SEEK-VEC: Robust Latent Structure Discovery via Ensemble Topic Modeling

Danning, R.; Ke, Z. T.; Ma, R.; Lin, X.

doi:10.64898/2025.12.12.693799

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bioRxiv · 10.64898/2025.12.12.693799

SEEK-VEC: Robust Latent Structure Discovery via Ensemble Topic Modeling

Danning, R.·Ke, Z. T.·Ma, R.·Lin, X.

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Abstract

Count data are ubiquitous across many applications in which understanding latent patterns is of interest. Topic modeling is a powerful tool for detecting latent structure in count data. However, standard topic modeling methods are often constrained by their restrictive assumptions, susceptible to noise, and sensitive to misspecification of the number of topics. Here, we introduce SEEK-VEC (Spectral Ensembling of topic models with Eigenscore for K-agnostic Vocabulary Embedding and Classification), an ensemble topic modeling framework that integrates insights from multiple candidate topic models through a spectral ensembling procedure. SEEK-VEC produces a meta-structure matrix containing prioritization scores and grouping scores that enable variable classification, interactive pattern discovery, and model diagnostics. Through simulations, we demonstrate that SEEK-VEC augments the performance of standard topic models for identifying important vocabulary words and understanding the relationships among them, particularly when signal strength is weak. We apply SEEK-VEC to the MADStat dataset of statistical abstracts and demonstrate its utility for evaluating the proposed interpretation of a topic model.

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Danning, R., Ke, Z. T., Ma, R., Lin, X.. 2025-12-14. SEEK-VEC: Robust Latent Structure Discovery via Ensemble Topic Modeling. https://doi.org/10.64898/2025.12.12.693799

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