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Many real-world phenomena are naturally modeled by graphs and networks. However, classical graph models are often limited to pairwise interactions and may not adequately capture the richer structures that arise in practice. Higher-order…

Social and Information Networks · Computer Science 2026-05-18 Takaaki Fujita , Florentin Smarandache

One of the major successes in computational biology has been the unification, using the graphical model formalism, of a multitude of algorithms for annotating and comparing biological sequences. Graphical models that have been applied…

Genomics · Quantitative Biology 2009-11-10 Lior Pachter , Bernd Sturmfels

Belief Propagation algorithms are instruments used broadly to solve graphical model optimization and statistical inference problems. In the general case of a loopy Graphical Model, Belief Propagation is a heuristic which is quite successful…

Machine Learning · Statistics 2021-09-15 Andrii Riazanov , Yury Maximov , Michael Chertkov

Explaining graph neural networks (GNNs) has become more and more important recently. Higher-order interpretation schemes, such as GNN-LRP (layer-wise relevance propagation for GNN), emerged as powerful tools for unraveling how different…

Machine Learning · Computer Science 2026-05-22 Ping Xiong , Thomas Schnake , Grégoire Montavon , Klaus-Robert Müller , Shinichi Nakajima

Daily internet communication relies heavily on tree-structured graphs, embodied by popular data formats such as XML and JSON. However, many recent generative (probabilistic) models utilize neural networks to learn a probability distribution…

Machine Learning · Computer Science 2024-08-20 Milan Papež , Martin Rektoris , Tomáš Pevný , Václav Šmídl

Neural generative models can be used to learn complex probability distributions from data, to sample from them, and to produce probability density estimates. We propose a computational framework for developing neural generative models…

Machine Learning · Computer Science 2022-01-06 Alexander Ororbia , Daniel Kifer

Graph neural networks (GNNs) have achieved tremendous success on multiple graph-based learning tasks by fusing network structure and node features. Modern GNN models are built upon iterative aggregation of neighbor's/proximity features by…

Machine Learning · Computer Science 2021-06-15 Susheel Suresh , Vinith Budde , Jennifer Neville , Pan Li , Jianzhu Ma

Temporal Graph Neural Networks (TGNNs) have gained growing attention for modeling and predicting structures in temporal graphs. However, existing TGNNs primarily focus on pairwise interactions while overlooking higher-order structures that…

Machine Learning · Computer Science 2025-05-22 Jingzhe Liu , Zhigang Hua , Yan Xie , Bingheng Li , Harry Shomer , Yu Song , Kaveh Hassani , Jiliang Tang

Knowledge graphs enable data scientists to learn end-to-end on heterogeneous knowledge. However, most end-to-end models solely learn from the relational information encoded in graphs' structure: raw values, encoded as literal nodes, are…

Machine Learning · Computer Science 2023-09-06 W. X. Wilcke , P. Bloem , V. de Boer , R. H. van t Veer

Theoretical studies on the representation power of GNNs have been centered around understanding the equivalence of GNNs, using WL-Tests for detecting graph isomorphism. In this paper, we argue that such equivalence ignores the accompanying…

Machine Learning · Computer Science 2024-08-26 P. Krishna Kumar a , Harish G. Ramaswamy

Graph representation learning (a.k.a. network embedding) is a significant topic of network analysis, due to its effectiveness to support various graph inference tasks. In this paper, we study the representation learning with multiple…

Social and Information Networks · Computer Science 2023-05-17 Meng Qin

This paper addresses the limitations of multi-node perception and delayed scheduling response in distributed systems by proposing a GNN-based multi-node collaborative perception mechanism. The system is modeled as a graph structure.…

Machine Learning · Computer Science 2025-05-23 Wenxuan Zhu , Qiyuan Wu , Tengda Tang , Renzi Meng , Sheng Chai , Xuehui Quan

In this work, we present a probabilistic model for directed graphs where nodes have attributes and labels. This model serves as a generative classifier capable of predicting the labels of unseen nodes using either maximum likelihood or…

Machine Learning · Computer Science 2025-01-06 Diego Huerta , Gerardo Arizmendi

Graph-based recommendation systems use higher-order user and item embeddings for next-item predictions. Dynamically adding collaborative signals from neighbors helps to use similar users' preferences during learning. While item-item…

Information Retrieval · Computer Science 2025-06-09 Anushka Tiwari , Haimonti Dutta , Shahrzad Khanizadeh

In this paper, we present a hypergraph neural networks (HGNN) framework for data representation learning, which can encode high-order data correlation in a hypergraph structure. Confronting the challenges of learning representation for…

Machine Learning · Computer Science 2019-02-26 Yifan Feng , Haoxuan You , Zizhao Zhang , Rongrong Ji , Yue Gao

Many real-world graphs (networks) are heterogeneous with different types of nodes and edges. Heterogeneous graph embedding, aiming at learning the low-dimensional node representations of a heterogeneous graph, is vital for various…

Social and Information Networks · Computer Science 2021-12-15 Wentao Xu , Yingce Xia , Weiqing Liu , Jiang Bian , Jian Yin , Tie-Yan Liu

Graph Neural Networks (GNNs) exploit signals from node features and the input graph topology to improve node classification task performance. However, these models tend to perform poorly on heterophilic graphs, where connected nodes have…

Machine Learning · Computer Science 2021-12-08 Vijay Lingam , Chanakya Ekbote , Manan Sharma , Rahul Ragesh , Arun Iyer , Sundararajan Sellamanickam

Graph Convolutional Networks (GCNs) have been widely applied in various fields due to their significant power on processing graph-structured data. Typical GCN and its variants work under a homophily assumption (i.e., nodes with same class…

Machine Learning · Computer Science 2021-12-28 Tao Wang , Rui Wang , Di Jin , Dongxiao He , Yuxiao Huang

It has been observed that message-passing graph neural networks (GNN) sometimes struggle to maintain a healthy balance between the efficient/scalable modeling of long-range dependencies across nodes while avoiding unintended consequences…

Machine Learning · Computer Science 2025-05-21 Yongyi Yang , Tang Liu , Yangkun Wang , Zengfeng Huang , David Wipf

Despite the recent success of reconciling spike-based coding with the error backpropagation algorithm, spiking neural networks are still mostly applied to tasks stemming from sensory processing, operating on traditional data structures like…

Neural and Evolutionary Computing · Computer Science 2023-08-25 Dominik Dold , Josep Soler Garrido