Identity-Duplication Auditing in National-Scale Neuroimaging Repositories

Jiheng Li, Michael E. Kim, Trent M. Schwartz, Yuhan Cui, Gaurav Rudravaram +17

National-scale magnetic resonance imaging (MRI) repositories increasingly integrate data from different studies and institutions. However, subject identifiers assigned to study participants are typically specific to individual datasets, so the same person may appear under different identifiers when these datasets are aggregated, a problem we define as identity duplication. Such duplication can create leakage between training and test data and inflate apparent performance in downstream biomedical studies. Existing methods do not provide an end-to-end, image-based workflow to address this problem. In this work, we present HAPPEN, a human-in-the-loop pipeline for auditing identity duplication in T1-weighted brain MRI repositories. It combines SHA-256 fingerprinting for exact-duplicate detection with embeddings learned through supervised contrastive learning to retrieve near-duplicate candidates: pairs of non-identical scans that may originate from the same person. Retrieved pairs are reviewed as candidates in a locally hosted interface rather than automatically classified as duplicates. We deployed the workflow in a national-scale aggregated repository containing 95,129 scans and…