Researcher profile

John A. Shepherd

John A. Shepherd contributes to research discovery and scholarly infrastructure.

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Published work

2 published item(s)

preprint2026arXiv

External Validation of Deep Learning Models for BI-RADS Breast Density Prediction from Ultrasound Images

We externally validated three deep learning models (DenseNet121, ViT-B/32, and ResNet50) for predicting mammographic breast density from breast ultrasound exams on an independent cohort. The external validation set comprised 2,000 ultrasound exams, including 500 cancer cases defined by an initial negative exam (BI-RADS 1 or 2) followed by a cancer diagnosis within 6 months to 10 years, and 1,500 negative controls matched by manufacturer and study year. Performance was measured using patient-level AUROC across four density categories: A (fatty), B (scattered), C (heterogeneous), and D (extremely dense). As a downstream assessment, we also evaluated 10-year risk prediction by incorporating age and AI-derived density into the Tyrer-Cuzick model and comparing performance against a reference model using age and mammography-reported density. All three models performed best in extremely dense breasts (AUROC 0.868-0.899), with strong performance in fatty (0.814-0.838) and scattered density (0.764-0.799), and lower performance in heterogeneously dense breasts (0.699-0.729). DenseNet121 achieved the highest overall performance (micro-averaged AUROC 0.885), and performance across categories was comparable between internal and external testing. For risk modeling, age combined with AI-derived density yielded a lower AUROC than age combined with mammography-reported density (0.541 vs. 0.570; p = 0.23), with no statistically significant difference. These findings indicate that deep learning models generalize well to external data with different racial composition for breast density assessment. While performance is strongest in extremely dense breasts, heterogeneously dense remains more challenging, highlighting the need for targeted optimization.

preprint2022arXiv

Quantitative Imaging Principles Improves Medical Image Learning

Fundamental differences between natural and medical images have recently favored the use of self-supervised learning (SSL) over ImageNet transfer learning for medical image applications. Differences between image types are primarily due to the imaging modality and medical images utilize a wide range of physics based techniques while natural images are captured using only visible light. While many have demonstrated that SSL on medical images has resulted in better downstream task performance, our work suggests that more performance can be gained. The scientific principles which are used to acquire medical images are not often considered when constructing learning problems. For this reason, we propose incorporating quantitative imaging principles during generative SSL to improve image quality and quantitative biological accuracy. We show that this training schema results in better starting states for downstream supervised training on limited data. Our model also generates images that validate on clinical quantitative analysis software.