SMILES-BERT: Large Scale Unsupervised Pre-Training for Molecular Property Prediction. - Sheng Wang 001; Yuzhi Guo; Yuhong Wang; Hongmao Sun; Junzhou Huang (BCB, 2019)

Protein Ensemble Learning with Atrous Spatial Pyramid Networks for Secondary Structure Prediction. - Yuzhi Guo; Jiaxiang Wu 001; Hehuan Ma; Sheng Wang 001; Junzhou Huang (BIBM, 2020)

WeightAln: Weighted Homologous Alignment for Protein Structure Property Prediction. - Yuzhi Guo; Jiaxiang Wu 001; Hehuan Ma; Jinyu Yang; Xinliang Zhu; Junzhou Huang (BIBM, 2020)

Improving Molecular Property Prediction on Limited Data with Deep Multi-Label Learning. - Hehuan Ma; Chaochao Yan; Yuzhi Guo; Sheng Wang 001; Yuhong Wang; Hongmao Sun; Junzhou Huang (BIBM, 2020)

Bagging MSA Learning: Enhancing Low-Quality PSSM with Deep Learning for Accurate Protein Structure Property Prediction. - Yuzhi Guo; Jiaxiang Wu 001; Hehuan Ma; Sheng Wang 001; Junzhou Huang (RECOMB, 2020)

Gradient-Norm Based Attentive Loss for Molecular Property Prediction. - Hehuan Ma; Yu Rong 001; Boyang Liu; Yuzhi Guo; Chaochao Yan; Junzhou Huang (BIBM, 2021)

Exploring Robustness of Unsupervised Domain Adaptation in Semantic Segmentation. - Jinyu Yang; Chunyuan Li; Weizhi An; Hehuan Ma; Yuzhi Guo; Yu Rong 001; Peilin Zhao; Junzhou Huang (ICCV, 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 001; Hehuan Ma; Sheng Wang 001; Junzhou Huang (J. Comput. Biol., 2021)

EPTool: A New Enhancing PSSM Tool for Protein Secondary Structure Prediction. - Yuzhi Guo; Jiaxiang Wu 001; Hehuan Ma; Sheng Wang 001; Junzhou Huang (J. Comput. Biol., 2021)

Enhancing Public Sector Organization Knowledge Retention with Social Network Analysis, Text Mining and Machine Learning. - Yuzhi Guo (2021)

Self-Supervised Pre-training for Protein Embeddings Using Tertiary Structures. - Yuzhi Guo; Jiaxiang Wu 001; Hehuan Ma; Junzhou Huang (AAAI, 2022)

MoDNA: motif-oriented pre-training for DNA language model. - Weizhi An; Yuzhi Guo; Yatao Bian; Hehuan Ma; Jinyu Yang; Chunyuan Li; Junzhou Huang (BCB, 2022)

Robust self-training strategy for various molecular biology prediction tasks. - Hehuan Ma; Feng Jiang; Yu Rong 001; Yuzhi Guo; Junzhou Huang (BCB, 2022)

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 (BCB, 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 161; Junzhou Huang (BCB, 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 (MICCAI (4), 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 161; Junzhou Huang (Briefings Bioinform., 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)

Compositional Image Retrieval via Instruction-Aware Contrastive Learning. - Wenliang Zhong; Weizhi An; Feng Jiang; Hehuan Ma; Yuzhi Guo; Junzhou Huang (CoRR, 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)

Toward Robust Self-Training Paradigm for Molecular Prediction Tasks. - Hehuan Ma; Feng Jiang; Yu Rong 001; Yuzhi Guo; Junzhou Huang (J. Comput. Biol., 2024)

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 (AAAI, 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 (ISBI, 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, 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, 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 (CoRR, 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 (CoRR, 2025)