Search Results for author: Yongjie Xu

Found 10 papers, 6 papers with code

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

no code implementations24 Feb 2024 Chenrui Duan, Zelin Zang, Yongjie Xu, Hang He, Zihan Liu, Zijia Song, Ju-Sheng Zheng, Stan Z. Li

Metagenomic data, comprising mixed multi-species genomes, are prevalent in diverse environments like oceans and soils, significantly impacting human health and ecological functions.

Contrastive Learning Language Modelling

Must: Maximizing Latent Capacity of Spatial Transcriptomics Data

1 code implementation15 Jan 2024 Zelin Zang, Liangyu Li, Yongjie Xu, Chenrui Duan, Kai Wang, Yang You, Yi Sun, Stan Z. Li

MuST integrates the multi-modality information contained in the ST data effectively into a uniform latent space to provide a foundation for all the downstream tasks.

Protein Language Models and Structure Prediction: Connection and Progression

1 code implementation30 Nov 2022 Bozhen Hu, Jun Xia, Jiangbin Zheng, Cheng Tan, Yufei Huang, Yongjie Xu, Stan Z. Li

The prediction of protein structures from sequences is an important task for function prediction, drug design, and related biological processes understanding.

Protein Folding Protein Language Model +1

EVNet: An Explainable Deep Network for Dimension Reduction

1 code implementation21 Nov 2022 Zelin Zang, Shenghui Cheng, Linyan Lu, Hanchen Xia, Liangyu Li, Yaoting Sun, Yongjie Xu, Lei Shang, Baigui Sun, Stan Z. Li

The proposed techniques are integrated with a visual interface to help the user to adjust EVNet to achieve better DR performance and explainability.

Data Augmentation Dimensionality Reduction

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

no code implementations8 Jul 2022 Zelin Zang, Yongjie Xu, Linyan Lu, Yulan Geng, Senqiao Yang, Stan Z. Li

We propose that the ideal DR approach combines both FS and FP into a unified end-to-end manifold learning framework, simultaneously performing fundamental feature discovery while maintaining the intrinsic relationships between data samples in the latent space.

Data Augmentation feature selection

Unsupervised Deep Manifold Attributed Graph Embedding

1 code implementation27 Apr 2021 Zelin Zang, Siyuan Li, Di wu, Jianzhu Guo, Yongjie Xu, Stan Z. Li

Unsupervised attributed graph representation learning is challenging since both structural and feature information are required to be represented in the latent space.

Clustering Graph Embedding +3

Conditional Local Convolution for Spatio-temporal Meteorological Forecasting

1 code implementation4 Jan 2021 Haitao Lin, Zhangyang Gao, Yongjie Xu, Lirong Wu, Ling Li, Stan. Z. Li

We further propose the distance and orientation scaling terms to reduce the impacts of irregular spatial distribution.

Spatio-Temporal Forecasting Weather Forecasting

Towards Robust Graph Neural Networks against Label Noise

no code implementations1 Jan 2021 Jun Xia, Haitao Lin, Yongjie Xu, Lirong Wu, Zhangyang Gao, Siyuan Li, Stan Z. Li

A pseudo label is computed from the neighboring labels for each node in the training set using LP; meta learning is utilized to learn a proper aggregation of the original and pseudo label as the final label.

Attribute Learning with noisy labels +3

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