ICLR 2025 Papers

Unsupervised representation learning has seen tremendous progress. However, it is constrained by its reliance on domain specific stationarity and topology, a limitation not found in biological intelligence systems. For instance, unlike computer vision, human vision can process visual signals sampled from highly irregular and non-stationary sensors. We introduce a novel framework that learns from high-dimensional data without prior knowledge of stationarity and topology. Our model, abbreviated as URLOST, combines a learnable self-organizing layer, spectral clustering, and a masked autoencoder (MAE). We evaluate its effectiveness on three diverse data modalities including simulated biological vision data, neural recordings from the primary visual cortex, and gene expressions. Compared to state-of-the-art unsupervised learning methods like SimCLR and MAE, our model excels at learning meaningful representations across diverse modalities without knowing their stationarity or topology. It also outperforms other methods that are not dependent on these factors, setting a new benchmark in the field. We position this work as a step toward unsupervised learning methods capable of generalizing across diverse high-dimensional data modalities.

Advanced sensors and IoT devices have improved the monitoring and control of complex industrial enterprises. They have also created an interdependent fabric of geographically distributed process operations (clients) across these enterprises. Granger causality is an effective approach to detect and quantify interdependencies by examining how the state of one client affects the states of others over time. Understanding these interdependencies helps capture how localized events, such as faults and disruptions, can propagate throughout the system, potentially leading to widespread operational impacts. However, the large volume and complexity of industrial data present significant challenges in effectively modeling these interdependencies. This paper develops a federated approach to learning Granger causality. We utilize a linear state space system framework that leverages low-dimensional state estimates to analyze interdependencies. This helps address bandwidth limitations and the computational burden commonly associated with centralized data processing. We propose augmenting the client models with the Granger causality information learned by the server through a Machine Learning (ML) function. We examine the co-dependence between the augmented client and server models and reformulate the framework as a standalone ML algorithm providing conditions for its sublinear and linear convergence rates. We also study the convergence of the framework to a centralized oracle model. Moreover, we include a differential privacy analysis to ensure data security while preserving causal insights. Using synthetic data, we conduct comprehensive experiments to demonstrate the robustness of our approach to perturbations in causality, the scalability to the size of communication, number of clients, and the dimensions of raw data. We also evaluate the performance on two real-world industrial control system datasets by reporting the volume of data saved by decentralization.

Deep learning has achieved significant success by training on balanced datasets. However, real-world data often exhibit long-tailed distributions. Empirical studies have revealed that long-tailed data skew data representations, where head classes dominate the feature space. Many methods have been proposed to empirically rectify the skewed representations. However, a clear understanding of the underlying cause and extent of this skew remains lacking. In this study, we provide a comprehensive theoretical analysis to elucidate how long-tailed data affect feature distributions, deriving the conditions under which centers of tail classes shrink together or even collapse into a single point. This results in overlapping feature distributions of tail classes, making features in the overlapping regions inseparable. Moreover, we demonstrate that merely empirically correcting the skewed representations of the training data is insufficient to separate the overlapping features due to distribution shifts between the training and real data. To address these challenges, we propose a novel long-tailed representation learning method, FeatRecon. It reconstructs the feature space in order to arrange features from different classes into symmetricial and linearly separable regions. This, in turn, enhances the model’s robustness to long-tailed data. We validate the effectiveness of our method through extensive experiments on the CIFAR-10-LT, CIFAR-100-LT, ImageNet-LT, and iNaturalist 2018 datasets.

The visual representation of a pre-trained model prioritizes the classifiability on downstream tasks, while the widespread applications for pre-trained visual models have posed new requirements for representation interpretability. However, it remains unclear whether the pre-trained representations can achieve high interpretability and classifiability simultaneously. To answer this question, we quantify the representation interpretability by leveraging its correlation with the ratio of interpretable semantics within the representations. Given the pre-trained representations, only the interpretable semantics can be captured by interpretations, whereas the uninterpretable part leads to information loss. Based on this fact, we propose the Inherent Interpretability Score (IIS) that evaluates the information loss, measures the ratio of interpretable semantics, and quantifies the representation interpretability. In the evaluation of the representation interpretability with different classifiability, we surprisingly discover that the interpretability and classifiability are positively correlated, i.e., representations with higher classifiability provide more interpretable semantics that can be captured in the interpretations. This observation further supports two benefits to the pre-trained representations. First, the classifiability of representations can be further improved by fine-tuning with interpretability maximization. Second, with the classifiability improvement for the representations, we obtain predictions based on their interpretations with less accuracy degradation. The discovered positive correlation and corresponding applications show that practitioners can unify the improvements in interpretability and classifiability for pre-trained vision models. Codes are available at https://github.com/ssfgunner/IIS.

We present a self-supervised framework that learns population-level codes for arbitrary ensembles of neural recordings at scale. We address key challenges in scaling models with neural time-series data, namely, sparse and variable electrode distribution across subjects and datasets. The Population Transformer (PopT) stacks on top of pretrained temporal embeddings and enhances downstream decoding by enabling learned aggregation of multiple spatially-sparse data channels. The pretrained PopT lowers the amount of data required for downstream decoding experiments, while increasing accuracy, even on held-out subjects and tasks. Compared to end-to-end methods, this approach is computationally lightweight, while achieving similar or better decoding performance. We further show how our framework is generalizable to multiple time-series embeddings and neural data modalities. Beyond decoding, we interpret the pretrained and fine-tuned PopT models to show how they can be used to extract neuroscience insights from large amounts of data. We release our code as well as a pretrained PopT to enable off-the-shelf improvements in multi-channel intracranial data decoding and interpretability. Code is available at https://github.com/czlwang/PopulationTransformer.

The interrogation of cellular states and interactions in immunology research is an ever-evolving task, requiring adaptation to the current levels of high dimensionality. Cytometry enables high-dimensional profiling of immune cells, but its analysis is hindered by the complexity and variability of the data. We present MAESTRO, a self-supervised set representation learning model that generates vector representations of set-structured data, which we apply to learn immune profiles from cytometry data. Unlike previous studies only learn cell-level representations, whereas MAESTRO uses all of a sample's cells to learn a set representation. MAESTRO leverages specialized attention mechanisms to handle sets of variable number of cells and ensure permutation invariance, coupled with an online tokenizer by self-distillation framework. We benchmarked our model against existing cytometry approaches and other existing machine learning methods that have never been applied in cytometry. Our model outperforms existing approaches in retrieving cell-type proportions and capturing clinically relevant features for downstream tasks such as disease diagnosis and immune cell profiling.

It has recently been argued that AI models' representations are becoming aligned as their scale and performance increase. Empirical analyses have been designed to support this idea and conjecture the possible alignment of different representations toward a shared statistical model of reality. In this paper, we propose a learning-theoretic perspective to representation alignment. First, we review and connect different notions of alignment based on metric, probabilistic, and spectral ideas. Then, we focus on stitching, a particular approach to understanding the interplay between different representations in the context of a task. Our main contribution here is to relate the properties of stitching to the kernel alignment of the underlying representation. Our results can be seen as a first step toward casting representation alignment as a learning-theoretic problem.

Why do biological and artificial neurons sometimes modularise, each encoding a single meaningful variable, and sometimes entangle their representation of many variables? In this work, we develop a theory of when biologically inspired networks---those that are nonnegative and energy efficient---modularise their representation of source variables (sources). We derive necessary and sufficient conditions on a sample of sources that determine whether the neurons in an optimal biologically-inspired linear autoencoder modularise. Our theory applies to any dataset, extending far beyond the case of statistical independence studied in previous work. Rather we show that sources modularise if their support is ``sufficiently spread''. From this theory, we extract and validate predictions in a variety of empirical studies on how data distribution affects modularisation in nonlinear feedforward and recurrent neural networks trained on supervised and unsupervised tasks. Furthermore, we apply these ideas to neuroscience data, showing that range independence can be used to understand the mixing or modularising of spatial and reward information in entorhinal recordings in seemingly conflicting experiments. Further, we use these results to suggest alternate origins of mixed-selectivity, beyond the predominant theory of flexible nonlinear classification. In sum, our theory prescribes precise conditions on when neural activities modularise, providing tools for inducing and elucidating modular representations in brains and machines.

While there has been significant progress in evaluating and comparing different representations for learning on protein data, the role of surface-based learning approaches remains not well-understood. In particular, there is a lack of direct and fair benchmark comparison between the best available surface-based learning methods against alternative representations such as graphs. Moreover, the few existing surface-based approaches either use surface information in isolation or, at best, perform global pooling between surface and graph-based architectures. In this work, we fill this gap by first adapting a state-of-the-art surface encoder for protein learning tasks. We then perform a direct and fair comparison of the resulting method against alternative approaches within the Atom3D benchmark, highlighting the limitations of pure surface-based learning. Finally, we propose an integrated approach, which allows learned feature sharing between graphs and surface representations on the level of nodes and vertices \textit{across all layers}. We demonstrate that the resulting architecture achieves state-of-the-art results on all tasks in the Atom3D benchmark, while adhering to the strict benchmark protocol, as well as more broadly on binding site identification and binding pocket classification. Furthermore, we use coarsened surfaces and optimize our approach for efficiency, making our tool competitive in training and inference time with existing techniques. Code can be found online: https://github.com/Vincentx15/atomsurf

Generative models can now produce photorealistic synthetic data which is virtually indistinguishable from the real data used to train it. This is a significant evolution over previous models which could produce reasonable facsimiles of the training data, but ones which could be visually distinguished from the training data by human evaluation. Recent work on OOD detection has raised doubts that generative model likelihoods are optimal OOD detectors due to issues involving likelihood misestimation, entropy in the generative process, and typicality. We speculate that generative OOD detectors also failed because their models focused on the pixels rather than the semantic content of the data, leading to failures in near-OOD cases where the pixels may be similar but the information content is significantly different. We hypothesize that estimating typical sets using self-supervised learners leads to better OOD detectors. We introduce a novel approach that leverages representation learning, and informative summary statistics based on manifold estimation, to address all of the aforementioned issues. Our method outperforms other unsupervised approaches and achieves state-of-the art performance on well-established challenging benchmarks, and new synthetic data detection tasks.

In this paper, we introduce SPA, a novel representation learning framework that emphasizes the importance of 3D spatial awareness in embodied AI. Our approach leverages differentiable neural rendering on multi-view images to endow a vanilla Vision Transformer (ViT) with intrinsic spatial understanding. We present the most comprehensive evaluation of embodied representation learning to date, covering 268 tasks across 8 simulators with diverse policies in both single-task and language-conditioned multi-task scenarios. The results are compelling: SPA consistently outperforms more than 10 state-of-the-art representation methods, including those specifically designed for embodied AI, vision-centric tasks, and multi-modal applications, while using less training data. Furthermore, we conduct a series of real-world experiments to confirm its effectiveness in practical scenarios. These results highlight the critical role of 3D spatial awareness for embodied representation learning. Our strongest model takes more than 6000 GPU hours to train and we are committed to open-sourcing all code and model weights to foster future research in embodied representation learning.

Learning with multiple modalities has recently demonstrated significant gains in many domains by maximizing the shared information across modalities. However, the current approaches strongly rely on high-quality paired datasets, which allow co-training from the paired labels from different modalities. In this context, we raise a pivotal question: Can a model with one modality synergize the training of other models with the different modalities, even without the paired multimodal labels? Our answer is 'Yes'. As a figurative description, we argue that a writer, i.e., a language model, can promote the training of a painter, i.e., a visual model, even without the paired ground truth of text and image. We theoretically argue that a superior representation can be achieved by the synergy between two different modalities without paired supervision. As proofs of concept, we broadly confirm the considerable performance gains from the synergy among visual, language, and audio models. From a theoretical viewpoint, we first establish a mathematical foundation of the synergy between two different modality models, where each one is trained with its own modality. From a practical viewpoint, our work aims to broaden the scope of multimodal learning to encompass the synergistic usage of single-modality models, relieving a strong limitation of paired supervision. The code is available at https://github.com/johnjaejunlee95/synergistic-multimodal.

Deep clustering has made remarkable progress in recent years. However, most existing deep clustering methods assume that distributions of different clusters are balanced or roughly balanced, which are not consistent with the common long-tailed distributions in reality. In nature, the datasets often follow long-tailed distributions, leading to biased models being trained with significant performance drop. Despite the widespread proposal of many long-tailed learning approaches with supervision information, research on long-tailed deep clustering remains almost uncharted. Unaware of the data distribution and sample labels, long-tailed deep clustering is highly challenging. To tackle this problem, we propose a novel contrastive mixup method for long-tailed deep clustering, named ConMix. The proposed method makes innovations to mixup representations in contrastive learning to enhance deep clustering in long-tailed scenarios. Neural networks trained with ConMix can learn more discriminative representations, thus achieve better long-tailed deep clustering performance. We theoretically prove that ConMix works through re-balancing loss for classes with different long-tailed degree. We evaluate our method on widely used benchmark datasets with different imbalance ratios, suggesting it outperforms many state-of-the-art deep clustering approaches. The code is available at https://github.com/LZX-001/ConMix.

Dense visual contrastive learning (DRL) shows promise for learning localized information in dense prediction tasks, but struggles with establishing pixel/patch correspondence across different views (cross-contrasting). Existing methods primarily rely on self-contrasting the same view with variations, limiting input variance and hindering downstream performance. This paper delves into the mechanisms of self-contrasting and cross-contrasting, identifying the crux of the issue: transforming discrete positional embeddings to continuous representations. To address the correspondence problem, we propose a Continuous Relative Rotary Positional Query ({\mname}), enabling patch-level representation learning. Our extensive experiments on standard datasets demonstrate state-of-the-art (SOTA) results. Compared to the previous SOTA method (PQCL), our approach achieves significant improvements on COCO: with 300 epochs of pretraining, {\mname} obtains \textbf{3.4\%} mAP$^{bb}$ and \textbf{2.1\%} mAP$^{mk}$ improvements for detection and segmentation tasks, respectively. Furthermore, {\mname} exhibits faster convergence, achieving \textbf{10.4\%} mAP$^{bb}$ and \textbf{7.9\%} mAP$^{mk}$ improvements over SOTA with just 40 epochs of pretraining.

Image smoothing is a fundamental technique in image processing, designed to eliminate perturbations and textures while preserving dominant structures. It plays a pivotal role in numerous high-level computer vision tasks. More recently, both traditional and deep learning-based smoothing methods have been developed. However, existing algorithms frequently encounter issues such as gradient reversals and halo artifacts. Furthermore, the smoothing strength of deep learning-based models, once trained, cannot be adjusted for adapting different complexity levels of textures. These limitations stem from the inability of previous approaches to achieve an optimal balance between smoothing intensity and edge preservation. Consequently, image smoothing while maintaining edge integrity remains a significant challenge. To address these challenges, we propose a novel edge-aware smoothing model that leverages a relative wavelet domain representation. Specifically, by employing wavelet transformation, we introduce a new measure, termed Relative Wavelet Domain Representation (RWDR), which effectively distinguishes between textures and structures. Additionally, we present an innovative edge-aware scale map that is incorporated into the adaptive bilateral filter, facilitating mutual guidance in the smoothing process. This paper provides complete theoretical derivations for solving the proposed non-convex optimization model. Extensive experiments substantiate that our method has a competitive superiority with previous algorithms in edge-preserving and artifact removal. Visual and numerical comparisons further validate the effectiveness and efficiency of our approach in several applications of image smoothing.

The dynamics of information diffusion within graphs is a critical open issue that heavily influences graph representation learning, especially when considering long-range propagation. This calls for principled approaches that control and regulate the degree of propagation and dissipation of information throughout the neural flow. Motivated by this, we introduce port-Hamiltonian Deep Graph Networks, a novel framework that models neural information flow in graphs by building on the laws of conservation of Hamiltonian dynamical systems. We reconcile under a single theoretical and practical framework both non-dissipative long-range propagation and non-conservative behaviors, introducing tools from mechanical systems to gauge the equilibrium between the two components. Our approach can be applied to general message-passing architectures, and it provides theoretical guarantees on information conservation in time. Empirical results prove the effectiveness of our port-Hamiltonian scheme in pushing simple graph convolutional architectures to state-of-the-art performance in long-range benchmarks.