, Junzhou Huang

Proceedings of the Computer Vision - ECCV 2024, 2024

AlphaEpi: Enhancing B Cell Epitope Prediction with AlphaFold 3.

Feng Jiang, Yuzhi Guo, Hehuan Ma, Saiyang Na, Weizhi An, Bing Song, Yi Han, Jean Gao, Tao Wang, Junzhou Huang

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

MFMF: Multiple Foundation Model Fusion Networks for Whole Slide Image Classification.

Thao M. Dang, Yuzhi Guo, Hehuan Ma, Qifeng Zhou, Saiyang Na, Jean Gao, Junzhou Huang

Proceedings of the 15th ACM International Conference on Bioinformatics, 2024

2023

NuSegDA: Domain adaptation for nuclei segmentation.

Mohammad MinHazul Haq, Hehuan Ma, Junzhou Huang

Frontiers Big Data, January, 2023

Molecule Sequence Generation with Rebalanced Variational Autoencoder Loss.

Chaochao Yan, Jinyu Yang, Hehuan Ma, Sheng Wang, Junzhou Huang

J. Comput. Biol., 2023

ChatGraph: Interpretable Text Classification by Converting ChatGPT Knowledge to Graphs.

Yucheng Shi, Hehuan Ma, Wenliang Zhong, Gengchen Mai, Xiang Li, Tianming Liu, Junzhou Huang

CoRR, 2023

ChatGraph: Interpretable Text Classification by Converting ChatGPT Knowledge to Graphs.

Yucheng Shi, Hehuan Ma, Wenliang Zhong, Qiaoyu Tan, Gengchen Mai, Xiang Li, Tianming Liu, Junzhou Huang

Proceedings of the IEEE International Conference on Data Mining, 2023

2022

Cross-dependent graph neural networks for molecular property prediction.

Hehuan Ma, Yatao Bian, Yu Rong, Wenbing Huang, Tingyang Xu, Weiyang Xie, Geyan Ye, Junzhou Huang

Bioinform., 2022

Robust self-training strategy for various molecular biology prediction tasks.

Hehuan Ma, Feng Jiang, Yu Rong, Yuzhi Guo, Junzhou Huang

Proceedings of the BCB '22: 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, Northbrook, Illinois, USA, August 7, 2022

MoDNA: motif-oriented pre-training for DNA language model.

Weizhi An, Yuzhi Guo, Yatao Bian, Hehuan Ma, Jinyu Yang, Chunyuan Li, Junzhou Huang

Proceedings of the BCB '22: 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, Northbrook, Illinois, USA, August 7, 2022

Self-Supervised Pre-training for Protein Embeddings Using Tertiary Structures.

Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Junzhou Huang

Proceedings of the Thirty-Sixth AAAI Conference on Artificial Intelligence, 2022

2021

EPTool: A New Enhancing PSSM Tool for Protein Secondary Structure Prediction.

Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang

J. Comput. Biol., 2021

Comprehensive Study on Enhancing Low-Quality Position-Specific Scoring Matrix with Deep Learning for Accurate Protein Structure Property Prediction: Using Bagging Multiple Sequence Alignment Learning.

Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang

J. Comput. Biol., 2021

Exploring Robustness of Unsupervised Domain Adaptation in Semantic Segmentation.

Jinyu Yang, Chunyuan Li, Weizhi An, Hehuan Ma, Yuzhi Guo, Yu Rong, Peilin Zhao, Junzhou Huang

Proceedings of the 2021 IEEE/CVF International Conference on Computer Vision, 2021

Gradient-Norm Based Attentive Loss for Molecular Property Prediction.

Hehuan Ma, Yu Rong, Boyang Liu, Yuzhi Guo, Chaochao Yan, Junzhou Huang

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2021

Hierarchical Graph Capsule Network.

Jinyu Yang, Peilin Zhao, Yu Rong, Chaochao Yan, Chunyuan Li, Hehuan Ma, Junzhou Huang

Proceedings of the Thirty-Fifth AAAI Conference on Artificial Intelligence, 2021

2020

Dual Message Passing Neural Network for Molecular Property Prediction.

Hehuan Ma, Yatao Bian, Yu Rong, Wenbing Huang, Tingyang Xu, Weiyang Xie, Geyan Ye, Junzhou Huang

CoRR, 2020

Bagging MSA Learning: Enhancing Low-Quality PSSM with Deep Learning for Accurate Protein Structure Property Prediction.

Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang

Proceedings of the Research in Computational Molecular Biology, 2020

Improving Molecular Property Prediction on Limited Data with Deep Multi-Label Learning.

Hehuan Ma, Chaochao Yan, Yuzhi Guo, Sheng Wang, Yuhong Wang, Hongmao Sun, Junzhou Huang

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020

WeightAln: Weighted Homologous Alignment for Protein Structure Property Prediction.

Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Jinyu Yang, Xinliang Zhu, Junzhou Huang

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020

Protein Ensemble Learning with Atrous Spatial Pyramid Networks for Secondary Structure Prediction.

Yuzhi Guo, Jiaxiang Wu, Hehuan Ma, Sheng Wang, Junzhou Huang

Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, 2020