Xinyuan Zheng

Xinyuan Zheng, Orren Ravid, Robert A. J. Barry et al.

Autism spectrum disorders (ASDs) are developmental conditions characterized by restricted interests and difficulties in communication. The complexity of ASD has resulted in a deficiency of objective diagnostic biomarkers. Deep learning methods have gained recognition for addressing these challenges in neuroimaging analysis, but finding and interpreting such diagnostic biomarkers are still challenging computationally. Here, we propose a feature reduction pipeline using resting-state fMRI data. We used Craddock atlas and Power atlas to extract functional connectivity data from rs-fMRI, resulting in over 30 thousand features. By using a denoising variational autoencoder, our proposed pipeline further compresses the connectivity features into 5 latent Gaussian distributions, providing is a low-dimensional representation of the data to promote computational efficiency and interpretability. To test the method, we employed the extracted latent representations to classify ASD using traditional classifiers such as SVM on a large multi-site dataset. The 95% confidence interval for the prediction accuracy of SVM is [0.63, 0.76] after site harmonization using the extracted latent distributions. Without using DVAE for dimensionality reduction, the prediction accuracy is 0.70, which falls within the interval. The DVAE successfully encoded the diagnostic information from rs-fMRI data without sacrificing prediction performance. The runtime for training the DVAE and obtaining classification results from its extracted latent features was 7 times shorter compared to training classifiers directly on the raw data. Our findings suggest that the Power atlas provides more effective brain connectivity insights for diagnosing ASD than Craddock atlas. Additionally, we visualized the latent representations to gain insights into the brain networks contributing to the differences between ASD and neurotypical brains.

Peiyu Duan, Xueqi Guo, Sepehr Farhand et al.

Accurate 3D brain MRI subtype classification benefits from both localized anatomical cues and long-range contextual reasoning. We present AGA3DNet, a report-grounded framework that incorporates brief anatomical phrases extracted from radiology reports as a soft anatomical prior channel and fuses it with a lightweight 3D CNN and multi-view xLSTM aggregation. Specifically, extracted anatomical phrases are mapped to atlas-defined regions and converted into smooth spatial priors using a signed-distance transform followed by Gaussian weighting, providing interpretable, anatomy-grounded guidance without requiring dense voxel annotations. We evaluate AGA3DNet on a retrospective institutional brain MRI cohort for abnormal subtype discrimination and compare against reproducible 3D classification baselines. AGA3DNet achieves improved overall balance across performance metrics and supports clinically interpretable localization through the prior channel. We discuss limitations related to single-cohort evaluation and the lack of large-scale public brain MRI datasets paired with radiology reports under broadly usable terms.

Yinchi Zhou, Huidong Xie, Menghua Xia et al.

Low-count positron emission tomography (LCPET) imaging can reduce patients' exposure to radiation but often suffers from increased image noise and reduced lesion detectability, necessitating effective denoising techniques. Diffusion models have shown promise in LCPET denoising for recovering degraded image quality. However, training such models requires large and diverse datasets, which are challenging to obtain in the medical domain. To address data scarcity and privacy concerns, we combine diffusion models with federated learning -- a decentralized training approach where models are trained individually at different sites, and their parameters are aggregated on a central server over multiple iterations. The variation in scanner types and image noise levels within and across institutions poses additional challenges for federated learning in LCPET denoising. In this study, we propose a novel noise-embedded federated learning diffusion model (Fed-NDIF) to address these challenges, leveraging a multicenter dataset and varying count levels. Our approach incorporates liver normalized standard deviation (NSTD) noise embedding into a 2.5D diffusion model and utilizes the Federated Averaging (FedAvg) algorithm to aggregate locally trained models into a global model, which is subsequently fine-tuned on local datasets to optimize performance and obtain personalized models. Extensive validation on datasets from the University of Bern, Ruijin Hospital in Shanghai, and Yale-New Haven Hospital demonstrates the superior performance of our method in enhancing image quality and improving lesion quantification. The Fed-NDIF model shows significant improvements in PSNR, SSIM, and NMSE of the entire 3D volume, as well as enhanced lesion detectability and quantification, compared to local diffusion models and federated UNet-based models.