George Stepaniants

Enric Boix-Adsera, Hannah Lawrence, George Stepaniants et al.

Comparing the representations learned by different neural networks has recently emerged as a key tool to understand various architectures and ultimately optimize them. In this work, we introduce GULP, a family of distance measures between representations that is explicitly motivated by downstream predictive tasks. By construction, GULP provides uniform control over the difference in prediction performance between two representations, with respect to regularized linear prediction tasks. Moreover, it satisfies several desirable structural properties, such as the triangle inequality and invariance under orthogonal transformations, and thus lends itself to data embedding and visualization. We extensively evaluate GULP relative to other methods, and demonstrate that it correctly differentiates between architecture families, converges over the course of training, and captures generalization performance on downstream linear tasks.

Marie Breeur, George Stepaniants, Pekka Keski-Rahkonen et al.

Untargeted metabolomic profiling through liquid chromatography-mass spectrometry (LC-MS) measures a vast array of metabolites within biospecimens, advancing drug development, disease diagnosis, and risk prediction. However, the low throughput of LC-MS poses a major challenge for biomarker discovery, annotation, and experimental comparison, necessitating the merging of multiple datasets. Current data pooling methods encounter practical limitations due to their vulnerability to data variations and hyperparameter dependence. Here we introduce GromovMatcher, a flexible and user-friendly algorithm that automatically combines LC-MS datasets using optimal transport. By capitalizing on feature intensity correlation structures, GromovMatcher delivers superior alignment accuracy and robustness compared to existing approaches. This algorithm scales to thousands of features requiring minimal hyperparameter tuning. Manually curated datasets for validating alignment algorithms are limited in the field of untargeted metabolomics, and hence we develop a dataset split procedure to generate pairs of validation datasets to test the alignments produced by GromovMatcher and other methods. Applying our method to experimental patient studies of liver and pancreatic cancer, we discover shared metabolic features related to patient alcohol intake, demonstrating how GromovMatcher facilitates the search for biomarkers associated with lifestyle risk factors linked to several cancer types.

Yanjun Han, Philippe Rigollet, George Stepaniants

Feature alignment methods are used in many scientific disciplines for data pooling, annotation, and comparison. As an instance of a permutation learning problem, feature alignment presents significant statistical and computational challenges. In this work, we propose the covariance alignment model to study and compare various alignment methods and establish a minimax lower bound for covariance alignment that has a non-standard dimension scaling because of the presence of a nuisance parameter. This lower bound is in fact minimax optimal and is achieved by a natural quasi MLE. However, this estimator involves a search over all permutations which is computationally infeasible even when the problem has moderate size. To overcome this limitation, we show that the celebrated Gromov-Wasserstein algorithm from optimal transport which is more amenable to fast implementation even on large-scale problems is also minimax optimal. These results give the first statistical justification for the deployment of the Gromov-Wasserstein algorithm in practice.

Kaushik Bhattacharya, Lianghao Cao, George Stepaniants et al.

We propose and study a neural operator framework for learning memory- and material microstructure-dependent constitutive laws for heterogeneous materials. We work in the two-scale setting where homogenization theory provides a systematic approach to deriving macroscale constitutive laws, obviating the need to resolve complex microstructure repeatedly. However, the unit cell problems defining these constitutive models are typically not amenable to explicit evaluation. It is therefore of interest to learn constitutive models from data generated by the unit cell problem. Our proposed framework models homogenized constitutive laws with both memory- and microstructure-dependence through the use of Markovian recurrent and Fourier neural operators. The homogenization problem for Kelvin-Voigt viscoelastic materials is studied to provide firm theoretical foundations for our model. The theoretical properties of the cell problem in this Kelvin-Voigt setting motivate the proposed learning framework; and are also used to prove a universal approximation theorem for the learned macroscale constitutive model. Numerical experiments show that the proposed learning framework accurately learns memory- and microstructure-dependent viscoelastic and elasto-viscoplastic constitutive models, beyond the setting of the theory. Furthermore, we show that the learned constitutive models can be successfully deployed in macroscale simulation of material deformation for different microstructures without retraining.