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Generating graph structures is a challenging problem due to the diverse representations and complex dependencies among nodes. In this paper, we introduce Graph Variational Recurrent Neural Network (GraphVRNN), a probabilistic autoregressive…

Machine Learning · Computer Science 2019-10-07 Shih-Yang Su , Hossein Hajimirsadeghi , Greg Mori

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

Many real-world problems can be represented as graph-based learning problems. In this paper, we propose a novel framework for learning spatial and attentional convolution neural networks on arbitrary graphs. Different from previous…

Machine Learning · Computer Science 2019-02-26 Hao Peng , Jianxin Li , Qiran Gong , Senzhang Wang , Yuanxing Ning , Philip S. Yu

Existing rule-based explanations for Graph Neural Networks (GNNs) provide global interpretability but often optimize and assess fidelity in an intermediate, uninterpretable concept space, overlooking grounding quality for end users in the…

Machine Learning · Computer Science 2026-03-18 Chuqin Geng , Ziyu Zhao , Zhaoyue Wang , Haolin Ye , Yuhe Jiang , Xujie Si

This paper introduces a new framework for recovering causal graphs from observational data, leveraging the observation that the distribution of an effect, conditioned on its causes, remains invariant to changes in the prior distribution of…

Machine Learning · Computer Science 2026-02-04 Nang Hung Nguyen , Phi Le Nguyen , Thao Nguyen Truong , Trong Nghia Hoang , Masashi Sugiyama

Current methods for textual analysis rely on data annotated within predefined ontologies, often embedding human bias within black-box models. Despite achieving near-perfect performance, these approaches exploit unstructured, linear pattern…

Computation and Language · Computer Science 2026-03-11 Diego Revilla , Martin Fernandez-de-Retana , Lingfeng Chen , Aritz Bilbao-Jayo , Miguel Fernandez-de-Retana

Causal opacity denotes the difficulty in understanding the "hidden" causal structure underlying the decisions of deep neural network (DNN) models. This leads to the inability to rely on and verify state-of-the-art DNN-based systems,…

Humans excel at solving novel reasoning problems from minimal exposure, guided by inductive biases, assumptions about which entities and relationships matter. Yet the computational form of these biases and their neural implementation remain…

Neurons and Cognition · Quantitative Biology 2025-12-22 Quan Do , Caroline Ahn , Leah Bakst , Michael Pascale , Joseph T. McGuire , Chantal E. Stern , Michael E. Hasselmo

We introduce a framework for learning robust visual representations that generalize to new viewpoints, backgrounds, and scene contexts. Discriminative models often learn naturally occurring spurious correlations, which cause them to fail on…

Computer Vision and Pattern Recognition · Computer Science 2021-03-30 Chengzhi Mao , Augustine Cha , Amogh Gupta , Hao Wang , Junfeng Yang , Carl Vondrick

Structural data well exists in Web applications, such as social networks in social media, citation networks in academic websites, and threads data in online forums. Due to the complex topology, it is difficult to process and make use of the…

Information Retrieval · Computer Science 2022-05-12 Juntao Tan , Shijie Geng , Zuohui Fu , Yingqiang Ge , Shuyuan Xu , Yunqi Li , Yongfeng Zhang

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

In precision medicine, quantitative multi-omic features, topological context, and textual biological knowledge play vital roles in identifying disease-critical signaling pathways and targets. Existing pipelines capture only part of…

Artificial Intelligence · Computer Science 2025-12-17 Heming Zhang , Di Huang , Wenyu Li , Michael Province , Yixin Chen , Philip Payne , Fuhai Li

Predicting the responses of a cell under perturbations may bring important benefits to drug discovery and personalized therapeutics. In this work, we propose a novel graph variational Bayesian causal inference framework to predict a cell's…

In this paper, we propose leveraging causal generative learning as an interpretable tool for explaining image classifiers. Specifically, we present a generative counterfactual inference approach to study the influence of visual features…

Machine Learning · Computer Science 2024-01-23 Will Taylor-Melanson , Zahra Sadeghi , Stan Matwin

Provenance graph-based intrusion detection systems are deployed on hosts to defend against increasingly severe Advanced Persistent Threat. Using Graph Neural Networks to detect these threats has become a research focus and has demonstrated…

Cryptography and Security · Computer Science 2025-08-11 Weiheng Wu , Wei Qiao , Teng Li , Yebo Feng , Zhuo Ma , Jianfeng Ma , Yang Liu

Graph neural networks (GNNs), which propagate the node features through the edges and learn how to transform the aggregated features under label supervision, have achieved great success in supervised feature extraction for both node-level…

Machine Learning · Statistics 2022-11-01 Yilin He , Chaojie Wang , Hao Zhang , Bo Chen , Mingyuan Zhou

We study the problem of reconstructing a causal graphical model from data in the presence of latent variables. The main problem of interest is recovering the causal structure over the latent variables while allowing for general, potentially…

Machine Learning · Computer Science 2021-11-23 Bohdan Kivva , Goutham Rajendran , Pradeep Ravikumar , Bryon Aragam

Graph neural networks (GNNs) find applications in various domains such as computational biology, natural language processing, and computer security. Owing to their popularity, there is an increasing need to explain GNN predictions since…

Machine Learning · Computer Science 2022-11-14 Mert Kosan , Zexi Huang , Sourav Medya , Sayan Ranu , Ambuj Singh

We present CLEAR, a method for learning session-specific causal graphs, in the possible presence of latent confounders, from attention in pre-trained attention-based recommenders. These causal graphs describe user behavior, within the…

Information Retrieval · Computer Science 2022-10-20 Shami Nisimov , Raanan Y. Rohekar , Yaniv Gurwicz , Guy Koren , Gal Novik

Causal approaches to post-hoc explainability for black-box prediction models (e.g., deep neural networks trained on image pixel data) have become increasingly popular. However, existing approaches have two important shortcomings: (i) the…

Machine Learning · Computer Science 2025-08-12 Numair Sani , Daniel Malinsky , Ilya Shpitser
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