Yongjie Xu

According to our database, Yongjie Xu authored at least 31 papers between 2018 and 2025.

Collaborative distances:

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

2025

FGeneBERT: function-driven pre-trained gene language model for metagenomics.

Chenrui Duan, Zelin Zang, Yongjie Xu, Hang He, Siyuan Li, Zihan Liu, Zhen Lei, Ju-Sheng Zheng, Stan Z. Li

Briefings Bioinform., November, 2025

Hierarchical Quantized Diffusion Based Tree Generation Method for Hierarchical Representation and Lineage Analysis.

Zelin Zang, WenZhe Li, Fei Chen, Yongjie Xu, Chang Yu, Zhen Lei, Stan Z. Li

CoRR, June, 2025

Complex hierarchical structures analysis in single-cell data with Poincaré deep manifold transformation.

Yongjie Xu, Zelin Zang, Bozhen Hu, Yue Yuan, Cheng Tan, Jun Xia, Stan Z. Li

Briefings Bioinform., January, 2025

A Review of BioTree Construction in the Context of Information Fusion: Priors, Methods, Applications and Trends.

Zelin Zang, Yongjie Xu, Chenrui Duan, Yue Yuan, Yue Shen, Jinlin Wu, Zhen Lei, Stan Z. Li

Inf. Fusion, 2025

MuST: multiple-modality structure transformation for single-cell spatial transcriptomics.

Zelin Zang, Liangyu Li, Yongjie Xu, Chenrui Duan, Yue Shen, Yi Sun, Zhen Lei, Stan Z. Li

Briefings Bioinform., 2025

2024

DMT-EV: An Explainable Deep Network for Dimension Reduction.

Zelin Zang, Shenghui Cheng, Hanchen Xia, Liangyu Li, Yaoting Sun, Yongjie Xu, Lei Shang, Baigui Sun, Stan Z. Li

IEEE Trans. Vis. Comput. Graph., March, 2024

GNN Cleaner: Label Cleaner for Graph Structured Data.

Jun Xia, Haitao Lin, Yongjie Xu, Cheng Tan, Lirong Wu, Siyuan Li, Stan Z. Li

IEEE Trans. Knowl. Data Eng., February, 2024

A Review of Artificial Intelligence based Biological-Tree Construction: Priorities, Methods, Applications and Trends.

Zelin Zang, Yongjie Xu, Chenrui Duan, Jinlin Wu, Stan Z. Li, Zhen Lei

CoRR, 2024

FGBERT: Function-Driven Pre-trained Gene Language Model for Metagenomics.

Chenrui Duan, Zelin Zang, Yongjie Xu, Hang He, Zihan Liu, Zijia Song, Ju-Sheng Zheng, Stan Z. Li

CoRR, 2024

Must: Maximizing Latent Capacity of Spatial Transcriptomics Data.

Zelin Zang, Liangyu Li, Yongjie Xu, Chenrui Duan, Kai Wang, Yang You, Yi Sun, Stan Z. Li

CoRR, 2024

ProtGO: Function-Guided Protein Modeling for Unified Representation Learning.

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

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

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

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

PhyloGen: Language Model-Enhanced Phylogenetic Inference via Graph Structure Generation.

Chenrui Duan, Zelin Zang, Siyuan Li, Yongjie Xu, Stan Z. Li

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

MuST: Maximizing the Latent Capacity of Spatial Transcriptomics Data with Multi-modality Structure Transformation.

Zelin Zang, Liangyu Li, Yongjie Xu, Jiahao Li, Chenrui Duan, Yi Sun, Zhen Lei, Stan Z. Li

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

2023

UDRN: Unified Dimensional Reduction Neural Network for feature selection and feature projection.

Zelin Zang, Yongjie Xu, Linyan Lu, Yulan Geng, Senqiao Yang, Stan Z. Li

Neural Networks, April, 2023

Wordreg: Mitigating the Gap between Training and Inference with Worst-Case Drop Regularization.

Jun Xia, Ge Wang, Bozhen Hu, Cheng Tan, Jiangbin Zheng, Yongjie Xu, Stan Z. Li

Proceedings of the IEEE International Conference on Acoustics, 2023

Temporal Attention Unit: Towards Efficient Spatiotemporal Predictive Learning.

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

Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, 2023

2022

Deep manifold embedding of attributed graphs.

Zelin Zang, Siyuan Li, Di Wu, Jianzhu Guo, Yongjie Xu, Stan Z. Li

Neurocomputing, 2022

Non-equispaced Fourier Neural Solvers for PDEs.

Haitao Lin, Lirong Wu, Yongjie Xu, Yufei Huang, Siyuan Li, Guojiang Zhao, Stan Z. Li

CoRR, 2022

Protein Language Models and Structure Prediction: Connection and Progression.

Bozhen Hu, Jun Xia, Jiangbin Zheng, Cheng Tan, Yufei Huang, Yongjie Xu, Stan Z. Li

CoRR, 2022

EVNet: An Explainable Deep Network for Dimension Reduction.

Zelin Zang, Shenghui Cheng, Linyan Lu, Hanchen Xia, Liangyu Li, Yaoting Sun, Yongjie Xu, Lei Shang, Baigui Sun, Stan Z. Li

CoRR, 2022

UDRN: Unified Dimensional Reduction Neural Network for Feature Selection and Feature Projection.

Zelin Zang, Yongjie Xu, Yulan Geng, Siyuan Li, Stan Z. Li

CoRR, 2022

Temporal Attention Unit: Towards Efficient Spatiotemporal Predictive Learning.

Cheng Tan, Zhangyang Gao, Siyuan Li, Yongjie Xu, Stan Z. Li

CoRR, 2022

OT Cleaner: Label Correction as Optimal Transport.

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

Proceedings of the IEEE International Conference on Acoustics, 2022

Conditional Local Convolution for Spatio-Temporal Meteorological Forecasting.

Haitao Lin, Zhangyang Gao, Yongjie Xu, Lirong Wu, Ling Li, Stan Z. Li

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

2021

Ship Classification in SAR Images With Geometric Transfer Metric Learning.

Yongjie Xu, Haitao Lang

IEEE Trans. Geosci. Remote. Sens., 2021

Unsupervised Deep Manifold Attributed Graph Embedding.

Zelin Zang, Siyuan Li, Di Wu, Jianzhu Guo, Yongjie Xu, Stan Z. Li

CoRR, 2021

2020

Distribution Shift Metric Learning for Fine-Grained Ship Classification in SAR Images.

Yongjie Xu, Haitao Lang

IEEE J. Sel. Top. Appl. Earth Obs. Remote. Sens., 2020

2019

Discriminative Adaptation Regularization Framework-Based Transfer Learning for Ship Classification in SAR Images.

Yongjie Xu, Haitao Lang, Lihui Niu, Chenguang Ge

IEEE Geosci. Remote. Sens. Lett., 2019

Distribution Discrepancy Maximization Metric Learning for Ship Classification in Synthetic Aperture Radar Images.

Yongjie Xu, Haitao Lang, Xiaopeng Chai

Proceedings of the 2019 IEEE International Geoscience and Remote Sensing Symposium, 2019

2018

Ship Classification in SAR Images Improved by AIS Knowledge Transfer.

Haitao Lang, Siwen Wu, Yongjie Xu

IEEE Geosci. Remote. Sens. Lett., 2018