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Predicting DNA-protein binding is an important and classic problem in bioinformatics. Convolutional neural networks have outperformed conventional methods in modeling the sequence specificity of DNA-protein binding. However, none of the…

Genomics · Quantitative Biology 2021-06-04 Yuhang Guo , Xiao Luo , Liang Chen , Minghua Deng

We define a novel type of ensemble Graph Convolutional Network (GCN) model. Using optimized linear projection operators to map between spatial scales of graph, this ensemble model learns to aggregate information from each scale for its…

Machine Learning · Computer Science 2020-04-08 C. B. Scott , Eric Mjolsness

Spectral Graph Convolutional Networks (GCNs) have gained popularity in graph machine learning applications due, in part, to their flexibility in specification of network propagation rules. These propagation rules are often constructed as…

Machine Learning · Computer Science 2024-10-02 Mustafa Coşkun , Ananth Grama , Mehmet Koyutürk

In the field of natural language processing, text classification, as a basic task, has important research value and application prospects. Traditional text classification methods usually rely on feature representations such as the bag of…

Computation and Language · Computer Science 2024-08-29 Erdi Gao , Haowei Yang , Dan Sun , Haohao Xia , Yuhan Ma , Yuanjing Zhu

Cross-lingual text classification aims at training a classifier on the source language and transferring the knowledge to target languages, which is very useful for low-resource languages. Recent multilingual pretrained language models…

Computation and Language · Computer Science 2021-05-25 Ziyun Wang , Xuan Liu , Peiji Yang , Shixing Liu , Zhisheng Wang

Knowledge representation learning has been commonly adopted to incorporate knowledge graph (KG) into various online services. Although existing knowledge representation learning methods have achieved considerable performance improvement,…

Machine Learning · Computer Science 2022-05-18 Binbin Hu , Zhiyang Hu , Zhiqiang Zhang , Jun Zhou , Chuan Shi

We show that a modification of the first layer of a Graph Convolutional Network (GCN) can be used to effectively propagate label information across neighbor nodes, for binary and multi-class classification problems. This is done by…

Machine Learning · Computer Science 2021-04-07 Claudio Bellei , Hussain Alattas , Nesrine Kaaniche

Higher-order features bring significant accuracy gains in semantic dependency parsing. However, modeling higher-order features with exact inference is NP-hard. Graph neural networks (GNNs) have been demonstrated to be an effective tool for…

Computation and Language · Computer Science 2022-01-28 Bin Li , Yunlong Fan , Yikemaiti Sataer , Zhiqiang Gao

Can we combine heterogenous graph structure with text to learn high-quality semantic and behavioural representations? Graph neural networks (GNN)s encode numerical node attributes and graph structure to achieve impressive performance in a…

Machine Learning · Computer Science 2022-06-23 Vassilis N. Ioannidis , Xiang Song , Da Zheng , Houyu Zhang , Jun Ma , Yi Xu , Belinda Zeng , Trishul Chilimbi , George Karypis

Graph Convolutional Networks (GCNs) have shown strong performance in learning text representations for various tasks such as text classification, due to its expressive power in modeling graph structure data (e.g., a literature citation…

Computation and Language · Computer Science 2023-05-12 Zhibin Lu , Qianqian Xie , Benyou Wang , Jian-yun Nie

Graph Convolutional Networks (GCNs) are state-of-the-art graph based representation learning models by iteratively stacking multiple layers of convolution aggregation operations and non-linear activation operations. Recently, in…

Information Retrieval · Computer Science 2020-01-29 Lei Chen , Le Wu , Richang Hong , Kun Zhang , Meng Wang

Protein-protein interactions (PPIs) are associated with various diseases, including cancer, infections, and neurodegenerative disorders. Obtaining three-dimensional structural information on these PPIs serves as a foundation to interfere…

Biomolecules · Quantitative Biology 2024-07-24 Xiaotong Xu , Alexandre M. J. J. Bonvin

Graph convolutional network (GCN) is an emerging neural network approach. It learns new representation of a node by aggregating feature vectors of all neighbors in the aggregation process without considering whether the neighbors or…

Machine Learning · Computer Science 2022-04-01 Li Zhang , Heda Song , Nikolaos Aletras , Haiping Lu

Graph representation learning methods are highly effective in handling complex non-Euclidean data by capturing intricate relationships and features within graph structures. However, traditional methods face challenges when dealing with…

Machine Learning · Computer Science 2025-02-25 Hang Gao , Chenhao Zhang , Fengge Wu , Junsuo Zhao , Changwen Zheng , Huaping Liu

Graph Neural Networks (GNNs) extend the success of neural networks to graph-structured data by accounting for their intrinsic geometry. While extensive research has been done on developing GNN models with superior performance according to a…

Recent successes in image analysis with deep neural networks are achieved almost exclusively with Convolutional Neural Networks (CNNs), typically trained using the backpropagation (BP) algorithm. In a 2022 preprint, Geoffrey Hinton proposed…

Computer Vision and Pattern Recognition · Computer Science 2025-11-05 Riccardo Scodellaro , Ajinkya Kulkarni , Frauke Alves , Matthias Schröter

Unsupervised clustering on speakers is becoming increasingly important for its potential uses in semi-supervised learning. In reality, we are often presented with enormous amounts of unlabeled data from multi-party meetings and discussions.…

Audio and Speech Processing · Electrical Eng. & Systems 2022-04-26 Fuchuan Tong , Siqi Zheng , Min Zhang , Yafeng Chen , Hongbin Suo , Qingyang Hong , Lin Li

A common observation in the Graph Convolutional Network (GCN) literature is that stacking GCN layers may or may not result in better performance on tasks like node classification and edge prediction. We have found empirically that a graph's…

Machine Learning · Computer Science 2025-09-11 Shalima Binta Manir , Tim Oates

Integrating Pre-trained Language Models (PLMs) with Graph Neural Networks (GNNs) remains a central challenge in text-rich heterophilic graph learning. We propose a novel integration framework that enables effective fusion between powerful…

Computation and Language · Computer Science 2025-10-09 Aarush Sinha

Graph Neural Networks (GNNs) have shown state-of-the-art improvements in node classification tasks on graphs. While these improvements have been largely demonstrated in a multi-class classification scenario, a more general and realistic…

Machine Learning · Computer Science 2024-03-01 Tianqi Zhao , Ngan Thi Dong , Alan Hanjalic , Megha Khosla