Feasibility of Federated Learning from Client Databases with Different Brain Diseases and MRI Modalities

TL;DR

This paper demonstrates that federated learning can effectively train a single brain MRI segmentation model across decentralized databases with diverse diseases and MRI modalities, enabling accurate segmentation even on unseen modality sets.

Contribution

It introduces a practical federated learning framework with model design and training strategies that handle heterogeneous data in brain MRI segmentation tasks.

Findings

Federated learning achieves promising segmentation results across multiple brain diseases.

The model generalizes well to new databases with different MRI modalities.

Simple modifications like input channel design and modality dropout improve performance.

Abstract

Segmentation models for brain lesions in MRI are typically developed for a specific disease and trained on data with a predefined set of MRI modalities. Such models cannot segment the disease using data with a different set of MRI modalities, nor can they segment other types of diseases. Moreover, this training paradigm prevents a model from using the advantages of learning from heterogeneous databases that may contain scans and segmentation labels for different brain pathologies and diverse sets of MRI modalities. Additionally, the confidentiality of patient data often prevents central data aggregation, necessitating a decentralized approach. Is it feasible to use Federated Learning (FL) to train a single model on client databases that contain scans and labels of different brain pathologies and diverse sets of MRI modalities? We demonstrate promising results by combining appropriate, simple, and practical modifications to the model and training strategy: Designing a model with input channels that cover the whole set of modalities available across clients, training with random modality drop, and exploring the effects of feature normalization methods. Evaluation on 7 brain MRI databases with 5 different diseases shows that this FL framework can train a single model achieving very promising results in segmenting all disease types seen during training. Importantly, it can segment these diseases in new databases that contain sets of modalities different from those in training clients. These results demonstrate, for the first time, the feasibility and effectiveness of using FL to train a single 3D segmentation model on decentralised data with diverse brain diseases and MRI modalities, a necessary step towards leveraging heterogeneous real-world databases. Code: https://github.com/FelixWag/FedUniBrain