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Graphs are a central representation in biomedical research, capturing molecular interaction networks, gene regulatory circuits, cell--cell communication maps, and knowledge graphs. Despite their importance, currently there is not a broadly…

Machine Learning · Computer Science 2026-04-09 Sakib Mostafa , Lei Xing , Md. Tauhidul Islam

The "Graph pre-training and fine-tuning" paradigm has significantly improved Graph Neural Networks(GNNs) by capturing general knowledge without manual annotations for downstream tasks. However, due to the immense gap of data and tasks…

Machine Learning · Computer Science 2024-02-22 Yuchen Yan , Peiyan Zhang , Zheng Fang , Qingqing Long

Pre-training on graph neural networks (GNNs) aims to learn transferable knowledge for downstream tasks with unlabeled data, and it has recently become an active research area. The success of graph pre-training models is often attributed to…

Machine Learning · Computer Science 2023-11-22 Jiarong Xu , Renhong Huang , Xin Jiang , Yuxuan Cao , Carl Yang , Chunping Wang , Yang Yang

Temporal Graph Learning (TGL) has become a robust framework for discovering patterns in dynamic networks and predicting future interactions. While existing research has largely concentrated on learning from individual networks, this study…

Designing accurate deep learning models for molecular property prediction plays an increasingly essential role in drug and material discovery. Recently, due to the scarcity of labeled molecules, self-supervised learning methods for learning…

Biomolecules · Quantitative Biology 2022-06-08 Han Li , Dan Zhao , Jianyang Zeng

While deep neural networks demonstrate state-of-the-art performance on a variety of learning tasks, their performance relies on the assumption that train and test distributions are the same, which may not hold in real-world applications.…

Machine Learning · Computer Science 2021-02-18 Wenyu Zhang , Mohamed Ragab , Ramon Sagarna

In cross-lingual text classification, it is required that task-specific training data in high-resource source languages are available, where the task is identical to that of a low-resource target language. However, collecting such training…

Computation and Language · Computer Science 2021-09-13 Nuttapong Chairatanakul , Noppayut Sriwatanasakdi , Nontawat Charoenphakdee , Xin Liu , Tsuyoshi Murata

To develop a preliminary understanding towards Graph Foundation Models, we study the extent to which pretrained Graph Neural Networks can be applied across datasets, an effort requiring to be agnostic to dataset-specific features and their…

Multi-modal graphs, which integrate diverse multi-modal features and relations, are ubiquitous in real-world applications. However, existing multi-modal graph learning methods are typically trained from scratch for specific graph data and…

Machine Learning · Computer Science 2025-11-26 Xin Wang , Zeyang Zhang , Linxin Xiao , Haibo Chen , Chendi Ge , Wenwu Zhu

Artificial General Intelligence (AGI) has revolutionized numerous fields, yet its integration with graph data, a cornerstone in our interconnected world, remains nascent. This paper presents a pioneering survey on the emerging domain of…

Artificial Intelligence · Computer Science 2023-11-29 Xiangguo Sun , Jiawen Zhang , Xixi Wu , Hong Cheng , Yun Xiong , Jia Li

Collecting annotated data for semantic segmentation is time-consuming and hard to scale up. In this paper, we for the first time propose a unified framework, termed as Multi-Dataset Pretraining, to take full advantage of the fragmented…

Computer Vision and Pattern Recognition · Computer Science 2021-06-09 Bowen Shi , Xiaopeng Zhang , Haohang Xu , Wenrui Dai , Junni Zou , Hongkai Xiong , Qi Tian

Large Language Models (LLMs) possess human-level cognitive and decision-making capabilities, making them a key technology for 6G. However, applying LLMs to the communication domain faces three major challenges: 1) Inadequate communication…

Information Theory · Computer Science 2025-02-27 Feibo Jiang , Wanyun Zhu , Li Dong , Kezhi Wang , Kun Yang , Cunhua Pan , Octavia A. Dobre

There have been many recent investigations into prompt-based training of transformer language models for new text genres in low-resource settings. The prompt-based training approach has been found to be effective in generalizing pre-trained…

Computation and Language · Computer Science 2023-06-13 Jennifer D'Souza , Moussab Hrou , Sören Auer

Multi-sourced datasets are common in studies of variable interactions, for example, individual-level fMRI integration, cross-domain recommendation, etc, where each source induces a related but distinct dependency structure. Joint learning…

Methodology · Statistics 2025-12-08 Shixiang Liu , Yanhang Zhang , Zhifan Li , Jianxin Yin

This paper focuses on out-of-distribution generalization on graphs where performance drops due to the unseen distribution shift. Previous graph domain generalization works always resort to learning an invariant predictor among different…

Machine Learning · Computer Science 2022-06-22 Junchi Yu , Jian Liang , Ran He

Knowledge graphs can represent information about the real-world using entities and their relations in a structured and semantically rich manner and they enable a variety of downstream applications such as question-answering, recommendation…

Computation and Language · Computer Science 2023-05-16 Hanieh Khorashadizadeh , Nandana Mihindukulasooriya , Sanju Tiwari , Jinghua Groppe , Sven Groppe

Despite the remarkable accomplishments of graph neural networks (GNNs), they typically rely on task-specific labels, posing potential challenges in terms of their acquisition. Existing work have been made to address this issue through the…

Machine Learning · Computer Science 2023-12-22 Siyang Luo , Ziyi Jiang , Zhenghan Chen , Xiaoxuan Liang

Graph transformers have gained popularity in various graph-based tasks by addressing challenges faced by traditional Graph Neural Networks. However, the quadratic complexity of self-attention operations and the extensive layering in graph…

Machine Learning · Computer Science 2023-09-20 Reza Shirkavand , Heng Huang

Recent improvements in KG-to-text generation are due to additional auxiliary pre-training tasks designed to give the fine-tune task a boost in performance. These tasks require extensive computational resources while only suggesting marginal…

Computation and Language · Computer Science 2023-05-19 Anthony Colas , Mehrdad Alvandipour , Daisy Zhe Wang

Large Language Models have shown growing ability to generate fluent and coherent texts that are highly similar to the writing style of humans. Current detectors for Machine-Generated Text (MGT) perform well when they are trained and tested…

Computation and Language · Computer Science 2025-08-26 Shengchao Liu , Xiaoming Liu , Chengzhengxu Li , Zhaohan Zhang , Guoxin Ma , Yu Lan , Shuai Xiao