The Prognostic Value of Genetic Architectures in Cognitive Decline
TL;DR
The results suggest that data-driven genetic feature engineering provides an interpretable basis for inference regarding variance in global cognition, and implicate the utility of interpretable machine learning for translational dementia research and predictive clinical stratification.
Abstract
Background & Methods: The multifaceted physical nature of heritable cognitive impairment in dementia presents significant challenges for traditional linear frameworks attempting to model synergistic risk. While various loci are identified as contributing to neurocognitive disparities, the emergent phenotypic expression and associated predictive value relative to standard clinical baselines require further investigation. To facilitate dimensional reduction of complex genetic data into identifiable phenotypes, Generalized Low Rank Modeling (GLRM) and K-means clustering are applied to participant data from the Alzheimer's Disease Neuroimaging Initiative (ADNI). The utility of these derived archetypes and clusters is assessed, stratifying variance for Mini-Mental State Examination (MMSE) performance. Utilizing generalized additive modeling (GAM) and partial eta squared (p2) effect size, the derived genetic features are compared with other predictors including age, educational attainment, gender, and raw, genetic variant carriage dimensions. Results & Conclusion: In accordance with the hypothesized empirical regularity, age and education persist as primary predictors of MMSE performance. The unsupervised machine learning pipeline successfully identified a composite genetic cluster that emerged as an influential predictor in terms of relative magnitude (p2). Centroid analysis of the GLRM subspace indicated that a particular sub-population (Cluster 2) - defined by a substantial weighting on the EPHA1 target - demonstrated a statistically significant association with MMSE scores, relative to cluster 3. These results suggest that data-driven genetic feature engineering provides an interpretable basis for inference regarding variance in global cognition. By discovering multivariate genetic architecture, this modeling approach captures complexity often missed by individual clinical variable modeling. Such findings implicate the utility of interpretable machine learning for translational dementia research and predictive clinical stratification.