# EEG-Xplain: Decoding Neural Black-Boxes of EEG Foundation Models

arXiv: https://arxiv.org/abs/2609.15687 · HTML: https://mlsanity.com/paper/2609.15687/

## Key facts

- No citing papers in the map yet (data through 14 Oct 2026).
- Builds on 20 of its 37 references that are in the map.
- First posted on arXiv 14 Sep 2026.

## Builds on (most cited first, 20 of 20)

- [Grad-CAM: Visual Explanations from Deep Networks via Gradient-based Localization](https://mlsanity.com/paper/1610.02391/) (2016)
- [A Unified Approach to Interpreting Model Predictions](https://mlsanity.com/paper/1705.07874/) (2017)
- ["Why Should I Trust You?": Explaining the Predictions of Any Classifier](https://mlsanity.com/paper/1602.04938/) (2016)
- [On the Opportunities and Risks of Foundation Models](https://mlsanity.com/paper/2108.07258/) (2021)
- [Axiomatic Attribution for Deep Networks](https://mlsanity.com/paper/1703.01365/) (2017)
- [Visualizing and Understanding Convolutional Networks](https://mlsanity.com/paper/1311.2901/) (2013)
- [Shortcut Learning in Deep Neural Networks](https://mlsanity.com/paper/2004.07780/) (2020)
- [Large Language Models Encode Clinical Knowledge](https://mlsanity.com/paper/2212.13138/) (2022)
- [EEGNet: A Compact Convolutional Network for EEG-based Brain-Computer Interfaces](https://mlsanity.com/paper/1611.08024/) (2016)
- [Evaluating the visualization of what a Deep Neural Network has learned](https://mlsanity.com/paper/1509.06321/) (2015)
- [Large Brain Model for Learning Generic Representations with Tremendous EEG Data in BCI](https://mlsanity.com/paper/2405.18765/) (2024)
- [BENDR: using transformers and a contrastive self-supervised learning task to learn from massive amounts of EEG data](https://mlsanity.com/paper/2101.12037/) (2021)
- [CBraMod: A Criss-Cross Brain Foundation Model for EEG Decoding](https://mlsanity.com/paper/2412.07236/) (2024)
- [The Disagreement Problem in Explainable Machine Learning: A Practitioner's Perspective](https://mlsanity.com/paper/2202.01602/) (2022)
- [Evaluation of post-hoc interpretability methods in time-series classification](https://mlsanity.com/paper/2202.05656/) (2022)
- [EEG Foundation Models: A Critical Review of Current Progress and Future Directions](https://mlsanity.com/paper/2507.11783/) (2025)
- [EEG-GPT: Exploring Capabilities of Large Language Models for EEG Classification and Interpretation](https://mlsanity.com/paper/2401.18006/) (2024)
- [Interpretable Deep Neural Networks for Single-Trial EEG Classification](https://mlsanity.com/paper/1604.08201/) (2016)
- [EEGMamba: Bidirectional State Space Model with Mixture of Experts for EEG Multi-task Classification](https://mlsanity.com/paper/2407.20254/) (2024)
- [Concept-based explainability for an EEG transformer model](https://mlsanity.com/paper/2307.12745/) (2023)

## Abstract (arXiv)

EEG foundation models such as BIOT, LaBraM, and EEGMamba have achieved remarkable performance in neural signal decoding, but their black-box nature limits clinical trust and neuroscientific validation. We propose a unified attribution framework for interpreting EEG foundation models across heterogeneous architectures. The framework integrates gradient-, perturbation-, and activation-based explanation methods to analyze model behavior in spatial, temporal, and frequency dimensions. Spatially, it identifies critical EEG channels and visualizes their distributions using topographic maps. Temporally, it highlights decision-relevant signal segments through attribution heatmaps. In the frequency domain, it quantifies the contributions of canonical EEG rhythms via spectral perturbation analysis. To assess explanation reliability, we introduce a population-level evaluation combining Area Over the Perturbation Curve (AOPC) and cross-method consistency analysis. The framework further leverages Large Language Models (LLMs) to transform structured attribution outputs into natural-language reports, bridging low-level neural representations and high-level semantic reasoning. Experiments on benchmark datasets, including Mumtaz2016 and TUAB, demonstrate that the generated explanations are consistent with established neurophysiological markers, validating meaningful neural representations while exposing potential dependencies on artifacts and spurious patterns. The proposed framework provides a standardized approach for evaluating the interpretability, reliability, and physiological plausibility of EEG foundation models.