Jun Mo Kim

Haeil Lee, Hansang Lee, Junmo Kim

Mixed Sample Data Augmentation (MSDA) techniques, such as Mixup, CutMix, and PuzzleMix, have been widely acknowledged for enhancing performance in a variety of tasks. A previous study reported the class dependency of traditional data augmentation (DA), where certain classes benefit disproportionately compared to others. This paper reveals a class dependent effect of MSDA, where some classes experience improved performance while others experience degraded performance. This research addresses the issue of class dependency in MSDA and proposes an algorithm to mitigate it. The approach involves training on a mixture of MSDA and non-MSDA data, which not only mitigates the negative impact on the affected classes, but also improves overall accuracy. Furthermore, we provide in-depth analysis and discussion of why MSDA introduced class dependencies and which classes are most likely to have them.

Junmo Kim, Namkyeong Lee, Jiwon Kim et al.

Electronic health record (EHR) foundation models have been an area ripe for exploration with their improved performance in various medical tasks. Despite the rapid advances, there exists a fundamental limitation: Processing unseen medical codes out of vocabulary. This problem limits the generalizability of EHR foundation models and the integration of models trained with different vocabularies. To alleviate this problem, we propose a set of novel medical concept representations (MedRep) for EHR foundation models based on the observational medical outcome partnership (OMOP) common data model (CDM). For concept representation learning, we enrich the information of each concept with a minimal definition through large language model (LLM) prompts and complement the text-based representations through the graph ontology of OMOP vocabulary. Our approach outperforms the vanilla EHR foundation model and the model with a previously introduced medical code tokenizer in diverse prediction tasks. We also demonstrate the generalizability of MedRep through external validation.