Multi-modality magnetic resonance imaging (MRI) can provide complementary information for computer-aided diagnosis. Traditional deep learning algorithms are suitable for identifying specific anatomical structures segmenting lesions and classifying diseases with magnetic resonance images. However, manual labels are limited due to high expense, which hinders further improvement of model accuracy. Self-supervised learning (SSL) can effectively learn feature representations from unlabeled data by pre-training and is demonstrated to be effective in natural image analysis. Most SSL methods ignore the similarity of multi-modality MRI, leading to model collapse. This limits the efficiency of pre-training, causing low accuracy in downstream segmentation and classification tasks. To solve this challenge, we establish and validate a multi-modality MRI masked autoencoder consisting of hybrid mask pattern (HMP) and pyramid barlow twin (PBT) module for SSL on multi-modality MRI analysis. The HMP concatenates three masking steps forcing the SSL to learn the semantic connections of multi-modality images by reconstructing the masking patches. We have proved that the proposed HMP can avoid model collapse. The PBT module exploits the pyramidal hierarchy of the network to construct barlow twin loss between masked and original views, aligning the semantic representations of image patches at different vision scales in latent space. Experiments on BraTS2023, PI-CAI, and lung gas MRI datasets further demonstrate the superiority of our framework over the state-of-the-art. The performance of the segmentation and classification is substantially enhanced, supporting the accurate detection of small lesion areas. The code is available at https://github.com/LinxuanHan/M2-MAE.

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