首个无需颅骨剥离与配准的3D脑部MRI生成模型,可产高分辨率图像。
Diffusion-Driven Generation of Minimally Preprocessed Brain MRI
- 直接生成未配准、未去颅骨的3D T1加权脑影像,保留原始数据变异。
- 速度与流量预测模型FID优于样本预测模型,但整体仍低于真实数据。
- 适合医学图像合成、数据增强及隐私保护研究者使用。
本研究提出并比较了三种去噪扩散概率模型(DDPM),用于生成3D T1加权人脑磁共振图像。模型基于42,406名受试者来自38个公开脑部MRI数据集的80,675幅图像体积训练,图像具有约1mm各向同性分辨率,经三位专家人工筛选剔除质量差、视野问题和严重病理图像。数据仅进行最小化预处理,未进行坐标系统配准或偏置场校正,以保留自然方向变化和强度不均性。评估包括分割性能、Frechet Inception Distance(FID)及定性分析。结果表明,所有三种模型均能生成连贯的脑部影像,其中速度与流量预测模型的FID优于样本预测模型。然而,三者在多个队列中的FID仍高于真实图像。置换实验显示生成图像的脑区体积分布与真实数据存在统计差异,但速度与流量预测模型在丘脑和尾状核的差异较少。本研究首次发布无需颅骨剥离或注册的3D非潜在扩散模型,尽管统计检验显示部分偏差,但模型具备生成高分辨率3D T1脑影像的能力。所有模型权重与推理代码已开源:https://github.com/piksl-research/medforj。
原文摘要 · Abstract (English)
The purpose of this study is to present and compare three denoising diffusion probabilistic models (DDPMs) that generate 3D $T_1$-weighted MRI human brain images. Three DDPMs were trained using 80,675 image volumes from 42,406 subjects spanning 38 publicly available brain MRI datasets. These images had approximately 1 mm isotropic resolution and were manually inspected by three human experts to exclude those with poor quality, field-of-view issues, and excessive pathology. The images were minimally preprocessed to preserve the visual variability of the data. Furthermore, to enable the DDPMs to produce images with natural orientation variations and inhomogeneity, the images were neither registered to a common coordinate system nor bias field corrected. Evaluations included segmentation, Frechet Inception Distance (FID), and qualitative inspection. Regarding results, all three DDPMs generated coherent MR brain volumes. The velocity and flow prediction models achieved lower FIDs than the sample prediction model. However, all three models had higher FIDs compared to real images across multiple cohorts. In a permutation experiment, the generated brain regional volume distributions differed statistically from real data. However, the velocity and flow prediction models had fewer statistically different volume distributions in the thalamus and putamen. In conclusion this work presents and releases the first 3D non-latent diffusion model for brain data without skullstripping or registration. Despite the negative results in statistical testing, the presented DDPMs are capable of generating high-resolution 3D $T_1$-weighted brain images. All model weights and corresponding inference code are publicly available at https://github.com/piksl-research/medforj .
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