Graph neural networks (GNNs) have limited expressive power, failing to represent many graph classes correctly. While more expressive graph representation learning (GRL) alternatives can distinguish some of these classes, they are significantly harder to implement, may not scale well, and have not been shown to outperform well-tuned GNNs in real-world tasks. Thus, devising simple, scalable, and expressive GRL architectures that also achieve real-world improvements remains an open challenge. In this work, we show the extent to which graph reconstruction -- reconstructing a graph from its subgraphs -- can mitigate the theoretical and practical problems currently faced by GRL architectures. First, we leverage graph reconstruction to build two new classes of expressive graph representations. Secondly, we show how graph reconstruction boosts the expressive power of any GNN architecture while being a (provably) powerful inductive bias for invariances to vertex removals. Empirically, we show how reconstruction can boost GNN's expressive power -- while maintaining its invariance to permutations of the vertices -- by solving seven graph property tasks not solvable by the original GNN. Further, we demonstrate how it boosts state-of-the-art GNN's performance across nine real-world benchmark datasets.
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The focus of disentanglement approaches has been on identifying independent factors of variation in data. However, the causal variables underlying real-world observations are often not statistically independent. In this work, we bridge the gap to real-world scenarios by analyzing the behavior of the most prominent disentanglement approaches on correlated data in a large-scale empirical study (including 4260 models). We show and quantify that systematically induced correlations in the dataset are being learned and reflected in the latent representations, which has implications for downstream applications of disentanglement such as fairness. We also demonstrate how to resolve these latent correlations, either using weak supervision during training or by post-hoc correcting a pre-trained model with a small number of labels.
Graph Neural Networks (GNNs) are widely used for analyzing graph-structured data. Most GNN methods are highly sensitive to the quality of graph structures and usually require a perfect graph structure for learning informative embeddings. However, the pervasiveness of noise in graphs necessitates learning robust representations for real-world problems. To improve the robustness of GNN models, many studies have been proposed around the central concept of Graph Structure Learning (GSL), which aims to jointly learn an optimized graph structure and corresponding representations. Towards this end, in the presented survey, we broadly review recent progress of GSL methods for learning robust representations. Specifically, we first formulate a general paradigm of GSL, and then review state-of-the-art methods classified by how they model graph structures, followed by applications that incorporate the idea of GSL in other graph tasks. Finally, we point out some issues in current studies and discuss future directions.
Unsupervised (or self-supervised) graph representation learning is essential to facilitate various graph data mining tasks when external supervision is unavailable. The challenge is to encode the information about the graph structure and the attributes associated with the nodes and edges into a low dimensional space. Most existing unsupervised methods promote similar representations across nodes that are topologically close. Recently, it was shown that leveraging additional graph-level information, e.g., information that is shared among all nodes, encourages the representations to be mindful of the global properties of the graph, which greatly improves their quality. However, in most graphs, there is significantly more structure that can be captured, e.g., nodes tend to belong to (multiple) clusters that represent structurally similar nodes. Motivated by this observation, we propose a graph representation learning method called Graph InfoClust (GIC), that seeks to additionally capture cluster-level information content. These clusters are computed by a differentiable K-means method and are jointly optimized by maximizing the mutual information between nodes of the same clusters. This optimization leads the node representations to capture richer information and nodal interactions, which improves their quality. Experiments show that GIC outperforms state-of-art methods in various downstream tasks (node classification, link prediction, and node clustering) with a 0.9% to 6.1% gain over the best competing approach, on average.
Learning structural representations of node sets from graph-structured data is crucial for applications ranging from node-role discovery to link prediction and molecule classification. Graph Neural Networks (GNNs) have achieved great success in structural representation learning. However, most GNNs are limited by the 1-Weisfeiler-Lehman (WL) test and thus possible to generate identical representation for structures and graphs that are actually different. More powerful GNNs, proposed recently by mimicking higher-order-WL tests, only focus on entire-graph representations and cannot utilize sparsity of the graph structure to be computationally efficient. Here we propose a general class of structure-related features, termed Distance Encoding (DE), to assist GNNs in representing node sets with arbitrary sizes with strictly more expressive power than the 1-WL test. DE essentially captures the distance between the node set whose representation is to be learnt and each node in the graph, which includes important graph-related measures such as shortest-path-distance and generalized PageRank scores. We propose two general frameworks for GNNs to use DEs (1) as extra node attributes and (2) further as controllers of message aggregation in GNNs. Both frameworks may still utilize the sparse structure to keep scalability to process large graphs. In theory, we prove that these two frameworks can distinguish node sets embedded in almost all regular graphs where traditional GNNs always fail. We also rigorously analyze their limitations. Empirically, we evaluate these two frameworks on node structural roles prediction, link prediction and triangle prediction over six real networks. The results show that our models outperform GNNs without DEs by up-to 15% improvement in average accuracy and AUC. Our models also significantly outperform other SOTA baselines particularly designed for those tasks.
Graph neural networks (GNNs) are effective machine learning models for various graph learning problems. Despite their empirical successes, the theoretical limitations of GNNs have been revealed recently. Consequently, many GNN models have been proposed to overcome these limitations. In this survey, we provide a comprehensive overview of the expressive power of GNNs and provably powerful variants of GNNs.
Node classification is an important problem in graph data management. It is commonly solved by various label propagation methods that work iteratively starting from a few labeled seed nodes. For graphs with arbitrary compatibilities between classes, these methods crucially depend on knowing the compatibility matrix that must be provided by either domain experts or heuristics. Can we instead directly estimate the correct compatibilities from a sparsely labeled graph in a principled and scalable way? We answer this question affirmatively and suggest a method called distant compatibility estimation that works even on extremely sparsely labeled graphs (e.g., 1 in 10,000 nodes is labeled) in a fraction of the time it later takes to label the remaining nodes. Our approach first creates multiple factorized graph representations (with size independent of the graph) and then performs estimation on these smaller graph sketches. We define algebraic amplification as the more general idea of leveraging algebraic properties of an algorithm's update equations to amplify sparse signals. We show that our estimator is by orders of magnitude faster than an alternative approach and that the end-to-end classification accuracy is comparable to using gold standard compatibilities. This makes it a cheap preprocessing step for any existing label propagation method and removes the current dependence on heuristics.
It is not until recently that graph neural networks (GNNs) are adopted to perform graph representation learning, among which, those based on the aggregation of features within the neighborhood of a node achieved great success. However, despite such achievements, GNNs illustrate defects in identifying some common structural patterns which, unfortunately, play significant roles in various network phenomena. In this paper, we propose GraLSP, a GNN framework which explicitly incorporates local structural patterns into the neighborhood aggregation through random anonymous walks. Specifically, we capture local graph structures via random anonymous walks, powerful and flexible tools that represent structural patterns. The walks are then fed into the feature aggregation, where we design various mechanisms to address the impact of structural features, including adaptive receptive radius, attention and amplification. In addition, we design objectives that capture similarities between structures and are optimized jointly with node proximity objectives. With the adequate leverage of structural patterns, our model is able to outperform competitive counterparts in various prediction tasks in multiple datasets.
This paper focuses on the discrimination capacity of aggregation functions: these are the permutation invariant functions used by graph neural networks to combine the features of nodes. Realizing that the most powerful aggregation functions suffer from a dimensionality curse, we consider a restricted setting. In particular, we show that the standard sum and a novel histogram-based function have the capacity to discriminate between any fixed number of inputs chosen by an adversary. Based on our insights, we design a graph neural network aiming, not to maximize discrimination capacity, but to learn discriminative graph representations that generalize well. Our empirical evaluation provides evidence that our choices can yield benefits to the problem of structural graph classification.
Graph neural networks (GNNs) are a popular class of machine learning models whose major advantage is their ability to incorporate a sparse and discrete dependency structure between data points. Unfortunately, GNNs can only be used when such a graph-structure is available. In practice, however, real-world graphs are often noisy and incomplete or might not be available at all. With this work, we propose to jointly learn the graph structure and the parameters of graph convolutional networks (GCNs) by approximately solving a bilevel program that learns a discrete probability distribution on the edges of the graph. This allows one to apply GCNs not only in scenarios where the given graph is incomplete or corrupted but also in those where a graph is not available. We conduct a series of experiments that analyze the behavior of the proposed method and demonstrate that it outperforms related methods by a significant margin.
Graph Neural Networks (GNNs) for representation learning of graphs broadly follow a neighborhood aggregation framework, where the representation vector of a node is computed by recursively aggregating and transforming feature vectors of its neighboring nodes. Many GNN variants have been proposed and have achieved state-of-the-art results on both node and graph classification tasks. However, despite GNNs revolutionizing graph representation learning, there is limited understanding of their representational properties and limitations. Here, we present a theoretical framework for analyzing the expressive power of GNNs in capturing different graph structures. Our results characterize the discriminative power of popular GNN variants, such as Graph Convolutional Networks and GraphSAGE, and show that they cannot learn to distinguish certain simple graph structures. We then develop a simple architecture that is provably the most expressive among the class of GNNs and is as powerful as the Weisfeiler-Lehman graph isomorphism test. We empirically validate our theoretical findings on a number of graph classification benchmarks, and demonstrate that our model achieves state-of-the-art performance.
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