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Biological neural networks seem qualitatively superior (e.g. in learning, flexibility, robustness) to current artificial like Multi-Layer Perceptron (MLP) or Kolmogorov-Arnold Network (KAN). Simultaneously, in contrast to them: biological have fundamentally multidirectional signal propagation \cite{axon}, also of probability distributions e.g. for uncertainty estimation, and are believed not being able to use standard backpropagation training \cite{backprop}. There are proposed novel artificial neurons based on HCR (Hierarchical Correlation Reconstruction) allowing to remove the above low level differences: with neurons containing local joint distribution model (of its connections), representing joint density on normalized variables as just linear combination of $(f_\mathbf{j})$ orthonormal polynomials: $\rho(\mathbf{x})=\sum_{\mathbf{j}\in B} a_\mathbf{j} f_\mathbf{j}(\mathbf{x})$ for $\mathbf{x} \in [0,1]^d$ and $B\subset \mathbb{N}^d$ some chosen basis. By various index summations of such $(a_\mathbf{j})_{\mathbf{j}\in B}$ tensor as neuron parameters, we get simple formulas for e.g. conditional expected values for propagation in any direction, like $E[x|y,z]$, $E[y|x]$, which degenerate to KAN-like parametrization if restricting to pairwise dependencies. Such HCR network can also propagate probability distributions (also joint) like $\rho(y,z|x)$. It also allows for additional training approaches, like direct $(a_\mathbf{j})$ estimation, through tensor decomposition, or more biologically plausible information bottleneck training: layers directly influencing only neighbors, optimizing content to maximize information about the next layer, and minimizing about the previous to remove noise, extract crucial information.

We study the geometry of the algebraic set of tuples of composable matrices which multiply to a fixed matrix, using tools from the theory of quiver representations. In particular, we determine its codimension $C$ and the number $\theta$ of its top-dimensional irreducible components. Our solution is presented in three forms: a Poincar\'e series in equivariant cohomology, a quadratic integer program, and an explicit formula. In the course of the proof, we establish a surprising property: $C$ and $\theta$ are invariant under arbitrary permutations of the dimension vector. We also show that the real log-canonical threshold of the function taking a tuple to the square Frobenius norm of its product is $C/2$. These results are motivated by the study of deep linear neural networks in machine learning and Bayesian statistics (singular learning theory) and show that deep linear networks are in a certain sense ``mildly singular".

This manuscript describes the notions of blocker and interdiction applied to well-known optimization problems. The main interest of these two concepts is the capability to analyze the existence of a combinatorial structure after some modifications. We focus on graph modification, like removing vertices or links in a network. In the interdiction version, we have a budget for modification to reduce as much as possible the size of a given combinatorial structure. Whereas, for the blocker version, we minimize the number of modifications such that the network does not contain a given combinatorial structure. Blocker and interdiction problems have some similarities and can be applied to well-known optimization problems. We consider matching, connectivity, shortest path, max flow, and clique problems. For these problems, we analyze either the blocker version or the interdiction one. Applying the concept of blocker or interdiction to well-known optimization problems can change their complexities. Some optimization problems become harder when one of these two notions is applied. For this reason, we propose some complexity analysis to show when an optimization problem, or the associated decision problem, becomes harder. Another fundamental aspect developed in the manuscript is the use of exact methods to tackle these optimization problems. The main way to solve these problems is to use integer linear programming to model them. An interesting aspect of integer linear programming is the possibility to analyze theoretically the strength of these models, using cutting planes. For most of the problems studied in this manuscript, a polyhedral analysis is performed to prove the strength of inequalities or describe new families of inequalities. The exact algorithms proposed are based on Branch-and-Cut or Branch-and-Price algorithm, where dedicated separation and pricing algorithms are proposed.

The expressive power of message-passing graph neural networks (MPNNs) is reasonably well understood, primarily through combinatorial techniques from graph isomorphism testing. However, MPNNs' generalization abilities -- making meaningful predictions beyond the training set -- remain less explored. Current generalization analyses often overlook graph structure, limit the focus to specific aggregation functions, and assume the impractical, hard-to-optimize $0$-$1$ loss function. Here, we extend recent advances in graph similarity theory to assess the influence of graph structure, aggregation, and loss functions on MPNNs' generalization abilities. Our empirical study supports our theoretical insights, improving our understanding of MPNNs' generalization properties.

We hypothesize that due to the greedy nature of learning in multi-modal deep neural networks, these models tend to rely on just one modality while under-fitting the other modalities. Such behavior is counter-intuitive and hurts the models' generalization, as we observe empirically. To estimate the model's dependence on each modality, we compute the gain on the accuracy when the model has access to it in addition to another modality. We refer to this gain as the conditional utilization rate. In the experiments, we consistently observe an imbalance in conditional utilization rates between modalities, across multiple tasks and architectures. Since conditional utilization rate cannot be computed efficiently during training, we introduce a proxy for it based on the pace at which the model learns from each modality, which we refer to as the conditional learning speed. We propose an algorithm to balance the conditional learning speeds between modalities during training and demonstrate that it indeed addresses the issue of greedy learning. The proposed algorithm improves the model's generalization on three datasets: Colored MNIST, Princeton ModelNet40, and NVIDIA Dynamic Hand Gesture.

The remarkable practical success of deep learning has revealed some major surprises from a theoretical perspective. In particular, simple gradient methods easily find near-optimal solutions to non-convex optimization problems, and despite giving a near-perfect fit to training data without any explicit effort to control model complexity, these methods exhibit excellent predictive accuracy. We conjecture that specific principles underlie these phenomena: that overparametrization allows gradient methods to find interpolating solutions, that these methods implicitly impose regularization, and that overparametrization leads to benign overfitting. We survey recent theoretical progress that provides examples illustrating these principles in simpler settings. We first review classical uniform convergence results and why they fall short of explaining aspects of the behavior of deep learning methods. We give examples of implicit regularization in simple settings, where gradient methods lead to minimal norm functions that perfectly fit the training data. Then we review prediction methods that exhibit benign overfitting, focusing on regression problems with quadratic loss. For these methods, we can decompose the prediction rule into a simple component that is useful for prediction and a spiky component that is useful for overfitting but, in a favorable setting, does not harm prediction accuracy. We focus specifically on the linear regime for neural networks, where the network can be approximated by a linear model. In this regime, we demonstrate the success of gradient flow, and we consider benign overfitting with two-layer networks, giving an exact asymptotic analysis that precisely demonstrates the impact of overparametrization. We conclude by highlighting the key challenges that arise in extending these insights to realistic deep learning settings.

The growing energy and performance costs of deep learning have driven the community to reduce the size of neural networks by selectively pruning components. Similarly to their biological counterparts, sparse networks generalize just as well, if not better than, the original dense networks. Sparsity can reduce the memory footprint of regular networks to fit mobile devices, as well as shorten training time for ever growing networks. In this paper, we survey prior work on sparsity in deep learning and provide an extensive tutorial of sparsification for both inference and training. We describe approaches to remove and add elements of neural networks, different training strategies to achieve model sparsity, and mechanisms to exploit sparsity in practice. Our work distills ideas from more than 300 research papers and provides guidance to practitioners who wish to utilize sparsity today, as well as to researchers whose goal is to push the frontier forward. We include the necessary background on mathematical methods in sparsification, describe phenomena such as early structure adaptation, the intricate relations between sparsity and the training process, and show techniques for achieving acceleration on real hardware. We also define a metric of pruned parameter efficiency that could serve as a baseline for comparison of different sparse networks. We close by speculating on how sparsity can improve future workloads and outline major open problems in the field.

Deep learning is usually described as an experiment-driven field under continuous criticizes of lacking theoretical foundations. This problem has been partially fixed by a large volume of literature which has so far not been well organized. This paper reviews and organizes the recent advances in deep learning theory. The literature is categorized in six groups: (1) complexity and capacity-based approaches for analyzing the generalizability of deep learning; (2) stochastic differential equations and their dynamic systems for modelling stochastic gradient descent and its variants, which characterize the optimization and generalization of deep learning, partially inspired by Bayesian inference; (3) the geometrical structures of the loss landscape that drives the trajectories of the dynamic systems; (4) the roles of over-parameterization of deep neural networks from both positive and negative perspectives; (5) theoretical foundations of several special structures in network architectures; and (6) the increasingly intensive concerns in ethics and security and their relationships with generalizability.

A key requirement for the success of supervised deep learning is a large labeled dataset - a condition that is difficult to meet in medical image analysis. Self-supervised learning (SSL) can help in this regard by providing a strategy to pre-train a neural network with unlabeled data, followed by fine-tuning for a downstream task with limited annotations. Contrastive learning, a particular variant of SSL, is a powerful technique for learning image-level representations. In this work, we propose strategies for extending the contrastive learning framework for segmentation of volumetric medical images in the semi-supervised setting with limited annotations, by leveraging domain-specific and problem-specific cues. Specifically, we propose (1) novel contrasting strategies that leverage structural similarity across volumetric medical images (domain-specific cue) and (2) a local version of the contrastive loss to learn distinctive representations of local regions that are useful for per-pixel segmentation (problem-specific cue). We carry out an extensive evaluation on three Magnetic Resonance Imaging (MRI) datasets. In the limited annotation setting, the proposed method yields substantial improvements compared to other self-supervision and semi-supervised learning techniques. When combined with a simple data augmentation technique, the proposed method reaches within 8% of benchmark performance using only two labeled MRI volumes for training, corresponding to only 4% (for ACDC) of the training data used to train the benchmark.

Graph representation learning for hypergraphs can be used to extract patterns among higher-order interactions that are critically important in many real world problems. Current approaches designed for hypergraphs, however, are unable to handle different types of hypergraphs and are typically not generic for various learning tasks. Indeed, models that can predict variable-sized heterogeneous hyperedges have not been available. Here we develop a new self-attention based graph neural network called Hyper-SAGNN applicable to homogeneous and heterogeneous hypergraphs with variable hyperedge sizes. We perform extensive evaluations on multiple datasets, including four benchmark network datasets and two single-cell Hi-C datasets in genomics. We demonstrate that Hyper-SAGNN significantly outperforms the state-of-the-art methods on traditional tasks while also achieving great performance on a new task called outsider identification. Hyper-SAGNN will be useful for graph representation learning to uncover complex higher-order interactions in different applications.