# Using Subgraph GNNs for Node Classification:an Overlooked Potential Approach

arXiv: https://arxiv.org/abs/2503.06614 · HTML: https://mlsanity.com/paper/2503.06614/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 25 of its 30 references that are in the map.
- First posted on arXiv 9 Mar 2025.

## Builds on (most cited first, 25 of 25)

- [Semi-Supervised Classification with Graph Convolutional Networks](https://mlsanity.com/paper/1609.02907/) (2016)
- [Graph Attention Networks](https://mlsanity.com/paper/1710.10903/) (2017)
- [Inductive Representation Learning on Large Graphs](https://mlsanity.com/paper/1706.02216/) (2017)
- [How Powerful are Graph Neural Networks?](https://mlsanity.com/paper/1810.00826/) (2018)
- [Neural Message Passing for Quantum Chemistry](https://mlsanity.com/paper/1704.01212/) (2017)
- [Optuna: A Next-generation Hyperparameter Optimization Framework](https://mlsanity.com/paper/1907.10902/) (2019)
- [Fast Graph Representation Learning with PyTorch Geometric](https://mlsanity.com/paper/1903.02428/) (2019)
- [Simple and Deep Graph Convolutional Networks](https://mlsanity.com/paper/2007.02133/) (2020)
- [Geom-GCN: Geometric Graph Convolutional Networks](https://mlsanity.com/paper/2002.05287/) (2020)
- [GraphSAINT: Graph Sampling Based Inductive Learning Method](https://mlsanity.com/paper/1907.04931/) (2019)
- [Adaptive Universal Generalized PageRank Graph Neural Network](https://mlsanity.com/paper/2006.07988/) (2020)
- [Multi-scale Attributed Node Embedding](https://mlsanity.com/paper/1909.13021/) (2019)
- [GCC: Graph Contrastive Coding for Graph Neural Network Pre-Training](https://mlsanity.com/paper/2006.09963/) (2020)
- [MixHop: Higher-Order Graph Convolutional Architectures via Sparsified Neighborhood Mixing](https://mlsanity.com/paper/1905.00067/) (2019)
- [Identity-aware Graph Neural Networks](https://mlsanity.com/paper/2101.10320/) (2021)
- [Finding Global Homophily in Graph Neural Networks When Meeting Heterophily](https://mlsanity.com/paper/2205.07308/) (2022)
- [Revisiting Heterophily For Graph Neural Networks](https://mlsanity.com/paper/2210.07606/) (2022)
- [GraphPrompt: Unifying Pre-Training and Downstream Tasks for Graph Neural Networks](https://mlsanity.com/paper/2302.08043/) (2023)
- [All in One: Multi-task Prompting for Graph Neural Networks](https://mlsanity.com/paper/2307.01504/) (2023)
- [Non-Local Graph Neural Networks](https://mlsanity.com/paper/2005.14612/) (2020)
- [Edge Directionality Improves Learning on Heterophilic Graphs](https://mlsanity.com/paper/2305.10498/) (2023)
- [Simplifying approach to Node Classification in Graph Neural Networks](https://mlsanity.com/paper/2111.06748/) (2021)
- [Gradient Gating for Deep Multi-Rate Learning on Graphs](https://mlsanity.com/paper/2210.00513/) (2022)
- [Transformers Meet Directed Graphs](https://mlsanity.com/paper/2302.00049/) (2023)
- [LMC: Fast Training of GNNs via Subgraph Sampling with Provable Convergence](https://mlsanity.com/paper/2302.00924/) (2023)

## Abstract (arXiv)

Previous studies have demonstrated the strong performance of Graph Neural Networks (GNNs) in node classification. However, most existing GNNs adopt a node-centric perspective and rely on global message passing, leading to high computational and memory costs that hinder scalability. To mitigate these challenges, subgraph-based methods have been introduced, leveraging local subgraphs as approximations of full computational trees. While this approach improves efficiency, it often suffers from performance degradation due to the loss of global contextual information, limiting its effectiveness compared to global GNNs. To address this trade-off between scalability and classification accuracy, we reformulate the node classification task as a subgraph classification problem and propose SubGND (Subgraph GNN for NoDe). This framework introduces a differentiated zero-padding strategy and an Ego-Alter subgraph representation method to resolve label conflicts while incorporating an Adaptive Feature Scaling Mechanism to dynamically adjust feature contributions based on dataset-specific dependencies. Experimental results on six benchmark datasets demonstrate that SubGND achieves performance comparable to or surpassing global message-passing GNNs, particularly in heterophilic settings, highlighting its effectiveness and scalability as a promising solution for node classification.