Spectral Graph Pruning Against Over-Squashing and Over-Smoothing

Message Passing Graph Neural Networks are known to suffer from two problems that are sometimes believed to be diametrically opposed: over-squashing and over-smoothing. The former results from topological bottlenecks that hamper the information flow from distant nodes and are mitigated by spectral gap maximization, primarily, by means of edge additions. However, such additions often promote over-smoothing that renders nodes of different classes less distinguishable. Inspired by the Braess phenomenon, we argue that deleting edges can address over-squashing and over-smoothing simultaneously. This insight explains how edge deletions can improve generalization, thus connecting spectral gap optimization to a seemingly disconnected objective of reducing computational resources by pruning graphs for lottery tickets. To this end, we propose a more effective spectral gap optimization framework to add or delete edges and demonstrate its effectiveness on large heterophilic datasets.

Not all tickets are equal and we know it: Guiding pruning with domain-specific knowledge

Neural structure learning is of paramount importance for scientific discovery and interpretability. Yet, contemporary pruning algorithms that focus on computational resource efficiency face algorithmic barriers to select a meaningful model that aligns with domain expertise. To mitigate this challenge, we propose DASH, which guides pruning by available domain-specific structural information. In the context of learning dynamic gene regulatory network models, we show that DASH combined with existing general knowledge on interaction partners provides data-specific insights aligned with biology. For this task, we show on synthetic data with ground truth information and two real world applications the effectiveness of DASH, which outperforms competing methods by a large margin and provides more meaningful biological insights. Our work shows that domain specific structural information bears the potential to improve model-derived scientific insights.

Masks, Signs, And Learning Rate Rewinding

Learning Rate Rewinding (LRR) has been established as a strong variant of Iterative Magnitude Pruning (IMP) to find lottery tickets in deep overparameterized neural networks. While both iterative pruning schemes couple structure and parameter learning, understanding how LRR excels in both aspects can bring us closer to the design of more flexible deep learning algorithms that can optimize diverse sets of sparse architectures. To this end, we conduct experiments that disentangle the effect of mask learning and parameter optimization and how both benefit from overparameterization. The ability of LRR to flip parameter signs early and stay robust to sign perturbations seems to make it not only more effective in mask identification but also in optimizing diverse sets of masks, including random ones. In support of this hypothesis, we prove in a simplified single hidden neuron setting that LRR succeeds in more cases than IMP, as it can escape initially problematic sign configurations.

Are GATs Out of Balance?

While the expressive power and computational capabilities of graph neural networks (GNNs) have been theoretically studied, their optimization and learning dynamics, in general, remain largely unexplored. Our study undertakes the Graph Attention Network (GAT), a popular GNN architecture in which a node's neighborhood aggregation is weighted by parameterized attention coefficients. We derive a conservation law of GAT gradient flow dynamics, which explains why a high portion of parameters in GATs with standard initialization struggle to change during training. This effect is amplified in deeper GATs, which perform significantly worse than their shallow counterparts. To alleviate this problem, we devise an initialization scheme that balances the GAT network. Our approach i) allows more effective propagation of gradients and in turn enables trainability of deeper networks, and ii) attains a considerable speedup in training and convergence time in comparison to the standard initialization. Our main theorem serves as a stepping stone to studying the learning dynamics of positive homogeneous models with attention mechanisms.

Preserving local densities in low-dimensional embeddings

Low-dimensional embeddings and visualizations are an indispensable tool for analysis of high-dimensional data. State-of-the-art methods, such as tSNE and UMAP, excel in unveiling local structures hidden in high-dimensional data and are therefore routinely applied in standard analysis pipelines in biology. We show, however, that these methods fail to reconstruct local properties, such as relative differences in densities (Fig. 1) and that apparent differences in cluster size can arise from computational artifact caused by differing sample sizes (Fig. 2). Providing a theoretical analysis of this issue, we then suggest dtSNE, which approximately conserves local densities. In an extensive study on synthetic benchmark and real world data comparing against five state-of-the-art methods, we empirically show that dtSNE provides similar global reconstruction, but yields much more accurate depictions of local distances and relative densities.

How Erdös and Rényi Win the Lottery

Random masks define surprisingly effective sparse neural network models, as has been shown empirically. The resulting Erd\"os-R\'enyi (ER) random graphs can often compete with dense architectures and state-of-the-art lottery ticket pruning algorithms struggle to outperform them, even though the random baselines do not rely on computationally expensive pruning-training iterations but can be drawn initially without significant computational overhead. We offer a theoretical explanation of how such ER masks can approximate arbitrary target networks if they are wider by a logarithmic factor in the inverse sparsity $1 / \log(1/\text{sparsity})$. While we are the first to show theoretically and experimentally that random ER source networks contain strong lottery tickets, we also prove the existence of weak lottery tickets that require a lower degree of overparametrization than strong lottery tickets. These unusual results are based on the observation that ER masks are well trainable in practice, which we verify in experiments with varied choices of random masks. Some of these data-free choices outperform previously proposed random approaches on standard image classification benchmark datasets.

Dynamical Isometry for Residual Networks

The training success, training speed and generalization ability of neural networks rely crucially on the choice of random parameter initialization. It has been shown for multiple architectures that initial dynamical isometry is particularly advantageous. Known initialization schemes for residual blocks, however, miss this property and suffer from degrading separability of different inputs for increasing depth and instability without Batch Normalization or lack feature diversity. We propose a random initialization scheme, RISOTTO, that achieves perfect dynamical isometry for residual networks with ReLU activation functions even for finite depth and width. It balances the contributions of the residual and skip branches unlike other schemes, which initially bias towards the skip connections. In experiments, we demonstrate that in most cases our approach outperforms initialization schemes proposed to make Batch Normalization obsolete, including Fixup and SkipInit, and facilitates stable training. Also in combination with Batch Normalization, we find that RISOTTO often achieves the overall best result.

Convolutional and Residual Networks Provably Contain Lottery Tickets

The Lottery Ticket Hypothesis continues to have a profound practical impact on the quest for small scale deep neural networks that solve modern deep learning tasks at competitive performance. These lottery tickets are identified by pruning large randomly initialized neural networks with architectures that are as diverse as their applications. Yet, theoretical insights that attest their existence have been mostly focused on deep fully-connected feed forward networks with ReLU activation functions. We prove that also modern architectures consisting of convolutional and residual layers that can be equipped with almost arbitrary activation functions can contain lottery tickets with high probability.

Most Activation Functions Can Win the Lottery Without Excessive Depth

The strong lottery ticket hypothesis has highlighted the potential for training deep neural networks by pruning, which has inspired interesting practical and theoretical insights into how neural networks can represent functions. For networks with ReLU activation functions, it has been proven that a target network with depth $L$ can be approximated by the subnetwork of a randomly initialized neural network that has double the target's depth $2L$ and is wider by a logarithmic factor. We show that a depth $L+1$ network is sufficient. This result indicates that we can expect to find lottery tickets at realistic, commonly used depths while only requiring logarithmic overparametrization. Our novel construction approach applies to a large class of activation functions and is not limited to ReLUs.