Compositional brain scores capture Alzheimer's disease–specific structural brain patterns along the disease continuum

Abstract INTRODUCTION Traditional multivariate methods for neuroimaging studies overlook the interdependent relationship between brain features. This study addresses this gap by analyzing relative brain volumetric patterns to capture how Alzheimer's disease (AD) and genetics influence brain structure along the disease continuum. METHODS This study analyzed data from participants across the AD continuum from the Alzheimer's and Families (ALFA) and Alzheimer's Disease Neuroimaging Initiative (ADNI) studies. Compositional data analysis (CoDA) was exploited to examine relative brain volumetric variations that (1) were linked to different AD stages compared to cognitively unimpaired amyloid‐β–negative (CU A−) individuals and (2) varied by AD genetic risk. RESULTS Disease stage–specific compositional brain scores were identified, differentiating CU A− individuals from those in more advanced stages. Genetic risk–stratified models revealed a broader genetic landscape affecting brain morphology in AD, beyond the well‐known apolipoprotein E ε4 allele. DISCUSSION CoDA emerges as an alternative multivariate framework to deepen understanding of AD‐related structural changes and support targeted interventions for those at higher genetic risk. Highlights Compositional data analysis (CoDA) revealed the relative variation of brain region volumes, captured in compositional brain scores, capable of discerning between cognitively unimpaired amyloid‐β–negative individuals and subjects within other disease‐stage groups along the Alzheimer's disease (AD) continuum. CoDA also uncovered the genetic vulnerability of specific brain regions at each stage of the disease along the continuum. CoDA is capable of integrating magnetic resonance imaging data from two different cohorts without stringent requirements for harmonization. This translates as an advantage, compared to traditional methods, and strengthens the reliability of cross‐study comparisons by standardizing the data despite different labeling agreements, facilitating collaborative and large‐scale research. The algorithm is sensitive to AD‐specific effects, as the main compositional brain scores display little overlap with the age‐specific compositional brain score. CoDA provides a more accurate analysis of brain imaging data addressing its compositional nature, which can influence the development of targeted approaches, opening new avenues for enhancing brain health.