Searcharxiv⌕ Search
Home/Archive/arXiv

arXiv · 2609.14902

Shapley Value Estimation for Multi-Site Data with Blockwise-Missing Features

Siqi Li·Wangxuan Fan·Yiming Li·Doudou Zhou·Molei Liu
View original source ↗Read source document ↗Export metadata ↓

Abstract

Shapley value (SV)-based methods are the prevailing framework for feature attribution in machine learning, yet existing population-level Shapley estimators generally assume that observations used to evaluate the coalitional game are fully observed under a common feature space. This assumption is routinely violated in multi-site studies across biomedicine, social science, and environmental monitoring, where institutions record different features under different protocols, producing systematic blockwise missingness across sources. We first show that the standard remedy of imputing missing features before computing Shapley values introduces systematic, coalition-dependent bias into the resulting attributions. We then propose \textbf{FUSHAP} (\textbf{Fu}sion \textbf{Sh}apley \textbf{A}ttribution from \textbf{P}artially-observed data), a method that leverages partially-observed auxiliary sites to reduce the variance of a preliminary single-site Shapley estimate without imputation. A permutation-based screening step detects and excludes sites whose data distributions are incompatible with the target population. In synthetic experiments, FUSHAP achieves $3$--$8\times$ lower MSE than the single-site estimator and $2$--$3\times$ lower MSE than imputation baselines without incurring imputation-induced bias, and the screening procedure identifies misaligned sites with $82\%$ power at moderate misalignment and $100\%$ for strong misalignment. On multi-site air quality and multi-center clinical data, FUSHAP reduces MSE by approximately $3$--$7\times$ relative to the single-site estimator; in the clinical application, standard imputation can increase MSE above the single-site baseline.

Explore related subjects

stat.MLcs.LG

Keep this discovery

Explore connections, maps & timelines

BibTeXRIS

Siqi Li, Wangxuan Fan, Yiming Li, Doudou Zhou, Molei Liu. 2026-09-14. Shapley Value Estimation for Multi-Site Data with Blockwise-Missing Features. https://arxiv.org/abs/2609.14902

Cite the original work for its findings. Save a collection to share your selection of sources.

KEEP EXPLORING

Related papers

arXiv2026

Robust Mixture Models for Algorithmic Fairness Under Latent Heterogeneity

Machine learning models optimized for average performance can perform poorly on vulnerable subpopulations. Existing approaches often rely on groups specified in advance, yet fairness-relevant subgroup structure may be latent, intersectional, and driven by complex interactions among continuous and discrete attributes. We introduce \textbf{ROME} (\textbf{\underline{RO}}bust \textbf{\underline{M}}ixture \textbf{\underline{E}}nsemble), a framework that learns latent group structure while optimizing worst-group predictive performance. ROME connects latent-variable modeling with distributionally robust optimization (DRO) through two complementary approaches: an Expectation-Maximization formulation with robust aggregation for linear models and a neural Mixture-of-Experts formulation for nonlinear settings. Across simulations and three real-world regression datasets, ROME improves worst-group performance while maintaining competitive overall accuracy, including in comparisons with established group-aware and group-label-free robust learning methods. ROME provides a flexible approach to robust prediction when fairness-relevant attributes are available for subgroup discovery but their direct use in group-specific outcome models is restricted.

stat.ML↗
arXiv2026

Boltzmann generators for amorphous particle systems

Sampling configurations in thermodynamic equilibrium is a long-standing challenge in statistical physics. Boltzmann generators address this problem by employing generative models to propose independent configurations, which are then reweighted via importance sampling using exact likelihood evaluations. Recent Boltzmann Generators based on continuous normalizing flows and flow matching have achieved significant success for particle systems and biomolecules. However, these approaches have not been extended to amorphous materials (glasses), for which equilibrium sampling is notoriously slow. Because of their disordered structure, the invariances and geometrical constraints of amorphous materials differ from those of crystals and biomolecules, preventing the direct use of existing generative models. Here, we develop Boltzmann Generators tailored to amorphous materials by building the required equivariances directly into Riemannian stochastic interpolants. Our framework incorporates periodic boundary conditions and particle symmetries using equivariant graph neural networks. Numerical experiments demonstrate that enforcing physical symmetries significantly improves the accuracy of Boltzmann Generators, but also reveal an intrinsic limitation of the continuous-flow formulation: accumulated numerical errors during likelihood integration break time-reversibility, compromising exact thermodynamic reweighting. These results reveal a fundamental challenge for continuous-flow generative models in statistical mechanics and call for alternative approaches that preserve exact thermodynamic consistency.

stat.ML↗
arXiv2026

Diagonalized Attention for Individualized Regression: Latent-Row Localization and Prediction

Modern text and image representations are often matrix-valued, with rows corresponding to tokens, patches, or other local feature vectors. Predictive information is often sparse but sample-specific, making classical sparse regression methods with a common support poorly suited to this heterogeneity. This paper formalizes an individualized sparse regression framework for matrix-valued covariates in which each observation has its own rows of interest, while the associated regression effects are shared across the population. To estimate this model, we introduce a diagonalized attention mechanism that uses query--key scores to localize sample-specific signal rows and a value matrix for downstream regression. The proposed method has a parameter dimension independent of sample size and can identify rows of interest for new observations without their responses. We establish existence theorems showing that, under suitable score-separation and concentration conditions, single-head and multi-head diagonalized attention models recover the latent rows with high probability, yielding prediction risk bounds. Our theory therefore provides a statistical explanation of how attention-based scoring localizes sample-specific signals in heterogeneous matrix-valued data. Simulations demonstrate strong prediction and localization in regression and misspecified classification across varying sample sizes, dimensions, and signal cardinalities. Real sentiment analyses show improved classification accuracy and interpretable token selection.

stat.ML↗