Foundational GPT Model for MEG

Abstract

Deep learning techniques can be used to first training unsupervised models on large amounts of unlabelled data, before fine-tuning the models on specific tasks. This approach has seen massive success for various kinds of data, e.g. images, language, audio, and holds the promise of improving performance in various downstream tasks (e.g. encoding or decoding brain data). However, there has been limited progress taking this approach for modelling brain signals, such as Magneto-/electroencephalography (M/EEG). Here we propose two classes of deep learning foundational models that can be trained using forecasting of unlabelled MEG. First, we consider a modified Wavenet; and second, we consider a modified Transformer-based (GPT2) model. The modified GPT2 includes a novel application of tokenisation and embedding methods, allowing a model developed initially for the discrete domain of language to be applied to continuous multichannel time series data. We also extend the forecasting framework to include condition labels as inputs, enabling better modelling (encoding) of task data. We compare the performance of these deep learning models with standard linear autoregressive (AR) modelling on MEG data. This shows that GPT2-based models provide better modelling capabilities than Wavenet and linear AR models, by better reproducing the temporal, spatial and spectral characteristics of real data and evoked activity in task data. We show how the GPT2 model scales well to multiple subjects, while adapting its model to each subject through subject embedding. Finally, we show how such a model can be useful in downstream decoding tasks through data simulation. All code is available on GitHub (https://github.com/ricsinaruto/MEG-transfer-decoding).