Scale-Aware 3D Deep Learning for Robust Brain Metastasis Detection in Multimodal MRI

Brain MRI poses a fundamental challenge for machine learning: models must learn from high-dimensional 3D data spanning multiple co-registered modalities, despite the limited sample sizes typical of neuroimaging studies relative to the diversity in anatomy, pathology, and acquisition conditions. While multimodal imaging provides complementary information critical for clinical interpretation, effectively integrating these signals remains difficult. We propose Multimodal Intra- and Cross-Context Vision Transformer (MICViT), a 3D vision transformer that explicitly models both modality-specific representations and cross-modal interactions across local and global contexts. Concretely, MICViT combines four attention mechanisms: modality-specific local and global attention for intra-modal feature learning, and cross-modal local and global attention to capture interactions between modalities. We evaluate MICViT on brain age prediction across three heterogeneous datasets (UK Biobank, n=41,404; SOOP, n=1,062; Cam-CAN, n=613) using multiple MRI modalities (e.g. T1, FLAIR, DWI, SWI). MICViT consistently outperforms state-of-the-art CNN and transformer baselines in 3D settings. Notably, it benefits more strongly from multimodal inputs, yielding larger performance gains as additional modalities are incorporated. These results demonstrate that explicitly modeling intra- and cross-modal interactions is key to unlocking the full potential of multimodal brain MRI, highlighting a promising direction for representation learning in neuroimaging.

Clinicians diagnose brain tumors by synthesizing patient symptoms, medical history, and quantitative imaging data from modalities such as MRI and CT scans into a unified clinical judgement. However, most deep learning models rely on MRI/CT images alone, failing to replicate the clinicians multimodal reasoning. We explore a two-branch multimodal network combining raw MRI scans with 91 extracted radiomic features (intensity, texture, shape, and boundary descriptors) to classify brain tumors into glioma, meningioma, pituitary, and no-tumor. A pre-trained CNN backbone encodes the image stream, whereas a dedicated MLP encodes the radiomic stream. Both streams are fused via concatenation, gated, or bidirectional cross-modal attention strategies. Across nine experimental runs on a balanced 7,200 image dataset, all multimodal configurations outperform unimodal baselines with gated fusion achieving the best accuracy of 96.13%.

Encoder-decoder imbalance and the reliance on large input volumes make many 3D brain tumor segmentation models both compute-heavy and brittle. We present M\textsuperscript{4}Fuse, a lightweight network that prioritizes discriminative brain tumor cues over exhaustive appearance reconstruction. Our method balances encoder and decoder capacity and replaces depth expansion with a synergistic design: it propagates long-range context with linear complexity via a grouped state space mixer, denoises and aligns skip features using a cross-scale dual-stage gating bridge, and absorbs cross-site acquisition shifts with a sample-level mixture-of-experts. On the BraTS2019 and BraTS2021 benchmarks, M\textsuperscript{4}Fuse outperforms other lightweight excellent methods in both parameter count and performance. Even at a challenging input resolution of $64\times128\times128$ (half that of existing excellent models), M\textsuperscript{4}Fuse reduces parameters by 62.63% and improves average performance by 0.09%. Ablations of key components validate the method's exceptional parameter-to-accuracy efficiency and robustness across diverse data centers.