An Explainable 3D-Deep Learning Model for EEG Decoding in Brain-Computer Interface Applications
Muhammad Suffian1, Cosimo Ieracitano2, Francesco C Morabito3
1DIIES, University Mediterranea of Reggio Calabria, Via Zehender, Loc. Feo di Vito, Reggio Calabria 89122, Italy.
International Journal of Neural Systems
|October 19, 2025
Summary
This study introduces EEGCubeNet, a deep learning framework for faster and more interpretable electroencephalographic (EEG) decoding in brain-computer interface (BCI) systems. It significantly reduces calibration time by using global-to-subject specific fine-tuning.
Area of Science:
- Neuroscience
- Machine Learning
- Biomedical Engineering
Background:
- Decoding electroencephalographic (EEG) signals is crucial for brain-computer interface (BCI) development.
- High inter-subject variability in EEG necessitates time-consuming user-specific calibration, limiting deep learning applications.
- Existing methods often require large datasets for effective model training.
Purpose of the Study:
- To propose a multidimensional and explainable deep learning framework for fast and interpretable EEG decoding.
- To address the challenges of inter-subject variability and reduce adaptation time in BCI systems.
- To introduce a novel deep learning model, EEGCubeNet, for enhanced EEG signal processing.
Main Methods:
- EEG signals were projected into the spatial-spectral-temporal domain.
- A custom three-dimensional (3D) Convolutional Neural Network (EEGCubeNet) was developed.
- A global-to-subject-specific fine-tuning approach was employed, combining population-level training with individual user fine-tuning.
- A 3D occlusion sensitivity analysis-based explainability method (3D xAI-OSA) was introduced.
Main Results:
- EEGCubeNet achieved state-of-the-art performance in discriminating motor imagery tasks (hand open/close) from a resting state.
- The model demonstrated high accuracy ([Formula: see text] and [Formula: see text] for HC vs. RE and HO vs. RE, respectively).
- Reduced framework complexity and training time were observed compared to existing methods.
- The 3D xAI-OSA method provided relevance maps for enhanced prediction transparency.
Conclusions:
- The proposed EEGCubeNet framework offers a significant advancement in fast and interpretable EEG decoding for BCI applications.
- The global-to-subject-specific fine-tuning strategy effectively reduces adaptation time and improves model efficiency.
- The integration of explainability features enhances the transparency and trustworthiness of the deep learning model.
- The developed framework shows promise for broader adoption of deep learning in BCI research and development.
Keywords:
3D convolutional neural networksElectroencephalographybrain–computer interfacesexplainable artificial intelligence

