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AI-driven drug design relies significantly on predicting molecular properties, which is a complex task. In current approaches, the most commonly used feature representations for training deep neural network models are based on SMILES and…

Machine Learning · Computer Science 2024-01-19 Yili Chen , Zhengyu Li , Zheng Wan , Hui Yu , Xian Wei

A novel method to identify salient computational paths within randomly wired neural networks before training is proposed. The computational graph is pruned based on a node mass probability function defined by local graph measures and…

Machine Learning · Computer Science 2020-07-09 Samuel Glass , Simeon Spasov , Pietro Liò

In the present work, we study the properties of biological networks by applying analogous notions of fundamental concepts in Riemannian geometry and optimal mass transport to discrete networks described by weighted graphs. Specifically, we…

Molecular Networks · Quantitative Biology 2017-12-11 Maryam Pouryahya , James Mathews , Allen Tannenbaum

This paper presents Hyper-VIB, a hypernetwork-enhanced information bottleneck (IB) approach designed to enable efficient task-oriented communications in 6G collaborative intelligent systems. Leveraging IB theory, our approach enables an…

Information Theory · Computer Science 2025-11-20 Jingchen Peng , Chaowen Deng , Yili Deng , Boxiang Ren , Lu Yang

Graph neural networks (GNNs) rely mainly on the message-passing paradigm to propagate node features and build interactions, and different graph learning problems require different ranges of node interactions. In this work, we explore the…

Machine Learning · Computer Science 2026-01-08 Fang Wu , Siyuan Li , Stan Z. Li

With the ubiquitous graph-structured data in various applications, models that can learn compact but expressive vector representations of nodes have become highly desirable. Recently, bearing the message passing paradigm, graph neural…

Social and Information Networks · Computer Science 2021-04-13 Tong Chen , Hongzhi Yin , Jie Ren , Zi Huang , Xiangliang Zhang , Hao Wang

We propose a new graph kernel for graph classification and comparison using Ollivier Ricci curvature. The Ricci curvature of an edge in a graph describes the connectivity in the local neighborhood. An edge in a densely connected…

Machine Learning · Computer Science 2019-07-17 Kin Sum Liu , Chien-Chun Ni , Yu-Yao Lin , Jie Gao

Graph Neural Networks (GNNs) have achieved tremendous success in a variety of real-world applications by relying on the fixed graph data as input. However, the initial input graph might not be optimal in terms of specific downstream tasks,…

Machine Learning · Computer Science 2023-09-22 Beidi Zhao , Boxin Du , Zhe Xu , Liangyue Li , Hanghang Tong

Unsupervised node clustering (or community detection) is a classical graph learning task. In this paper, we study algorithms, which exploit the geometry of the graph to identify densely connected substructures, which form clusters or…

Social and Information Networks · Computer Science 2023-07-20 Yu Tian , Zachary Lubberts , Melanie Weber

Graph convolutional network (GCN) emerges as a promising direction to learn the inductive representation in graph data commonly used in widespread applications, such as E-commerce, social networks, and knowledge graphs. However, learning…

Hardware Architecture · Computer Science 2020-09-29 Xiaobing Chen , Yuke Wang , Xinfeng Xie , Xing Hu , Abanti Basak , Ling Liang , Mingyu Yan , Lei Deng , Yufei Ding , Zidong Du , Yunji Chen , Yuan Xie

Graphs are a powerful tool for representing and analyzing unstructured, non-Euclidean data ubiquitous in the healthcare domain. Two prominent examples are molecule property prediction and brain connectome analysis. Importantly, recent works…

Machine Learning · Computer Science 2022-04-04 Kamilia Mullakaeva , Luca Cosmo , Anees Kazi , Seyed-Ahmad Ahmadi , Nassir Navab , Michael M. Bronstein

Signed Graph Neural Networks (SGNNs) are widely adopted to analyze complex patterns in signed graphs with both positive and negative links. Given the noisy nature of real-world connections, the robustness of SGNN has also emerged as a…

Machine Learning · Computer Science 2025-10-28 Junran Wu , Beng Chin Ooi , Ke Xu

Developing a new diagnostic models based on the underlying biological mechanisms rather than subjective symptoms for psychiatric disorders is an emerging consensus. Recently, machine learning-based classifiers using functional connectivity…

Signal Processing · Electrical Eng. & Systems 2024-10-14 Kaizhong Zheng , Shujian Yu , Baojuan Li , Robert Jenssen , Badong Chen

Graph neural networks (GNNs) are a popular class of machine learning models whose major advantage is their ability to incorporate a sparse and discrete dependency structure between data points. Unfortunately, GNNs can only be used when such…

Machine Learning · Computer Science 2020-06-22 Luca Franceschi , Mathias Niepert , Massimiliano Pontil , Xiao He

Deep neural networks learn feature representations via complex geometric transformations of the input data manifold. Despite the models' empirical success across domains, our understanding of neural feature representations is still…

Machine Learning · Computer Science 2025-09-29 Moritz Hehl , Max von Renesse , Melanie Weber

Graphs are a highly expressive abstraction for modeling entities and their relations, such as molecular structures, social networks, and traffic networks. Deep Graph Networks (DGNs) have emerged as a family of deep learning models that can…

Machine Learning · Computer Science 2024-10-16 Alessio Gravina

Graph neural networks can be effectively applied to find solutions for many real-world problems across widely diverse fields. The success of graph neural networks is linked to the message-passing mechanism on the graph, however, the…

Machine Learning · Computer Science 2022-01-06 Yan Pang , Chao Liu

Graph Neural Networks (GNNs) unlock new ways of learning from graph-structured data, proving highly effective in capturing complex relationships and patterns. Federated GNNs (FGNNs) have emerged as a prominent distributed learning paradigm…

Machine Learning · Computer Science 2026-01-23 Xiuling Wang , Xin Huang , Haibo Hu , Jianliang Xu

Temporal Graph Neural Networks (TGNN) have the ability to capture both the graph topology and dynamic dependencies of interactions within a graph over time. There has been a growing need to explain the predictions of TGNN models due to the…

Machine Learning · Computer Science 2024-06-21 Sangwoo Seo , Sungwon Kim , Jihyeong Jung , Yoonho Lee , Chanyoung Park

Graph Neural Networks (GNNs) achieve an impressive performance on structured graphs by recursively updating the representation vector of each node based on its neighbors, during which parameterized transformation matrices should be learned…

Machine Learning · Computer Science 2019-06-14 Pengfei Chen , Weiwen Liu , Chang-Yu Hsieh , Guangyong Chen , Shengyu Zhang