Michal Olak

Matteo Ciferri, Tommaso Boccato, Michal Olak et al.

Understanding how speech foundation models relate to human cortical activity is a key challenge for computational neuroscience. Here, we investigate how internal representations from Whisper predict intracranial ECoG responses during naturalistic speech perception. We introduce a time-resolved neural encoder that combines speech embeddings with a recurrent temporal model and soft attention, allowing us to examine layer-wise brain alignment. Intermediate Whisper layers provide the strongest correspondence with neural activity, supporting a hierarchical match between model representations and cortical speech processing. Comparisons with baselines show that high-resolution ECoG responses benefit from temporally structured modelling beyond linear mappings from the same speech representations. In addition, attention maps reveal temporally local alignment between speech embeddings and neural responses, while a phonemic interpretability analysis identifies anatomically coherent phoneme-category organization among encoding-informative electrodes. Together, these results suggest that speech foundation models offer a useful framework for studying time-resolved cortical speech representations.

Fabrizio Spera, Tommaso Boccato, Michal Olak et al.

Recent progress in visual brain decoding from fMRI has been enabled by large-scale datasets such as the Natural Scenes Dataset (NSD) and powerful diffusion-based generative models. While current pipelines are primarily optimized for perception, their performance under mental-imagery remains less well understood. In this work, we study how a state-of-the-art (SOTA) perception decoder (DynaDiff) can be adapted to reconstruct imagined content from the Imagery-NSD benchmark. We propose a latent functional alignment approach that maps imagery-evoked activity into the pretrained model's conditioning space, while keeping the remaining components frozen. To mitigate the limited amount of matched imagery-perception supervision, we further introduce a retrieval-based augmentation strategy that selects semantically related NSD perception trials. Across four subjects, latent functional alignment consistently improves high-level semantic reconstruction metrics relative to the frozen pretrained baseline and a voxel-space ridge alignment baseline, and enables above-chance decoding from multiple cortical regions. These results suggest that semantic structure learned from perception can be leveraged to stabilize and improve visual imagery decoding under out-of-distribution conditions.

Michal Olak, Tommaso Boccato, Matteo Ferrante

Speech brain--computer interfaces require decoders that translate intracortical activity into linguistic output while remaining robust to limited data and day-to-day variability. While prior high-performing systems have largely relied on framewise phoneme decoding combined with downstream language models, it remains unclear what contextual sequence-to-sequence decoding contributes to sublexical neural readout, robustness, and interpretability. We evaluated a multitask Transformer-based sequence-to-sequence model for attempted speech decoding from area 6v intracortical recordings. The model jointly predicts phoneme sequences, word sequences, and auxiliary acoustic features. To address day-to-day nonstationarity, we introduced the Neural Hammer Scalpel (NHS) calibration module, which combines global alignment with feature-wise modulation. We further analyzed held-out-day generalization and attention patterns in the encoder and decoders. On the Willett et al. dataset, the proposed model achieved a state-of-the-art phoneme error rate of 14.3%. Word decoding reached 25.6% WER with direct decoding and 19.4% WER with candidate generation and rescoring. NHS substantially improved both phoneme and word decoding relative to linear or no day-specific transform, while held-out-day experiments showed increasing degradation on unseen days with temporal distance. Attention visualizations revealed recurring temporal chunking in encoder representations and distinct use of these segments by phoneme and word decoders. These results indicate that contextual sequence-to-sequence modeling can improve the fidelity of neural-to-phoneme readout from intracortical speech signals and suggest that attention-based analyses can generate useful hypotheses about how neural speech evidence is segmented and accumulated over time.

Tommaso Boccato, Michal Olak, Matteo Ferrante

Decoding continuous speech from intracortical recordings is a central challenge for brain-computer interfaces (BCIs), with transformative potential for individuals with conditions that impair their ability to speak. While recent microelectrode array (MEA) decoders achieve impressive accuracy, their performance is fundamentally limited by the small size of existing datasets, they remain brittle to session-to-session variability, and their ability to generalize across participants remains unexplored. We introduce BrainWhisperer, a neural speech decoder that integrates high-resolution MEA recordings with a large pretrained automatic speech recognition (ASR) model. Building on interpretability findings showing that Whisper's encoder learns phoneme-selective representations with localized attention, we train a customized version of Whisper, modified to process neural features, using a hybrid objective that combines CTC loss on phonemes--predicted from the third encoder layer--and cross-entropy loss on word tokens. We introduce domain-informed modifications including windowed self-attention to capture articulatory continuity, hierarchical month/day-specific low-rank projections to address non-stationarity, and subject-specific embedders enabling cross-subject training. Evaluated on a publicly available MEA dataset (Card et al.), BrainWhisperer matches or outperforms prior state-of-the-art decoders. Critically, cross-dataset training improves performance even on individual datasets without fine-tuning, demonstrating unprecedented generalization. The model supports dual decoding paths: a high-accuracy phoneme-based path with external language model rescoring, and a fast direct text generation path enabling sub-100ms inference with minimal hardware requirements.