arXiv subjects

Pritam Dey

Publications and source records attributed to Pritam Dey.

6 recordsLinked to original sources

arXiv2026

JASPER: Joint Bayesian Analysis of Spatial Expression via Regression

Spatially resolved transcriptomics is a fast-developing set of technologies that enables the measurement of localized gene expression across spatial locations in a sample. Detecting spatially varying genes is critical for analyzing such data, yet existing methods often fail to account for inter-gene correlations, leading to inflated false positive and false negative rates. Additionally, most prominent methods rely on predefined spatial covariance kernels, making them sensitive to the complexity of spatial expression patterns. Motivated by a human breast cancer dataset, we address these limitations in existing literature through JASPER (Joint Bayesian Analysis of SPatial Expression via Regression), a Bayesian framework that jointly models spatial expression patterns across multiple genes using a spatial basis function regression approach. We demonstrate the superior performance of JASPER compared to existing methods in several real-world spatial transcriptomic datasets and supporting simulation experiments. JASPER identifies genes with stronger spatial correlation and greater biological relevance, as validated by overlap comparison, enrichment analysis, and pathway analysis using independent biological databases. Our results highlight the ability of JASPER to improve the statistical and biological interpretability of spatial transcriptomics data, making it a powerful tool for uncovering spatial gene expression patterns in complex biological systems.

stat.AP↗

arXiv2026

VaSST: Variational Inference for Symbolic Regression using Soft Symbolic Trees

Symbolic regression (SR) has gained recent traction in AI-driven scientific discovery for learning closed-form physical laws. Yet existing methods are dominated by heuristic search or data-intensive approaches that often assume low-noise regimes and lack principled uncertainty quantification, while fully probabilistic SR formulations remain scarce. We introduce a scalable probabilistic framework for SR, VaSST, based on variational inference. VaSST uses soft symbolic trees, a continuous relaxation of symbolic expression trees in which discrete operator and feature assignments are replaced by probability distributions over allowable components. This transforms combinatorial symbolic search through an astronomically large expression space into efficient gradient-based optimization while preserving a coherent probabilistic interpretation. The learned soft representations induce posterior distributions over symbolic structures, enabling uncertainty quantification across plausible symbolic forms through posterior-aware symbolic model selection. On simulated experiments and the Feynman Symbolic Regression Database, VaSST achieves strong structural recovery and predictive accuracy compared to state-of-the-art competing SR methods.

stat.ME↗

arXiv2025

Probabilistic Symbolic Regression for Equation Discovery via Operator-induced and Regularized Symbolic Forests

Symbolic regression has emerged as a powerful tool for artificial intelligence-driven scientific discovery by learning interpretable analytical expressions that reveal governing relationships directly from data. Existing methods, however, often rely on heuristic search, struggle to balance predictive accuracy with expression complexity in noisy settings, and offer limited characterization of symbolic uncertainty. Probabilistic approaches that address these challenges in a unified manner remain underexplored. We introduce a probabilistic symbolic regression framework that represents mathematical expressions as ensembles of symbolic trees. A regularizing prior over tree topology controls expression complexity, while an Occam's window-based posterior summary captures uncertainty across multiple plausible symbolic models. Given the limited existing theoretical treatment of symbolic regression, we develop posterior concentration guarantees when symbolic expressions approximate the underlying relationship arbitrarily well, with a near-parametric rate when an exact finite formula exists. Additionally, we establish a sharp oracle concentration result under symbolic misspecification. Comparisons of our proposed framework with state-of-the-art competitors demonstrate superior predictive accuracy, optimal symbolic complexity, and stable structural recovery when learning benchmark scientific equations, together with the identification of scientifically interpretable descriptor formulas in a challenging materials discovery application.

stat.ME↗

arXiv2025

A Generalized Tangent Approximation based Variational Inference Framework for Strongly Super-Gaussian Likelihoods

Variational inference, as an alternative to Markov chain Monte Carlo sampling, has played a transformative role in enabling scalable computation for complex Bayesian models. Nevertheless, existing approaches often depend on either rigid model-specific formulations or stochastic black-box optimization routines. Tangent approximation is a principled class of structured variational methods that exploits the geometry of the underlying probability model. However, its utility has largely been confined to logistic regression and related modeling regimes. In this article, we propose a novel variational framework based on tangent transformation for a broad class of probability models characterized by strongly super-Gaussian likelihoods. Our method leverages convex duality to construct tangent minorants of the log-likelihood, thereby inducing conjugacy with Gaussian priors over model parameters in an otherwise intractable setup. Under mild assumptions on the data-generating mechanism, we establish algorithmic convergence guarantees, a contribution that stands in contrast to the limited theoretical assurances typically available for black-box variational methods. Additionally, we derive near-minimax optimal bounds for the variational risk. Superior performance of our proposed methodology is illustrated on simulated and real-data scenarios that challenge state-of-the-art variational algorithms in terms of scalability and their ability to consistently capture complex underlying data structure.

stat.ME↗

arXiv2023

dame-flame: A Python Library Providing Fast Interpretable Matching for Causal Inference

dame-flame is a Python package for performing matching for observational causal inference on datasets containing discrete covariates. This package implements the Dynamic Almost Matching Exactly (DAME) and Fast Large-Scale Almost Matching Exactly (FLAME) algorithms, which match treatment and control units on subsets of the covariates. The resulting matched groups are interpretable, because the matches are made on covariates, and high-quality, because machine learning is used to determine which covariates are important to match on. DAME solves an optimization problem that matches units on as many covariates as possible, prioritizing matches on important covariates. FLAME approximates the solution found by DAME via a much faster backward feature selection procedure. The package provides several adjustable parameters to adapt the algorithms to specific applications, and can calculate treatment effect estimates after matching. Descriptions of these parameters, details on estimating treatment effects, and further examples, can be found in the documentation at https://almost-matching-exactly.github.io/DAME-FLAME-Python-Package/

cs.LG↗

arXiv2022

Outlier Detection for Multi-Network Data

It has become routine in neuroscience studies to measure brain networks for different individuals using neuroimaging. These networks are typically expressed as adjacency matrices, with each cell containing a summary of connectivity between a pair of brain regions. There is an emerging statistical literature describing methods for the analysis of such multi-network data in which nodes are common across networks but the edges vary. However, there has been essentially no consideration of the important problem of outlier detection. In particular, for certain subjects, the neuroimaging data are so poor quality that the network cannot be reliably reconstructed. For such subjects, the resulting adjacency matrix may be mostly zero or exhibit a bizarre pattern not consistent with a functioning brain. These outlying networks may serve as influential points, contaminating subsequent statistical analyses. We propose a simple Outlier DetectIon for Networks (ODIN) method relying on an influence measure under a hierarchical generalized linear model for the adjacency matrices. An efficient computational algorithm is described, and ODIN is illustrated through simulations and an application to data from the UK Biobank. ODIN was successful in identifying moderate to extreme outliers. Removing such outliers can significantly change inferences in downstream applications.

stat.ME↗