# Transformers for Multimodal Brain State Decoding: Integrating Functional Magnetic Resonance Imaging Data and Medical Metadata

arXiv: https://arxiv.org/abs/2512.08462 · HTML: https://mlsanity.com/paper/2512.08462/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 12 of its 35 references that are in the map.
- First posted on arXiv 9 Dec 2025.

## Builds on (most cited first, 12 of 12)

- [Attention Is All You Need](https://mlsanity.com/paper/1706.03762/) (2017)
- [An Image is Worth 16x16 Words: Transformers for Image Recognition at Scale](https://mlsanity.com/paper/2010.11929/) (2020)
- [A Unified Approach to Interpreting Model Predictions](https://mlsanity.com/paper/1705.07874/) (2017)
- [Domain-Adversarial Training of Neural Networks](https://mlsanity.com/paper/1505.07818/) (2015)
- [TransUNet: Transformers Make Strong Encoders for Medical Image Segmentation](https://mlsanity.com/paper/2102.04306/) (2021)
- [A Survey on Deep Learning in Medical Image Analysis](https://mlsanity.com/paper/1702.05747/) (2017)
- [UNETR: Transformers for 3D Medical Image Segmentation](https://mlsanity.com/paper/2103.10504/) (2021)
- [Efficient Multi-Scale 3D CNN with Fully Connected CRF for Accurate Brain Lesion Segmentation](https://mlsanity.com/paper/1603.05959/) (2016)
- [Neural Encoding and Decoding with Deep Learning for Dynamic Natural Vision](https://mlsanity.com/paper/1608.03425/) (2016)
- [ConvNets vs. Transformers: Whose Visual Representations are More Transferable?](https://mlsanity.com/paper/2108.05305/) (2021)
- [Deep learning for neuroimaging: a validation study](https://mlsanity.com/paper/1312.5847/) (2013)
- [Transformer RGBT Tracking with Spatio-Temporal Multimodal Tokens](https://mlsanity.com/paper/2401.01674/) (2024)

## Abstract (arXiv)

Decoding brain states from functional magnetic resonance imaging (fMRI) data is vital for advancing neuroscience and clinical applications. While traditional machine learning and deep learning approaches have made strides in leveraging the high-dimensional and complex nature of fMRI data, they often fail to utilize the contextual richness provided by Digital Imaging and Communications in Medicine (DICOM) metadata. This paper presents a novel framework integrating transformer-based architectures with multimodal inputs, including fMRI data and DICOM metadata. By employing attention mechanisms, the proposed method captures intricate spatial-temporal patterns and contextual relationships, enhancing model accuracy, interpretability, and robustness. The potential of this framework spans applications in clinical diagnostics, cognitive neuroscience, and personalized medicine. Limitations, such as metadata variability and computational demands, are addressed, and future directions for optimizing scalability and generalizability are discussed.