Jun Ma

Jun Ma, Sumin Kim, Feifei Li et al.

Recent advances in segmentation foundation models have enabled accurate and efficient segmentation across a wide range of natural images and videos, but their utility to medical data remains unclear. In this work, we first present a comprehensive benchmarking of the Segment Anything Model 2 (SAM2) across 11 medical image modalities and videos and point out its strengths and weaknesses by comparing it to SAM1 and MedSAM. Then, we develop a transfer learning pipeline and demonstrate SAM2 can be quickly adapted to medical domain by fine-tuning. Furthermore, we implement SAM2 as a 3D slicer plugin and Gradio API for efficient 3D image and video segmentation. The code has been made publicly available at \url{https://github.com/bowang-lab/MedSAM}.

Fulong Ma, Weiqing Qi, Guoyang Zhao et al.

Data augmentation is one of the most common tools in deep learning, underpinning many recent advances including tasks such as classification, detection, and semantic segmentation. The standard approach to data augmentation involves simple transformations like rotation and flipping to generate new images. However, these new images often lack diversity along the main semantic dimensions within the data. Traditional data augmentation methods cannot alter high-level semantic attributes such as the presence of vehicles, trees, and buildings in a scene to enhance data diversity. In recent years, the rapid development of generative models has injected new vitality into the field of data augmentation. In this paper, we address the lack of diversity in data augmentation for road detection task by using a pre-trained text-to-image diffusion model to parameterize image-to-image transformations. Our method involves editing images using these diffusion models to change their semantics. In essence, we achieve this goal by erasing instances of real objects from the original dataset and generating new instances with similar semantics in the erased regions using the diffusion model, thereby expanding the original dataset. We evaluate our approach on the KITTI road dataset and achieve the best results compared to other data augmentation methods, which demonstrates the effectiveness of our proposed development.

Mohammed Baharoon, Jun Ma, Congyu Fang et al.

Multimodal Large Language Models (MLLMs) have emerged as a promising way to automate Radiology Report Generation (RRG). In this work, we systematically investigate the design space of 3D MLLMs, including visual input representation, projectors, Large Language Models (LLMs), and fine-tuning techniques for 3D CT report generation. We also introduce two knowledge-based report augmentation methods that improve performance on the GREEN score by up to 10%, achieving the 2nd place on the MICCAI 2024 AMOS-MM challenge. Our results on the 1,687 cases from the AMOS-MM dataset show that RRG is largely independent of the size of LLM under the same training protocol. We also show that larger volume size does not always improve performance if the original ViT was pre-trained on a smaller volume size. Lastly, we show that using a segmentation mask along with the CT volume improves performance. The code is publicly available at https://github.com/bowang-lab/AMOS-MM-Solution