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Is Heterophily A Real Nightmare For Graph Neural Networks To Do Node Classification?

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arxiv 2109.05641 v1 pith:2HK4RES6 submitted 2021-09-12 cs.LG cs.SI

classification cs.LGcs.SI
keywords gnnsheterophilygraphmetricsharmfulnetworksneuraltasks
verification ladder T0 review T1 audit T2 compute T3 formal
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Graph Neural Networks (GNNs) extend basic Neural Networks (NNs) by using the graph structures based on the relational inductive bias (homophily assumption). Though GNNs are believed to outperform NNs in real-world tasks, performance advantages of GNNs over graph-agnostic NNs seem not generally satisfactory. Heterophily has been considered as a main cause and numerous works have been put forward to address it. In this paper, we first show that not all cases of heterophily are harmful for GNNs with aggregation operation. Then, we propose new metrics based on a similarity matrix which considers the influence of both graph structure and input features on GNNs. The metrics demonstrate advantages over the commonly used homophily metrics by tests on synthetic graphs. From the metrics and the observations, we find some cases of harmful heterophily can be addressed by diversification operation. With this fact and knowledge of filterbanks, we propose the Adaptive Channel Mixing (ACM) framework to adaptively exploit aggregation, diversification and identity channels in each GNN layer to address harmful heterophily. We validate the ACM-augmented baselines with 10 real-world node classification tasks. They consistently achieve significant performance gain and exceed the state-of-the-art GNNs on most of the tasks without incurring significant computational burden.

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Forward citations

Cited by 8 Pith papers

Reviewed papers in the Pith corpus that reference this work. Sorted by Pith novelty score. OpenAlex reports about 44 citations worldwide. Full citation record

  1. Same Graph Cross-Task Transfer in GNNs: Protocols and Predictors

    cs.LG 2026-07 conditional novelty 6.0 of 10

    Under a fixed leakage-free protocol, NC→LP transfer reliably helps on homophilic graphs while LP→NC helps mainly when LP is easy and NC is unsaturated; homophily and CoTask Score guide mechanism choice.

  2. Dynamic Triangulation-Based Graph Rewiring for Graph Neural Networks

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    A learned triangle-selection module rewires graphs for GNNs, improving node classification over prior rewiring methods on 9 of 10 benchmarks.

  3. ReFill: Reinforcement Learning for Fill-In Minimization

    cs.LG 2025-01 conditional novelty 6.0 of 10

    A reinforcement learning agent that picks variable elimination orders using graph neural networks slightly reduces fill-in versus minimum degree and minimum fill-in heuristics on small test graphs.

  4. Partitioning Message Passing for Graph Fraud Detection

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    PMP partitions message passing by neighbor label and generates node-specific weights, reporting strong fraud detection results but with an invalid spectral proof.

  5. Adapting to Heterophilic Graph Data with Structure-Guided Neighbor Discovery

    cs.LG 2025-06 conditional novelty 5.0 of 10

    Structure-Guided GNN combines the original graph with k-NN graphs built from role and global structural attributes and learns per-graph weights, achieving top results on 10 of 11 node-classification datasets.

  6. THeGCN: Temporal Heterophilic Graph Convolutional Network

    cs.LG 2024-12 conditional novelty 5.0 of 10

    THeGCN uses learned low/high-pass attention over sampled temporal events to improve semi-supervised node classification on event-based continuous graphs with both edge and temporal heterophily.

  7. IMPA-HGAE:Intra-Meta-Path Augmented Heterogeneous Graph Autoencoder

    cs.LG 2025-06 conditional novelty 4.0 of 10

    IMPA-HGAE masks and reconstructs features and meta-paths in heterogeneous graphs and propagates intermediate meta-path node information, yielding competitive but not uniformly best node-classification results across f...

  8. Revisiting the Necessity of Graph Learning and Common Graph Benchmarks

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    Tuned feature-only MLPs nearly match graph neural networks on five common graph benchmarks, suggesting those benchmarks measure feature quality more than graph learning.

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