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Graph neural networks (GNNs) have attracted much attention due to their ability to leverage the intrinsic geometries of the underlying data. Although many different types of GNN models have been developed, with many benchmarking procedures…

Graph neural networks (GNNs) demonstrate great performance in compound property and activity prediction due to their capability to efficiently learn complex molecular graph structures. However, two main limitations persist including…

Biomolecules · Quantitative Biology 2023-10-10 Apakorn Kengkanna , Masahito Ohue

Graph Neural Networks (GNNs), a generalization of deep neural networks on graph data have been widely used in various domains, ranging from drug discovery to recommender systems. However, GNNs on such applications are limited when there are…

Machine Learning · Computer Science 2021-11-09 Debmalya Mandal , Sourav Medya , Brian Uzzi , Charu Aggarwal

Graphs are a widely used paradigm for representing non-Euclidean data, with applications ranging from social network analysis to biomolecular prediction. While graph learning has achieved remarkable progress, real-world graph data presents…

Graph neural networks are currently leading the performance charts in learning-based molecule property prediction and classification. Computational chemistry has, therefore, become the a prominent testbed for generic graph neural networks,…

Machine Learning · Computer Science 2020-02-04 Eliya Nachmani , Lior Wolf

Graphs arise naturally in many real-world applications including social networks, recommender systems, ontologies, biology, and computational finance. Traditionally, machine learning models for graphs have been mostly designed for static…

Machine Learning · Computer Science 2020-04-28 Seyed Mehran Kazemi , Rishab Goel , Kshitij Jain , Ivan Kobyzev , Akshay Sethi , Peter Forsyth , Pascal Poupart

Graphs are complex objects that do not lend themselves easily to typical learning tasks. Recently, a range of approaches based on graph kernels or graph neural networks have been developed for graph classification and for representation…

Machine Learning · Computer Science 2022-05-19 Chen Cai , Yusu Wang

Experimental reproducibility and replicability are critical topics in machine learning. Authors have often raised concerns about their lack in scientific publications to improve the quality of the field. Recently, the graph representation…

Machine Learning · Computer Science 2022-02-21 Federico Errica , Marco Podda , Davide Bacciu , Alessio Micheli

Graphs are a natural representation for systems based on relations between connected entities. Combinatorial optimization problems, which arise when considering an objective function related to a process of interest on discrete structures,…

Machine Learning · Computer Science 2024-08-21 Victor-Alexandru Darvariu , Stephen Hailes , Mirco Musolesi

Graph Neural Networks (GNNs) have emerged as powerful tools for learning representations from structured data. Despite their growing popularity and success across various applications, GNNs encounter several challenges that limit their…

Machine Learning · Computer Science 2026-02-03 Yassine Abbahaddou

Graph learning plays a pivotal role and has gained significant attention in various application scenarios, from social network analysis to recommendation systems, for its effectiveness in modeling complex data relations represented by graph…

Machine Learning · Computer Science 2024-03-08 Man Wu , Xin Zheng , Qin Zhang , Xiao Shen , Xiong Luo , Xingquan Zhu , Shirui Pan

Graph classification is a pivotal challenge in machine learning, especially within the realm of graph-based data, given its importance in numerous real-world applications such as social network analysis, recommendation systems, and…

Machine Learning · Computer Science 2024-07-03 Bowen Zhang , Zhichao Huang , Genan Dai , Guangning Xu , Xiaomao Fan , Hu Huang

The recent Long-Range Graph Benchmark (LRGB, Dwivedi et al. 2022) introduced a set of graph learning tasks strongly dependent on long-range interaction between vertices. Empirical evidence suggests that on these tasks Graph Transformers…

Machine Learning · Computer Science 2023-09-06 Jan Tönshoff , Martin Ritzert , Eran Rosenbluth , Martin Grohe

Dynamic graph learning has gained significant attention as it offers a powerful means to model intricate interactions among entities across various real-world and scientific domains. Notably, graphs serve as effective representations for…

Machine Learning · Computer Science 2024-01-17 Sanaz Hasanzadeh Fard

Document structure analysis, such as zone segmentation and table recognition, is a complex problem in document processing and is an active area of research. The recent success of deep learning in solving various computer vision and machine…

Computer Vision and Pattern Recognition · Computer Science 2019-07-04 Shah Rukh Qasim , Hassan Mahmood , Faisal Shafait

Foundation models have emerged as critical components in a variety of artificial intelligence applications, and showcase significant success in natural language processing and several other domains. Meanwhile, the field of graph machine…

Machine Learning · Computer Science 2025-03-11 Jiawei Liu , Cheng Yang , Zhiyuan Lu , Junze Chen , Yibo Li , Mengmei Zhang , Ting Bai , Yuan Fang , Lichao Sun , Philip S. Yu , Chuan Shi

Progress on graph foundation models is hindered by benchmark practices that conflate the contributions of node features and graph structure, making it hard to tell whether a model actually learns from connectivity, or whether it even needs…

Machine Learning · Computer Science 2026-05-08 Richard von Moos , Mathieu Alain , Bastian Rieck

In machine learning research, it is common to evaluate algorithms via their performance on standard benchmark datasets. While a growing body of work establishes guidelines for -- and levies criticisms at -- data and benchmarking practices…

Machine Learning · Computer Science 2024-11-01 Rachel Longjohn , Markelle Kelly , Sameer Singh , Padhraic Smyth

Graph comparison is fundamentally important for many applications such as the analysis of social networks and biological data and has been a significant research area in the pattern recognition and pattern analysis domains. Nowadays, the…

Data Structures and Algorithms · Computer Science 2015-02-27 Hamida Seba , Sofiane Lagraa , Elsen Ronando

Graph Neural Networks (GNNs) have exploded onto the machine learning scene in recent years owing to their capability to model and learn from graph-structured data. Such an ability has strong implications in a wide variety of fields whose…

Machine Learning · Computer Science 2021-07-26 Sergi Abadal , Akshay Jain , Robert Guirado , Jorge López-Alonso , Eduard Alarcón