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EDA problems are graph-structured, but not all graph-structured problems call for the same GNN computation. We argue that successful GNN-for-EDA methods are those whose propagation, aggregation, and supervision align with the native algebra…

Machine Learning · Computer Science 2026-05-12 Hyunmog Kim

We devise a framework for proving tight lower bounds under the counting exponential-time hypothesis #ETH introduced by Dell et al. (ACM Transactions on Algorithms, 2014). Our framework allows us to convert classical #P-hardness results for…

Computational Complexity · Computer Science 2017-05-09 Radu Curticapean

This paper presents a novel graph-based deep learning model for tasks involving relations between two nodes (edge-centric tasks), where the focus lies on predicting relationships and interactions between pairs of nodes rather than node…

Machine Learning · Computer Science 2025-07-08 Eugenio Borzone , Leandro Di Persia , Matias Gerard

Graph Neural Networks (GNNs) often struggle with heterophilic data, where connected nodes may have dissimilar labels, as they typically assume homophily and rely on local message passing. To address this, we propose creating alternative…

Machine Learning · Computer Science 2025-06-11 Victor M. Tenorio , Madeline Navarro , Samuel Rey , Santiago Segarra , Antonio G. Marques

In many important graph data processing applications the acquired information includes both node features and observations of the graph topology. Graph neural networks (GNNs) are designed to exploit both sources of evidence but they do not…

Machine Learning · Computer Science 2021-10-28 Eli Chien , Jianhao Peng , Pan Li , Olgica Milenkovic

Recently, graph neural networks (GNNs) have been shown powerful capacity at modeling structural data. However, when adapted to downstream tasks, it usually requires abundant task-specific labeled data, which can be extremely scarce in…

Machine Learning · Computer Science 2022-03-04 Yupeng Hou , Binbin Hu , Wayne Xin Zhao , Zhiqiang Zhang , Jun Zhou , Ji-Rong Wen

Graph Neural Networks (GNNs) achieve outstanding performance across graph-based tasks but remain difficult to interpret. In this paper, we revisit foundational assumptions underlying model-level explanation methods for GNNs, namely: (1)…

Machine Learning · Computer Science 2025-06-10 Hsiao-Ying Lu , Yiran Li , Ujwal Pratap Krishna Kaluvakolanu Thyagarajan , Kwan-Liu Ma

One of the major challenges in coreference resolution is how to make use of entity-level features defined over clusters of mentions rather than mention pairs. However, coreferent mentions usually spread far apart in an entire text, which…

Computation and Language · Computer Science 2023-07-25 Lu Liu , Zhenqiao Song , Xiaoqing Zheng , Jun He

Graph Neural Networks (GNNs) learn low dimensional representations of nodes by aggregating information from their neighborhood in graphs. However, traditional GNNs suffer from two fundamental shortcomings due to their local ($l$-hop…

Machine Learning · Computer Science 2021-04-28 Kashob Kumar Roy , Amit Roy , A K M Mahbubur Rahman , M Ashraful Amin , Amin Ahsan Ali

We analyze the universality and generalization of graph neural networks (GNNs) on attributed graphs, i.e., with node attributes. To this end, we propose pseudometrics over the space of all attributed graphs that describe the fine-grained…

Machine Learning · Computer Science 2025-08-27 Levi Rauchwerger , Stefanie Jegelka , Ron Levie

Graph Neural Network (GNN) has achieved state-of-the-art performance in various high-stake prediction tasks, but multiple layers of aggregations on graphs with irregular structures make GNN a less interpretable model. Prior methods use…

Machine Learning · Computer Science 2021-11-30 Yifei Liu , Chao Chen , Yazheng Liu , Xi Zhang , Sihong Xie

Graph Neural Networks (GNNs) have proven to be powerful in many graph-based applications. However, they fail to generalize well under heterophilic setups, where neighbor nodes have different labels. To address this challenge, we employ a…

Machine Learning · Computer Science 2023-04-13 Yoonhyuk Choi , Jiho Choi , Taewook Ko , Chong-Kwon Kim

\textit{Graph neural networks} (GNNs) are effective models for many dynamical systems consisting of entities and relations. Although most GNN applications assume a single type of entity and relation, many situations involve multiple types…

Machine Learning · Computer Science 2023-10-12 Ferran Alet , Erica Weng , Tomás Lozano Pérez , Leslie Pack Kaelbling

We prove essentially tight lower bounds, conditionally to the Exponential Time Hypothesis, for two fundamental but seemingly very different cutting problems on surface-embedded graphs: the Shortest Cut Graph problem and the Multiway Cut…

Computational Complexity · Computer Science 2021-02-18 Vincent Cohen-Addad , Éric Colin de Verdière , Daniel Marx , Arnaud de Mesmay

In many industrial applications, it is common that the graph embeddings generated from training GNNs are used in an ensemble model where the embeddings are combined with other tabular features (e.g., original node or edge features) in a…

Machine Learning · Computer Science 2025-08-07 Ashkan Golgoon , Ryan Franks , Khashayar Filom , Arjun Ravi Kannan

Link prediction, which consists of predicting edges based on graph features, is a fundamental task in many graph applications. As for several related problems, Graph Neural Networks (GNNs), which are based on an attribute-centric…

Machine Learning · Computer Science 2023-05-24 Zexi Huang , Mert Kosan , Arlei Silva , Ambuj Singh

Graph Nerual Networks (GNNs) are effective models in graph embedding. It extracts shallow features and neighborhood information by aggregating neighbor information to learn the embedding representation of different nodes. However, the local…

Social and Information Networks · Computer Science 2023-12-14 Kejia Zhang

Graph Neural Networks (GNNs) often assume strong homophily for graph classification, seldom considering heterophily, which means connected nodes tend to have different class labels and dissimilar features. In real-world scenarios, graphs…

Machine Learning · Computer Science 2024-05-10 Jiayi Yang , Sourav Medya , Wei Ye

Graph edit distance / similarity is widely used in many tasks, such as graph similarity search, binary function analysis, and graph clustering. However, computing the exact graph edit distance (GED) or maximum common subgraph (MCS) between…

Databases · Computer Science 2020-07-01 Haibo Xiu , Xiao Yan , Xiaoqiang Wang , James Cheng , Lei Cao

Medical knowledge bases (KBs), distilled from biomedical literature and regulatory actions, are expected to provide high-quality information to facilitate clinical decision making. Entity disambiguation (also referred to as entity linking)…

Information Retrieval · Computer Science 2021-04-06 Alina Vretinaris , Chuan Lei , Vasilis Efthymiou , Xiao Qin , Fatma Özcan