Neural Decoding

Brain-Machine Interfaces (BMIs) provide a direct communication pathway between the brain and external devices, enabling humans to control assistive and robotic technologies, with potential applications in rehabilitation, human motor augmentation, and human-centered robotics. However, due to neural drift, the performance of BMIs decreases over time, posing challenges for long-term viability, particularly for invasive BMIs (iBMIs). Existing solutions suffer from two main drawbacks: (i) difficulty in learning robust neural representations, and (ii) neglecting that neural drift varies across motor parameters (e.g., velocity, direction, and speed). To overcome these limitations, we propose Self-Supervised Consistency enhanced Disentangled Learning (SSCDL), a neural decoding generalization framework built on two key innovations. We first design a backbone model named Consistency enhanced Neural Decoder (CND), using a novel teacher-student consistency constraint with simulated neural signal perturbations to learn robust representations invariant to neural drift. Then, we employ three dedicated CNDs under the Complementary-Disentangled Generalization (CDG) mechanism, which disentangles motor signals into velocity, direction, and speed with inspiration from neural preference theory. This disentangled learning enables SSCDL to capture invariant neural representations from diverse neural preference perspectives, significantly enhancing cross-day generalization. Extensive experimental results show that SSCDL delivers state-of-the-art decoding performance, exhibiting high robustness and cross-day stability. These capabilities underscore its strong potential for long-term interaction in human-centric robotic and fine-grained assistive applications.

Large-scale calcium imaging has created an opportunity to build foundation-style models for neural population dynamics, but a central question remains unresolved: \textbf{whether a model pretrained on one collection of recordings can generalize to new datasets, experimental paradigms, and even species.} Existing approaches are often designed for specific tasks and evaluated on a single dataset, making it unclear whether their learned representations are reusable for new calcium trace datasets. To tackle this gap, we present \textbf{CAPT}, a \textbf{C}ontinuous \textbf{A}utoregressive \textbf{P}opulation \textbf{T}ransformer for calcium population dynamics. CAPT models continuous calcium traces directly through a continuous patch tokenization strategy and is trained autoregressively, enabling end-to-end pretraining and adaptation to diverse downstream tasks. We first pretrain CAPT on a large-scale mouse calcium imaging dataset and evaluate its transferability across independent mouse, larval zebrafish, and \textit{C. elegans} datasets collected by different laboratories. In these transfer settings, the pretrained backbone is frozen and only adaptation modules are updated. Across neural population forecasting and behavior decoding tasks, CAPT consistently outperforms specialized and general-purpose baselines. Alongside predictive performance, multimodal analyses using NeuroPAL annotations in \textit{C. elegans} datasets show that CAPT embeddings form a shared functional space across datasets and capture anatomical cell-identity-related structure. These results suggest that the continuous autoregressive modeling opens up possibilities for a simple route towards general-purpose neural foundation models for calcium imaging, which can generalize across datasets, experimental paradigms, and species. Code is available at https://github.com/TSuXinH/CAPT.

Reconstructing dynamic human faces from brain activity provides a powerful way to study how the mind perceives identity, expression, and facial motion. However, progress in fMRI-based face decoding has been limited by scarce controlled, high-resolution neural datasets and by methods that struggle to recover both identity-specific appearance and time-varying facial dynamics. We present fMRI-Face, the first fMRI dataset paired with controllable full-HD digital human facial videos rendered at 1920$\times$1080 resolution. During scanning, participants watched photorealistic, background-free facial videos with controlled identity, expression, and head pose, while fMRI activity was recorded. The resulting dataset contains 62,856 paired fMRI-video samples, providing a structured resource for studying dynamic face perception and reconstruction. Building on this dataset, we propose fMRI2Face, a geometry-guided neural video decoding framework for reconstructing facial videos from fMRI signals. fMRI2Face derives two complementary neural controls from brain activity: Brain-derived Appearance Context, which captures global identity-related visual attributes, and Morphable 3D Facial Control, which provides explicit geometry-aware guidance for pose, expression, and non-rigid facial dynamics. These controls are integrated through Neural-Controlled Video Diffusion with auxiliary latent completion, enabling high-fidelity facial video reconstruction directly from brain activity. Experiments show that fMRI2Face consistently improves reconstruction fidelity, identity preservation, facial geometry, and motion consistency over representative neural decoding baselines. Together, fMRI-Face and fMRI2Face establish a controlled platform for studying dynamic face perception and provide a new benchmark for fMRI-based digital human reconstruction.

Real-time closed-loop neurofeedback based on functional magnetic resonance imaging (fMRI) has led to important scientific and clinical advances. However, the sophistication of the analysis methods used in real-time fMRI lags behind the state-of-the-art in fMRI decoding, largely due to computational factors: Most advanced decoding pipelines do not fit within the envelope of real-time processing, where the analysis needs to be conducted in a matter of seconds and without leveraging data acquired later in the session. Here, we present a real-time compatible adaptation of a computationally intensive state-of-the-art pipeline for reconstructing perceived natural images (MindEye2), and we demonstrate that reliable fine-grained decoding is still achievable in this setting. Using RT-Cloud, an open-source, scalable cloud-based platform, we performed a real-time scan where we decoded single-trial visual perception within seconds after an image was shown to the participant. Finally, we use simulated analyses to document the factors driving changes in performance from offline to real-time analysis. This work serves as a proof-of-concept that it is feasible to deploy these powerful fMRI decoding pipelines in real-time analysis, paving the way for their use in brain-computer interfaces for scientific discovery and clinical treatment.

Functional magnetic resonance imaging (fMRI)-based visual decoding aims to recover visual information from measured brain activity, commonly by mapping fMRI responses into latent visual features for downstream decoding tasks. Most existing methods learn mappings from fMRI responses to visual features extracted by artificial neural networks (ANNs), yet it remains unclear whether ANN-derived features provide suitable targets for brain decoding. In this study, we investigate spiking neural network (SNN)-derived visual features as alternative targets for fMRI-based visual decoding. We compare an ANN baseline with four SNN variants from the same architectural family, which differ in their spiking dynamics. To isolate the effect of the target features, all models use the same L2-regularized linear fMRI-to-feature decoder, while only the feature vectors used as regression targets are varied. Compared with the ANN baseline, SNN-derived features exhibit stronger alignment with fMRI responses and improve visual semantic decoding performance. For instance, on the GoD dataset, SNN-derived features reduce feature-prediction error from 0.7707 to 0.0282 and improve top-1 semantic decoding accuracy from 0.1800 to 0.4400. Ablation results further indicate that both spiking neural dynamics and temporal simulation steps contribute to the observed advantage. These findings support SNN-derived features as effective brain-decodable visual representations and highlight target feature design as an important component of fMRI-based visual decoding.

ECoG-based visual semantic decoding enables inference of semantic interpretation of visual perception from complex, noisy brain activity. This study examines the feasibility of visual semantic decoding using an end-to-end deep learning framework using electrocorticography (ECoG). Specifically, the decoding task is to predict visual categories from video stimuli using time-series neural inputs. A previously collected ECoG dataset from participants ($n=17$) with drug-resistant epilepsy is used for analysis. With fewer than 50 training samples per visual category, this study evaluates multiple deep learning approaches, artificial neural network architectures, and frequency-band filtered inputs. The best-performing approach is analyzed to shed light on the discriminative information it relies on across spectral, temporal, and cortical dimensions. The selected decoding system uses mixup augmentation, a Transformer-based encoder, and high-gamma (80-150 Hz) inputs with a 900 ms post-stimulus window. Further analysis shows that early visual cortex (V2-V4), ventral stream visual cortex, MT+ complex with neighbouring visual areas, and lateral temporal cortex contributed substantially to decoding performance. This study demonstrates that an end-to-end deep learning framework can yield promising decoding performance from dynamic visual stimuli without handcrafted features, while the model behavior remains interpretable through spectral, temporal, and cortical dimensions, which are broadly consistent with established neuroscience knowledge.

Auditory attention decoding (AAD) identifies the speaker a listener attends to from neural responses like electroencephalography (EEG), making it a key algorithm in neuro-steered hearing aids. However, most neural AAD models are trained as independent short-window classifiers, despite auditory attention being a temporally persistent cognitive state and short-window EEG--audio evidence often being noisy and ambiguous. We propose an end-to-end Markov AAD framework based on conditional random field (CRF) that trains window-level neural emissions under a two-state attention prior. The framework treats the logits of any AAD backbone as Markov emissions, learns the transition rate from a standard HMM initialization, and jointly optimizes cross-entropy and CRF objectives, allowing temporal continuity to guide representation learning rather than merely smoothing predictions after training. We also introduce ESCNet, an EEG--speech correlation backbone that preserves time-aligned features and converts the difference between two mean Pearson correlations into state logits. We evaluate the framework with four emission backbones spanning correlation-based, convolutional, recurrent, and attention-based designs. On the dynamic AVGC dataset, CRF training generally outperforms post-hoc HMM smoothing; with ESCNet, it achieves $86.5\%$ causal and $92.4\%$ non-causal accuracy using $1$s windows. On the static KUL and USTC datasets, it improves causal decoding over fixed-rate post-hoc HMM baselines by $5.6\%$ and $2.0\%$, respectively, showing the superiority of learning AAD as attention state sequence over isolated-window classification.

Limited training data constrains deep learning models for Auditory Attention Decoding (AAD) in hearing aids (HAs). AAD uses electroencephalogram (EEG) data to decode listener's attention, enabling real-time tracking of specific sound sources. However, achieving high AAD performance with short time windows typical in HAs (<=1s) is challenging due to the scarcity of real-world speech-evoked EEG data. To address this issue, we investigate diffusion probabilistic models (DPMs) for generating synthetic speech-evoked EEG data. DPMs learn the underlying complex data structure through a denoising process and can generate realistic samples suitable for data augmentation. We evaluate the use of synthetic EEG data for augmenting datasets in locus-of-attention (LoA) classification tasks. Our experiments demonstrate that DPMs can generate realistic EEG signals and that incorporating synthetic data significantly improves AAD performance compared to models trained solely on measured EEG data (p<0.05). These results highlight the potential of diffusion-based data augmentation to mitigate training data limitations and improve the robustness of short-window AAD models in HA applications.

The primate visual system is typically divided into two streams - the ventral stream, responsible for object recognition, and the dorsal stream, responsible for encoding spatial relations and motion. Recent studies have shown that convolutional neural networks (CNNs) pretrained on object recognition tasks are remarkably effective at predicting neuronal responses in the ventral stream, shedding light on the neural mechanisms underlying object recognition. However, similar models of the dorsal stream remain underdeveloped due to the lack of large scale datasets encompassing dorsal stream areas. To address this gap, we present STSBench, a dataset of large-scale, single neuron recordings from over 2,000 neurons in the superior temporal sulcus (STS), a nearly 50-fold increase over existing dorsal stream datasets, collected while Rhesus macaques viewed thousands of unique, natural videos. We show that our dataset can be used for benchmarking encoding models of dorsal stream neuronal responses and reconstructing visual input from neural activity.

Robust and accurate neural decoders are integral to neurotechnologies such as brain-computer interfaces and closed-loop experiments. Recent work has shown that tokenizing neural data at the spike level facilitates multi-session pretraining and delivers state-of-the-art decoding performance. However, current spike-based models are restricted to supervised learning (SL), limiting training to datasets with paired behavioural labels. To address this limitation, we introduce MOJO (Masked autOencoder-based JOint training), a training framework for spike-tokenizing models that jointly leverages self-supervised learning (SSL) via masked autoencoding and SL objectives. We evaluate MOJO on three spiking datasets spanning monkey motor cortex during reaching tasks and multi-regional mouse recordings during vision and decision making tasks, demonstrating superior performance over purely SL-trained models. This improvement is especially pronounced when training with limited labelled data, particularly in few-shot finetuning, where only a small amount of labelled data from a new session is available. Incorporating SSL also yields more interpretable neuronal representations, improving performance on brain region classification and spike-statistics prediction without explicit optimization for these tasks. We further show that MOJO generalizes beyond spiking data to human electrocorticography during speech, where it continues to outperform purely SL-trained models and achieves performance comparable to neuro-foundation models (NFMs) designed specifically for continuous signals. Overall, augmenting spike-tokenizing models with SSL improves performance in label-impoverished settings and enables the use of unlabelled data across various tasks and species, while generalizing to other neural modalities. These results suggest a path towards more flexible and scalable data usage when training NFMs.

Decoding continuous language from fMRI signals remains a core challenge in non-invasive brain-computer interface research. We present two complementary investigations. First, we improve the Huth et al. ridge regression encoding pipeline through expanded voxel selection (10K->15K), substitution of GPT-2 medium for GPT-1 as the beam-search proposal model, and GPU-accelerated bootstrap training, achieving mean METEOR = 0.149 and BLEU-1 = 0.200 across three held-out narratives for subject UTS03 -- an 11% relative METEOR gain over our replication baseline. Second, we introduce fMRIFlamingo, which maps BOLD activity to a frozen Llama-3.2-1B with trainable gated cross-attention layers via a learned brain tokenizer and a Perceiver Resampler. Despite achieving 42.86% Top-1 accuracy on a 1-in-100 ranking task, well above chance, a blind control ablation with zeroed fMRI inputs yields near-identical scores, revealing that apparent decoding success is driven primarily by the frozen language prior rather than by neural input. These results demonstrate that high-capacity language models do not inherently improve fMRI decoding and can actively obscure failures without rigorous blind-control evaluation.

Continuous semantic reconstruction from non-invasive neural recordings remains limited by the representational mismatch between semantic feature spaces and neural coding patterns, which severely impedes cross-modal alignment between high-noise neural signals and target semantic features. Prior semantic decoders have predominantly relied on static lexical representations or dynamic contextualized representations in isolation. This single-dimension approach inevitably leads to severe information loss, as it fails to account for the human brain's capacity to integrate stable word attributes and dynamic contexts simultaneously.To bridge this gap, this study introduces a multi-feature fusion framework for non-invasive semantic reconstruction, systematically benchmarking two integration approaches: linear Naive Concatenation and non-linear Multi-Head Cross-Attention. Within this framework, our approach complements static lexical representations (W2V) with dynamic contextual representations (GPT) via an interactive gating mechanism to facilitate cooperative processing during language comprehension.Evaluated through extensive semantic reconstruction and text generation experiments, our framework reveals a robust performance hierarchy: Cross-Att > Concat > GPT > W2V. Crucially, the non-linear cross-attention fusion method achieves state-of-the-art performance, demonstrating that neural language decoding benefits from simulating the collaborative modulation between contextual information and core lexical attributes rather than depending on isolated individual features, while also offering a viable non-invasive brain-to-text decoding method.

Decoding continuous three-dimensional (3D) motor imagery (MI) using non-invasive electroencephalography (EEG)-based brain--computer interfaces (BCIs) remains challenging due to signal variability and residual decoding errors. Deep learning architectures such as convolutional neural network--long short-term memory (CNN--LSTM) models can capture spatial and temporal dynamics for continuous kinematic decoding; however, systematic residual errors persist in predicted trajectories. We propose a two-stage decoding framework that applies reinforcement learning (RL) to perform residual kinematic correction on the outputs of a CNN--LSTM decoder (CNN--LSTM--RL). The RL agent is trained offline without direct EEG input and instead operates on predicted kinematic trajectories to optimize movement accuracy relative to target trajectories. Decoding performance was quantified using Pearson correlation coefficients ($r$) and Root Mean Square Errors (RMSE) along the $x, y$, and $z$ axes. Compared to CNN--LSTM applied alone, CNN--LSTM--RL improved the mean correlation from $0.5076$ to $0.7181$ ($p = 0.0005$) in 2D and from $0.6420$ to $0.7780$ ($p = 0.0059$) in VR, with relative gains of $41.5\%$ and $21.2\%$, respectively. Correspondingly, RMSE was reduced from $0.0890$ to $0.0532$ (2D, $p < 0.0001$) and from $0.0714$ to $0.0441$ (VR, $p < 0.0001$), representing relative reductions of $40.2\%$ and $38.2\%$. These findings demonstrate that this scalable framework enhances 3D BCI MI decoding by correcting kinematic errors via offline residual RL without extra neural data, advancing neurorehabilitation, prosthetics, and virtual interaction.

A substantial number of patients experience diminished mobility due to disabilities, diseases, or accidents. Although modern prostheses, powered by deep neural networks, hold the promise of significantly enhancing the quality of life for these individuals, their widespread adoption is hindered by significant latency, energy consumption, and spatial requirements. Wired connections to external high-performance processors restrict patient mobility, while wireless connections limit the volume of information that can be transmitted to these processors. Spiking neural networks offer the potential for compressed communication and low-power inference, yet they often lag behind state-of-the-art deep learning models in various applications. In this study, we propose a high-performance neural decoding method that effectively balances task performance and efficiency. An eventbased gated recurrent unit generates a sparse communication pattern with graded spikes, surpassing classical spiking neural networks in terms of task performance. Utilising an efficient training method and sparse inference, our model presents new opportunities for on-device neural decoding.

Decoding brain activity is useful for characterizing brain processes and understanding the functional architecture underlying cognition. However, the inter-individual variability in brain response patterns limits the development of decoders that generalize across individuals. A solution to this challenge is functional alignment: aligning functional data across individuals before training population-level decoders. The core issue is to strike the balance between aligning functional features and preserving the anatomical structure, while maintaining computational efficiency. We introduce a new functional alignment method for fMRI, SpectralOT, that embeds cortical geometry into Laplace-Beltrami eigenmodes along functional data to regularize the alignment.

We propose a unified meta-decoding framework for quantum error correction that learns syndrome-to-recovery mappings across multiple stabilizer codes and noise settings, without requiring separate decoders for each configuration. The benchmark includes FiveQubit, Steane, Planar3x3, and Planar5x5 codes, four noise families, and five evaluation regimes: interpolation, unseen-p transfer, unseen-noise transfer, few-shot unseen-code adaptation, and few-shot held-out-size adaptation. We compare a classical Meta-MLP teacher-trained baseline with variational quantum circuit (VQC) meta-decoders selected through hardware-aware quantum architecture search over qubit count, circuit depth, and entangling topology. The Meta-MLP achieves teacher-label accuracies of 0.9993, 0.9118, 0.9342, 0.6304, and 0.7548 across the five regimes, while the hardware-aware VQC achieves 0.9400, 0.8495, 0.8415, 0.5678, and 0.7143. However, logical-level evaluation shows that high teacher-label accuracy alone is insufficient in the most challenging Planar5x5 setting. During interpolation, the raw logical-failure ratios relative to the teacher are 12.08 and 25.91 for the Meta-MLP and VQC, respectively, whereas confidence-gated fallback reduces them to 1.71 and 1.11. These results support confidence-aware selective recovery rather than unconditional teacher replacement.

Real-time decoding is a major bottleneck in scaling quantum error correction (QEC) from noisy intermediate-scale quantum (NISQ) devices to fault-tolerant quantum computing. We present an adaptive confidence-gated decoding framework for the rotated surface code that treats decoding as a two-stage inference problem. A lightweight feed-forward neural network performs fast-path decoding for the majority of syndrome measurements, while only low-confidence predictions are escalated to a minimum-weight perfect matching (MWPM) refinement stage. We benchmark the framework on rotated surface codes with distances $d \in \{3,5,7,9,11\}$ under circuit-level depolarising noise using the Stim stabiliser simulator. The evaluation characterises logical accuracy, confidence-controlled accuracy-latency trade-offs, decoding throughput, per-shot latency, and decoding-graph resource scaling. Routing only 3.3%-6.2% of syndromes to the refinement stage improves logical accuracy from 99.21% for the neural-only baseline to 99.81% at a confidence threshold of 0.95 while incurring only a bounded increase in average decoding cost. Neural-decoder throughput saturates near $4.6 \times 10^{5}$ samples s$^{-1}$ at batch size 512 on commodity CPU hardware, indicating that the neural fast path is not the dominant throughput bottleneck beyond code distance $d=7$. We release the complete benchmarking pipeline, trained models, raw benchmark data, and source code, and explicitly distinguish the experimentally validated contributions from the broader hardware-aware QEC co-design roadmap, including hardware-constrained code discovery, GPU-accelerated inference, and multi-noise optimisation, which remain directions for future work.

Non-invasive brain-to-speech decoding aims to restore communication to patients suffering from neurodegenerative disease, without the risks of neurosurgery. Existing MEG- and EEG-based methods, while scalable, continue to suffer from high word error rates driven by relatively low signal-to-noise ratios compared to invasive recordings. We propose physiological noise augmentation (PNA), a data augmentation method that explicitly trains decoders to become invariant to task-agnostic artifacts (e.g. ocular and cardiac activity). PNA draws inspiration from automatic speech recognition systems, where environmental noise (e.g. dogs barking, city traffic) is added to clean speech to improve robustness. Analogously, we decompose brain recordings into clean data and noise artifacts using independent component analysis (ICA), before scaling and remixing to generate biophysically realistic, label-preserving training examples. We show that PNA approximates anisotropic regularization, penalizing decoder sensitivity along artifact-dominated directions. On MegNIST, a 12k-trial imagined-digit MEG dataset, PNA with 10-trial averaging improves EEGNet decoding accuracy by 4.7 percentage points (absolute) over training on real data alone. Our results suggest that artifact-aware augmentation and trial averaging are complementary tools for improving robustness in non-invasive speech BCIs.

Large-scale, multi-subject widefield calcium imaging provides unprecedented access to brain-wide cortical dynamics. However, the high dimensionality, complex spatiotemporal structure, and substantial task-irrelevant activity in widefield recordings have largely restricted modeling efforts to single-session analyses, limiting scalability and generalization. While multi-subject pretrained models have been explored for some neural modalities, multi-subject models for widefield calcium imaging have not yet been demonstrated; further, subject-invariant zero-shot behavior decoding remains elusive for multi-subject models across neural modalities more broadly. As a first step toward foundation modeling of widefield data, we introduce WiCAT, a multi-subject model that leverages self-supervised pretraining to both outperform single-session models and enable zero-shot behavior decoding on unseen subjects. WiCAT introduces an atlas-grounded tokenization scheme without session-specific components and learns globally shared spatiotemporal representations. Across multiple widefield datasets, the pretrained model supports lightweight downstream decoding, transfers across subjects, tasks, and datasets, and outperforms baseline models. Notably, the model also achieves robust zero-shot continuous behavior decoding and left-out brain region reconstruction on unseen subjects.

Brain decoding aims to uncover neural mechanisms by inferring stimulus-related representations from brain signals. In fMRI studies, this is typically achieved by mapping fMRI responses to the latent representations of computational models. Recently, CLIP has become a popular choice for brain decoding due to its rich vision--language embedding space. However, aligning fMRI signals with CLIP representations remains challenging. As CLIP is not explicitly optimized for neural alignment, its representations may capture statistically predictive cues that are only partially reflected in brain activity, limiting decoding performance. In this paper, we investigate whether adversarially robust representations improve neural decoding with CLIP. Adversarial training suppresses non-robust features and promotes more stable, perceptually structured representations, which may better align with brain activity. We evaluate this by fixing the fMRI decoder and varying only the target representation (standard CLIP vs. robust variants) on fMRI-image retrieval and zero-shot classification tasks across NSD and GOD datasets. Empirical results show that this simple change consistently improves task performance and yields stronger alignment across multiple metrics. Attribution analysis further reveals consistently low agreement between standard CLIP and its robust variants, suggesting that adversarial robustness reorganizes feature importance in the visual representation. These findings suggest that the choice of target representation influences neural decoding performance and that adversarial robustness may serve as a useful criterion for brain decoding.

Electroencephalography (EEG) decoding for brain-computer interfaces (BCIs) faces a major challenge: substantial inter-subject variability limits effective cross-subject generalization. Consequently, practical systems still rely largely on subject-specific models trained from scratch and requiring individual recalibration. EEG foundation models have recently emerged as a promising alternative; however, even large pretrained models cannot simply be used as fixed feature extractors and still require additional adaptation before they can be reliably applied to downstream tasks. In this work, we address this challenge through targeted adaptation strategies. Building on recent EEG foundation models such as REVE, LaBraM, and LUNA, we examine the impact of different low-rank adaptation strategies on motor imagery classification. We propose a framework that structurally decouples subject-invariant knowledge from subject-specific neural signatures: the low-rank update at each adapted layer is split into a Global adapter, trained jointly across all subjects, and Subject-Specific adapters, each absorbing individual variability. To assess the contribution of each path, we compare three adaptation strategies: (i) subject-specific LoRA (ii) global LoRA and (iii) stacked LoRA, combining both Global and Subject Specific adapters. Experiments on BCI Competition IV-2a, PhysioNet Motor Imagery, and the clinical Zuo2025 benchmark show that Stacked LoRA effectively mitigates inter-subject variability, achieving the best accuracy in the large majority of backbone and dataset combinations. Our analysis further reveals that the optimal balance between the global and subject-specific paths depends on the target population: a shared adapter is sufficient for large, diverse cohorts, whereas subject-specific adaptation is decisive under the high inter-session variability of clinical recordings.

Modeling the bidirectional correspondence between external sensory stimuli and internal neural activity has emerged as a critical frontier in neuroscience. However, existing approaches predominantly treat brain encoding and decoding as isolated tasks, relying heavily on unimodal alignment and external priors while overlooking the brain's intrinsic nature as a multimodal integration system. To address these limitations, we propose BrainJanus, the first unified brain model that integrates brain, vision, and language within a single framework. Specifically, we introduce a Unified Brain Tokenizer to quantize continuous neural dynamics into discrete tokens aligned with visual and linguistic representations in a shared Omni space. Building on this, we utilize an All-in-One autoregressive architecture that leverages next-token prediction to enable seamless any-to-any generation, which encompasses image-to-brain and text-to-brain encoding, and brain-to-image and brain-to-text decoding. Extensive experiments demonstrate that BrainJanus achieves superior performance across diverse benchmarks. Furthermore, our framework exhibits zero-shot generalization and preserves interpretable biological topography, highlighting its potential as a general-purpose brain modeling paradigm. The code is available at GitHub.

Deep learning models for surface electromyography (sEMG) can benefit substantially from subject-specific (re-)calibration, since no sufficiently large and diverse datasets are available to train fully generic decoders. However, for user acceptance, the number of repetitions that can realistically be collected during calibration is severely limited, which increases the risk of overfitting and, in extreme cases, can even degrade performance compared to the uncalibrated model. Classical overfitting indicators such as validation performance and regularization with early stopping are difficult to apply in this low-sample regime, as they require additional held-out data that is rarely available in practical calibration scenarios. In this work, we investigate a recently proposed class of memorization indicators based solely on the activation statistics of rectified linear units (ReLU) in deep neural networks, which can be computed directly from training data without any extra validation set. We conduct a transferlearning experiment on a benchmark sEMG dataset, where a convolutional neural network is first pre-trained on multiple subjects and subsequently fine-tuned on individual users using only a small number of repetitions. During calibration, we monitor both decoding performance and the activation behaviour of the last hidden layer. Our results provide first evidence that decreases in test accuracy during fine-tuning are ac companied by characteristic changes in activation rates, indicating that activation-based memorization indicators are a promising tool for early spotting of unsuccessful learning in low-sample sEMG calibration settings.

Foundation decoders, a class of high-capacity neural decoders, are leading candidates for fault-tolerant quantum computing, with accurate and efficient decoding at large code distances. However, their construction often faces a steep scaling barrier, as larger code distances rapidly amplify the cost of syndrome generation and neural optimization. To address this bottleneck, here we devise neural transfer unification (NTU), a unified framework for efficient foundation decoders. A central feature of NTU is its ability to align decoding tasks across code distances via algebraic structures shared by scalable code families, which enables knowledge learned on smaller codes to accelerate large-scale decoder training. We instantiate NTU as NTU-Transformer, a transformer-based neural decoder tailored for planar surface codes and bivariate bicycle codes. For planar surface codes under circuit-level noise, NTU-Transformer outperforms correlation-aware matching on the $[\![361,1,19]\!]$ code and further scales to the $[\![625,1,25]\!]$ code, where it exceeds standard matching through transfer adaptation. For the bivariate bicycle code with $[\![72,12,6]\!]$, it surpasses Relay-BP in the low-physical-error regime. These results establish our proposal as a scalable route to amortized cross-distance training of foundation decoders for fault-tolerant quantum processors.

Decoding inner speech from non-invasive brain signals remains a fundamental challenge due to the absence of overt linguistic output, limited training data, and large inter-subject variability. Existing brain-to-text approaches often rely on task-specific decoder fine-tuning, which restricts scalability and complicates adaptation to new participants. We propose MindAlign, a decoupled two-stage brain-to-language framework that enables open-ended text generation from fMRI signals without modifying the underlying language model. The first stage learns a subject-specific neural-semantic alignment that maps fMRI activity into a shared multimodal semantic space, extracting a latent semantic sketch of the internally generated sentence. The second stage integrates this sketch with visual context to prompt a frozen multimodal language model for free-form generation. Experiments on fMRI data collected during silent image description demonstrate that the proposed approach consistently outperforms fMRI-only and random baselines. We further show that the learned semantic-to-language projection can generalize across subjects, enabling effective decoding when paired with subject-specific neural alignment. These results indicate that neural signals modulate semantic content beyond image-driven priors, supporting a scalable and modular direction for brain-to-text decoding.

Aligning neural activity across subjects offers the promise of discovering shared computational principles and generalizable decoders. However, traditional alignment methods require shared stimuli across subjects, a constraint that limits applicability to naturalistic paradigms with limited or non-overlapping data. We introduce a Multi-Encoder-Decoder Variational Autoencoder (MED-VAE) that achieves cross-subject alignment without shared stimuli by anchoring representations to a common scaffold provided by a pretrained ANN. Using the Natural Scenes Dataset, we show that MED-VAE creates common latent spaces with superior semantic organisation, achieving higher cross-subject alignment than common methods while maintaining robust generalisation to held-out stimuli where traditional methods degrade. Reconstructing from these common spaces back to each subject's original neural space, MED-VAE preserves equal stimulus-driven signal in its cross-subject latent space. Finally, we show that this superior alignment directly enables cross-subject neural prediction, as demonstrated via cross-subject image decoding. In summary, we introduce a framework to identify generalisable common subspaces for cross-subject predictions and downstream tasks, demonstrated here for visual cortex responses to static images.

Intracortical brain-computer interfaces suffer from day-to-day neural signal shifts that degrade pretrained decoders. Existing unsupervised adaptation methods rely on deep recurrent or adversarial architectures that are too computationally expensive for implantable hardware. We propose Membrane Potential Alignment (MPA), a test-time adaptation method for spiking neural networks that realigns a pretrained decoder to shifted recordings by only matching membrane potential distributions via KL divergence. By restricting updates to low-rank (LoRA) weights, MPA adapts fewer than 9% of parameters. On a non-human primate reaching task spanning over one month, MPA achieves performance competitive with the state-of-the-art NoMAD method, while using a simpler architecture and finer temporal resolution (4 ms vs. 20 ms). These results show that efficient SNN-based test-time adaptation is a practical path toward long-term, recalibration-free brain-computer interfaces.

Auditory attention decoding (AAD) aims to infer the attended speaker from neural responses in multi-speaker acoustic environments and is a key problem for neuro-steered hearing systems. Although recent studies have achieved encouraging progress, existing AAD models still do not fully exploit frequency domain electroencephalography (EEG) information. In particular, most approaches introduce multi-band information through handcrafted feature extraction or direct cross-band feature concatenation, which mainly exploit frequency information at a shallow level and may overlook band-specific patterns and cross-band interactions. To address these limitations, this paper proposes FAConformer, a frequency-aware CNN-Transformer framework for AAD that explicitly integrates band-specific encoding and adaptive cross-band interaction. Specifically, FAConformer first decomposes EEG signals into multiple frequency bands and assigns each band to an independent CNN-Transformer encoder for band-specific modeling. The resulting band-wise features are then adaptively fused by a carefully designed frequency-aware attention (FAA) module that models cross-band dependencies by treating band-wise features as tokens. Further, band-wise auxiliary supervision (BAS) is introduced to prevent weakly contributing branches from being under-optimized during joint training. In this way, FAConformer performs frequency-aware modeling that more effectively exploits frequency domain information. Extensive experiments on two public AAD datasets with three decision-window lengths demonstrated that FAConformer consistently outperformed 12 competitive baselines, surpassing the current state-of-the-art model by 4.9%. Further analyses of band importance, ablation, and parameter sensitivity verify the effectiveness, robustness, and interpretability of the proposed framework. Code is available at https://github.com/wzwvv/FAConformer.

Molecular communication (MC) suffers from severe diffusion memory because molecules released for one symbol may arrive during later symbols. Neural sequence detectors, especially sliding bidirectional recurrent neural networks (SBRNNs), can substantially outperform threshold detectors in such channels. This raises a central question for MC channel coding: does a code whose advantage was established under threshold detection retain it when both coded and uncoded transmission are evaluated with neural detection? This letter answers this question for run-length-limited ISI-mitigation (RLIM) codes, a class of constrained codes previously shown to provide large BER gains in MC. Across the tested operating points, the best RLIM-SBRNN receiver beats the best uncoded receiver, chosen between threshold and SBRNN detection, in $46$ of $59$ cases, with a mean gain of $10.36\times$ over those wins. We also propose an RLIM-tailored training mask for compact SBRNN detectors, improving the unmasked RLIM-SBRNN in $227$ of $236$ comparisons with $3.267\times$ mean gain when masking is beneficial. Finally, the compact masked RLIM-SBRNN is competitive with channel-state-aware MLSE despite using no channel knowledge.

Recent developments in brain recording are driving a demand for machine learning tools capable of decoding the latent structure of large populations of neurons. In this paper, we provide a comprehensive survey that outlines the trajectory of Latent Variable Models (LVMs) from early state-space models to more recent deep generative models. We organize the literature into three closely related domains: (1) Single-Region Latent Dynamics, which includes models such as linear dynamical systems to more complex dynamics represented by Recurrent Neural Networks (RNNs) and Neural Ordinary Differential Equations (ODEs); (2) Multi-Region Communication, which employs probabilistic as well as subspace methods to study how information is transferred across different brain areas considering synaptic propagation delays and network connectivity; and (3) Behavior-Aligned Modeling, which seeks to disentangle neural activity related to task performance from other internal states via supervised or contrastive learning. This survey also includes large-scale neural foundation models, such as Transformers and diffusion models, that rely on large-scale pre-training for optimal performance across subjects. Finally, we conclude and discuss benchmarks, evaluation criteria, and open challenges, such as the ability to identify causal links or directionality of communication, to facilitate future research for bridging interpretable brain dynamics with reliable neural decoding.