Global Concept-Based Interpretability for Graph Neural Networks via Neuron Analysis
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Abstract (arXiv)
Graph neural networks (GNNs) are highly effective on a variety of graph-related tasks; however, they lack interpretability and transparency. Current explainability approaches are typically local and treat GNNs as black-boxes. They do not look inside the model, inhibiting human trust in the model and explanations. Motivated by the ability of neurons to detect high-level semantic concepts in vision models, we perform a novel analysis on the behaviour of individual GNN neurons to answer questions about GNN interpretability, and propose new metrics for evaluating the interpretability of GNN neurons. We propose a novel approach for producing global explanations for GNNs using neuron-level concepts to enable practitioners to have a high-level view of the model. Specifically, (i) to the best of our knowledge, this is the first work which shows that GNN neurons act as concept detectors and have strong alignment with concepts formulated as logical compositions of node degree and neighbourhood properties; (ii) we quantitatively assess the importance of detected concepts, and identify a trade-off between training duration and neuron-level interpretability; (iii) we demonstrate that our global explainability approach has advantages over the current state-of-the-art -- we can disentangle the explanation into individual interpretable concepts backed by logical descriptions, which reduces potential for bias and improves user-friendliness.
Key facts. Cited by 32 papers in the map (data through 7 Oct 2026). Builds on 26 of its 41 references that are in the map. First posted on arXiv 22 Aug 2022.
Builds on
26 of 41 references.
References · 26
- 2016Semi-Supervised Classification with Graph Convolutional Networkscited by 11,282
- 2016Grad-CAM: Visual Explanations from Deep Networks via Gradient-based Localizationcited by 6,690
- 2018How Powerful are Graph Neural Networks?cited by 4,355
- 2015Learning Deep Features for Discriminative Localizationcited by 2,430
- 2017Interpretability Beyond Feature Attribution: Quantitative Testing with Concept Activation Vectors (TCAV)cited by 1,309
- 2018Deeper Insights into Graph Convolutional Networks for Semi-Supervised Learningcited by 1,099
- 2020Concept Bottleneck Modelscited by 1,022
- 2020Learning to Simulate Complex Physics with Graph Networkscited by 867
- 2019GNNExplainer: Generating Explanations for Graph Neural Networkscited by 735
- 2017Network Dissection: Quantifying Interpretability of Deep Visual Representationscited by 703
- 2017Opening the Black Box of Deep Neural Networks via Informationcited by 494
- 2020Parameterized Explainer for Graph Neural Networkcited by 423
14 more
- 2016Understanding Neural Networks through Representation Erasurecited by 223
- 2020XGNN: Towards Model-Level Explanations of Graph Neural Networkscited by 211
- 2020PGM-Explainer: Probabilistic Graphical Model Explanations for Graph Neural Networkscited by 210
- 2020Compositional Explanations of Neuronscited by 172
- 2018What Is One Grain of Sand in the Desert? Analyzing Individual Neurons in Deep NLP Modelscited by 124
- 2022A Comprehensive Survey on Trustworthy Graph Neural Networks: Privacy, Robustness, Fairness, and Explainabilitycited by 118
- 2017A Tutorial on Kernel Density Estimation and Recent Advancescited by 100
- 2019Explanation by Progressive Exaggerationcited by 76
- 2021DIG: A Turnkey Library for Diving into Graph Deep Learning Researchcited by 76
- 2021Entropy-based Logic Explanations of Neural Networkscited by 51
- 2022Message passing all the way upcited by 47
- 2021GCExplainer: Human-in-the-Loop Concept-based Explanations for Graph Neural Networkscited by 35
- 2020Survey of explainable machine learning with visual and granular methods beyond quasi-explanationscited by 20
- 2021Algorithmic Concept-based Explainable Reasoningcited by 12
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Citing papers per year: 2022: 1; 2023: 8; 2024: 9; 2025: 11; 2026: 3.
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- 2023Concept-based Explainable Artificial Intelligence: A Surveycited by 97
- 2023Interpretable Neural-Symbolic Concept Reasoningcited by 56
- 2023A Survey on Explainability of Graph Neural Networkscited by 28
- 2024Semi-supervised Concept Bottleneck Modelscited by 21
- 2023GNNX-BENCH: Unravelling the Utility of Perturbation-based GNN Explainers through In-depth Benchmarkingcited by 11
- 2024View-based Explanations for Graph Neural Networkscited by 8
- 2022L2XGNN: Learning to Explain Graph Neural Networkscited by 7
- 2024MAGE: Model-Level Graph Neural Networks Explanations via Motif-based Graph Generationcited by 7
- 2025From Nodes to Narratives: Explaining Graph Neural Networks with LLMs and Graph Contextcited by 6
- 2023Interpretable Graph Neural Networks for Tabular Datacited by 5
- 2025Robustness questions the interpretability of graph neural networks: what to do?cited by 4
- 2025Prediction via Shapley Value Regressioncited by 3
20 more
- 2023It Ain't That Bad: Understanding the Mysterious Performance Drop in OOD Generalization for Generative Transformer Modelscited by 2
- 2023Everybody Needs a Little HELP: Explaining Graphs via Hierarchical Conceptscited by 2
- 2024Automated Molecular Concept Generation and Labeling with Large Language Modelscited by 2
- 2024A Benchmark for Fairness-Aware Graph Learningcited by 2
- 2025GnnXemplar: Exemplars to Explanations -- Natural Language Rules for Global GNN Interpretabilitycited by 2
- 2024Interpretable Graph Neural Networks for Heterogeneous Tabular Datacited by 1
- 2024Decompose the model: Mechanistic interpretability in image models with Generalized Integrated Gradients (GIG)cited by 1
- 2024Disentangled and Self-Explainable Node Representation Learningcited by 1
- 2025Superposition in Graph Neural Networkscited by 1
- 2025Interpretable Neuropsychiatric Diagnosis via Concept-Guided Graph Neural Networkscited by 1
- 2026Beyond Message Passing: A Symbolic Alternative for Expressive and Interpretable Graph Learningcited by 1
- 2023Empowering Counterfactual Reasoning over Graph Neural Networks through Inductivitycited by 0
- 2024Do graph neural network states contain graph properties?cited by 0
- 2025Compositional Concept-Based Neuron-Level Interpretability for Deep Reinforcement Learningcited by 0
- 2025Model-Level GNN Explanations via Rule-to-Graph Readout for Logit Reconstructioncited by 0
- 2025LogicXGNN: Grounded Logical Rules for Explaining Graph Neural Networkscited by 0
- 2025Framework GNN-AID: Graph Neural Network Analysis Interpretation and Defensecited by 0
- 2025Multimodal Attention-Aware Fusion for Diagnosing Distal Myopathy: Evaluating Model Interpretability and Clinician Trustcited by 0
- 2026Exploring Concept Subspace for Self-explainable Text-Attributed Graph Learningcited by 0
- 2026Concept Graph Convolutions: Message Passing in the Concept Spacecited by 0
- 2026Concept Graph Convolutions: Message Passing in the Concept Space22 Apr 2026
- 2026Exploring Concept Subspace for Self-explainable Text-Attributed Graph Learning13 Apr 2026
- 2026Beyond Message Passing: A Symbolic Alternative for Expressive and Interpretable Graph Learning18 Feb 2026
- 2025Interpretable Neuropsychiatric Diagnosis via Concept-Guided Graph Neural Networks2 Oct 2025
- 2025GnnXemplar: Exemplars to Explanations -- Natural Language Rules for Global GNN Interpretability22 Sep 2025
- 2025Superposition in Graph Neural Networks31 Aug 2025
- 2025From Nodes to Narratives: Explaining Graph Neural Networks with LLMs and Graph Context9 Aug 2025
- 2025Multimodal Attention-Aware Fusion for Diagnosing Distal Myopathy: Evaluating Model Interpretability and Clinician Trust2 Aug 2025
- 2025Prediction via Shapley Value Regression7 May 2025
- 2025Framework GNN-AID: Graph Neural Network Analysis Interpretation and Defense6 May 2025
- 2025Robustness questions the interpretability of graph neural networks: what to do?5 May 2025
- 2025LogicXGNN: Grounded Logical Rules for Explaining Graph Neural Networks25 Mar 2025
20 more
- 2025Model-Level GNN Explanations via Rule-to-Graph Readout for Logit Reconstruction12 Mar 2025
- 2025Compositional Concept-Based Neuron-Level Interpretability for Deep Reinforcement Learning2 Feb 2025
- 2024Do graph neural network states contain graph properties?4 Nov 2024
- 2024Disentangled and Self-Explainable Node Representation Learning28 Oct 2024
- 2024Decompose the model: Mechanistic interpretability in image models with Generalized Integrated Gradients (GIG)3 Sep 2024
- 2024Interpretable Graph Neural Networks for Heterogeneous Tabular Data14 Aug 2024
- 2024A Benchmark for Fairness-Aware Graph Learning16 Jul 2024
- 2024Semi-supervised Concept Bottleneck Models27 Jun 2024
- 2024Automated Molecular Concept Generation and Labeling with Large Language Models13 Jun 2024
- 2024MAGE: Model-Level Graph Neural Networks Explanations via Motif-based Graph Generation21 May 2024
- 2024View-based Explanations for Graph Neural Networks4 Jan 2024
- 2023Concept-based Explainable Artificial Intelligence: A Survey20 Dec 2023
- 2023Everybody Needs a Little HELP: Explaining Graphs via Hierarchical Concepts25 Nov 2023
- 2023GNNX-BENCH: Unravelling the Utility of Perturbation-based GNN Explainers through In-depth Benchmarking3 Oct 2023
- 2023Interpretable Graph Neural Networks for Tabular Data17 Aug 2023
- 2023It Ain't That Bad: Understanding the Mysterious Performance Drop in OOD Generalization for Generative Transformer Models16 Aug 2023
- 2023Empowering Counterfactual Reasoning over Graph Neural Networks through Inductivity7 Jun 2023
- 2023A Survey on Explainability of Graph Neural Networks2 Jun 2023
- 2023Interpretable Neural-Symbolic Concept Reasoning27 Apr 2023
- 2022L2XGNN: Learning to Explain Graph Neural Networks28 Sep 2022
- 2023Concept-based Explainable Artificial Intelligence: A Surveycited by 97
- 2023Interpretable Neural-Symbolic Concept Reasoningcited by 56
- 2023A Survey on Explainability of Graph Neural Networkscited by 28
- 2024Semi-supervised Concept Bottleneck Modelscited by 21
- 2023GNNX-BENCH: Unravelling the Utility of Perturbation-based GNN Explainers through In-depth Benchmarkingcited by 11
- 2024View-based Explanations for Graph Neural Networkscited by 8
- 2022L2XGNN: Learning to Explain Graph Neural Networkscited by 7
- 2024MAGE: Model-Level Graph Neural Networks Explanations via Motif-based Graph Generationcited by 7
- 2025From Nodes to Narratives: Explaining Graph Neural Networks with LLMs and Graph Contextcited by 6
- 2023Interpretable Graph Neural Networks for Tabular Datacited by 5
- 2025Robustness questions the interpretability of graph neural networks: what to do?cited by 4
- 2025Prediction via Shapley Value Regressioncited by 3
12 most cited of 31 All 31 (JSON)
- 2026Exploring Concept Subspace for Self-explainable Text-Attributed Graph Learning13 Apr 2026
- 2026Beyond Message Passing: A Symbolic Alternative for Expressive and Interpretable Graph Learning18 Feb 2026
- 2025Interpretable Neuropsychiatric Diagnosis via Concept-Guided Graph Neural Networks2 Oct 2025
- 2025GnnXemplar: Exemplars to Explanations -- Natural Language Rules for Global GNN Interpretability22 Sep 2025
- 2025Superposition in Graph Neural Networks31 Aug 2025
- 2025From Nodes to Narratives: Explaining Graph Neural Networks with LLMs and Graph Context9 Aug 2025
- 2025Multimodal Attention-Aware Fusion for Diagnosing Distal Myopathy: Evaluating Model Interpretability and Clinician Trust2 Aug 2025
- 2025Prediction via Shapley Value Regression7 May 2025
- 2025Framework GNN-AID: Graph Neural Network Analysis Interpretation and Defense6 May 2025
- 2025Robustness questions the interpretability of graph neural networks: what to do?5 May 2025
- 2025LogicXGNN: Grounded Logical Rules for Explaining Graph Neural Networks25 Mar 2025
- 2025Model-Level GNN Explanations via Rule-to-Graph Readout for Logit Reconstruction12 Mar 2025
12 newest of 31 All 31 (JSON)