Papers for

neurotechnology developers

Papers whose findings have a practical use for this group, as judged from the abstract. Open a paper to read what it means in practice.

C elegans brain signals follow strongest routes not all paths

Every route counts, but some count more: a max-plus view of the C. elegans brain

Abstract: Brains do not simply add up every signal they receive: they select which routes dominate. Yet connectomes are usually analyzed with tools that sum over all paths and place neural states in Euclidean spaces, blurring the feedback circuits that may sustain internal states. Here we treat neural signaling as routing instead of diffusion and describe it with max-plus algebra, in which signals accumulate along a path and the strongest route prevails. We propose a model in which the functional connectome of Caenorhabditis elegans emerges from the time-varying combination of electrical, synaptic, monoaminergic, neuropeptidergic and hormonal layers, and analyze five networks within this framework. Each collapses onto a handful of dominant feedback loops, which recover well-characterized circuits and point to new candidates for experimental study. Unlike linear spectra, these structures keep the biological meaning of the data, and their order-based description suggests that brain states live in lattices rather than Euclidean spaces.

Tue 27 OctNeural and Evolutionary Computing
The gist
Brains send signals along many paths, but not all paths matter equally. The authors studied the worm C. elegans and showed that its brain activity is best described by focusing on the strongest routes signals take, instead of adding all routes together. They used a math method called max-plus algebra to analyze different types of brain connections and found key feedback loops that could explain how the brain keeps certain states active. This approach suggests that brain activity follows a pattern more like a lattice than like points in ordinary space.
Open → 2610.37587v1

Semantic correspondence reveals shared geometry in neural networks

The Geometry of Meaning in Neural Manifolds

Abstract: Just as different languages express the same concept through different words, neural networks express similar functions through incompatible coordinate systems. Different architectures, random initializations, and optimization trajectories produce incompatible parameterizations in extrinsic coordinates, obscuring functional relationships between independently trained models. When models independently solve similar tasks on related data, do their learned representations share exploitable structure despite incompatible coordinates? This thesis shows that semantic correspondence is a fundamental primitive revealing shared geometric structure beneath incompatible parameterizations. By identifying which elements refer to the same semantic content, correspondence breaks the symmetry of arbitrary implementation choices, anchoring incompatible systems to a shared semantic frame and revealing the intrinsic geometry that enables zero-shot transformation between independently trained models. Building on this principle, fourteen contributions explore correspondence-based alignment across zero-shot model stitching, cross-modal translation, policy transfer, activation steering, and neural decoding. They span domains (vision, language, reinforcement learning, neuroscience), architectures (CNNs, Transformers, graph networks), and scales (from small supervised models to billion-parameter generative systems). Each exploits different geometric properties (angular, metric, spectral, sparse, or distributional), yet all instantiate the same principle. It extends beyond artificial systems: fMRI data show that different human brains processing identical stimuli exhibit alignable geometric structure. By revealing intrinsic geometric structure beneath extrinsic parameterization, semantic correspondence transforms model isolation into interoperability.

Thu 22 OctArtificial Intelligence
The gist
Different neural networks often represent the same ideas in completely different ways, making it hard to compare or combine them. This paper shows that by finding connections between parts that mean the same thing in different models, we can line them up and understand their shared structure. This lets us transfer knowledge between models without retraining, work across different types of AI systems, and even relate brain activity patterns across people. The authors demonstrate this idea across many tasks, network types, and data, highlighting a hidden shared geometry beneath the surface differences.
Open → 2610.30938v1

EEG foundation models vary in how they use brain signal details

Probing Spatial and Spectral Grounding in EEG Foundation Models

Abstract: EEG foundation models are advancing at an unprecedented pace, yet their evaluation is driven by downstream accuracy, which reveals little about whether their predictions rely on physiologically interpretable signal structure. We introduce a set of perturbation probes in two grounding axes: spatial grounding in channel identity and topographic locality, and spectral grounding in oscillatory content and waveform morphology. We apply these probes to five published EEG foundation models across motor-imagery and seizure recordings. Our experiments reveal differences in both representational sensitivity and downstream reliance. Electrode identity may be encoded without influencing downstream classification: permuting LaBraM's positional codes heavily displaced its embeddings yet reduced motor-imagery accuracy by only 1.2 points, while spectral details may be discriminable without producing specific responses to simulated clinical markers, as only REVE exceeded a spectral baseline on this task. These dissociations are hidden in common benchmarks, demonstrating how grounding probes can complement performance-based evaluation by revealing what EEG foundation models encode and what their predictions depend on.

Wed 21 OctNeural and Evolutionary Computing
The gist
Brain signal models called EEG foundation models are usually checked by how well they guess tasks, but this doesn't show if they use real brain signal features. The authors created tests that change the model inputs in specific ways to see if these models pay attention to where electrodes are placed or to types of brain wave shapes. By testing five popular models on two different brain signal tasks, they found that some models rely less on electrode locations or certain signal details than expected. These insights help understand what models really learn beyond just their accuracy scores.
Open → 2610.29367v1

Cnn classifies extraversion from brief eeg segments efficiently

CNN-based classifier for subject-independent MBTI Extraversion/Introversion preference classification from short-time EEG signals

Abstract: This study examines whether short, minimally preprocessed EEG segments contain sufficient information to distinguish between individuals classified as extraverted or introverted according to the Myers--Briggs Type Indicator (MBTI). EEG recordings from 50 participants were divided into 4-s segments and analyzed using a subject-independent nested 5-fold cross-validation procedure to compare EEGNet, EEGProgress, and a newly proposed compact convolutional architecture, SSCNet. SSCNet achieved the highest mean accuracy (0.6481), AUC (0.7063), and F1-score (0.6276). The proposed architecture also showed the lowest variability across folds. SSCNet demonstrated the best computational efficiency, with the shortest median training epoch time and the highest training throughput despite having a similar number of trainable parameters to EEGProgress. The results suggest that MBTI Extraversion--Introversion preferences may be moderately predictable from short time-domain EEG segments without manual spectral feature extraction, while highlighting the importance of subject-independent validation and computationally efficient model design.

Tue 20 OctMachine Learning
The gist
This study looks at whether short bursts of brain activity data (EEG) can tell if someone is more outgoing or reserved, based on a common personality test. The authors tested three different computer models to see which could best guess this personality trait without needing extra complicated data processing. They found their new model, SSCNet, was the most accurate and fastest at learning from the EEG data. This means simple brain data might reveal something about personality, and it also shows how important it is to test models on new people and keep them efficient.
Open → 2610.28442v1

Certain brain areas predict hypnotic susceptibility better than others

Region-Specific EEG Classification of Hypnotic Susceptibility Using a Sliding-Window 2D CNN: A Subject-Independent Evaluation

Abstract: We investigate whether a 2D Convolutional Neural Network (CNN) trained on minimally preprocessed EEG signals can classify hypnotic susceptibility across distinct brain regions. Sixty-two male participants (32 Control, 30 Guided Imagery / Hipno group) underwent a 20-minute EEG recording using a 256-channel EGI cap. A sliding-window approach evaluates all 10-second windows within the recording for each of seven predefined brain regions (prefrontal, frontal, temporal, central, parietal, occipital, and facial), yielding up to 868 independently trained models. Initial screening with a segment-level 90/10 random split showed that five regions exceeded the 0.67 accuracy threshold, with the occipital region achieving the highest mean accuracy (0.721) across 90.3% of windows. Subject-independent evaluation via Leave-One-Subject-Out (LOSO) cross-validation, however, substantially revised this picture: occipital performance collapsed to near-chance (mean ACC 0.453, AUC 0.429), revealing that high random-split accuracy was driven by subject-specific EEG fingerprints rather than genuine group differences. In contrast, the frontal and prefrontal regions maintained above-chance LOSO accuracy (0.646 and 0.624, respectively), demonstrating genuine generalisability. These results underscore the necessity of subject-independent validation in EEG-based classification studies and highlight anterior cortical regions as more reliable neural markers of hypnotic susceptibility.

Tue 20 OctMachine Learning
The gist
The study looked at whether brain signals from different regions can tell if someone is more open to hypnosis. By analyzing EEG recordings from many areas on the head, the researchers found that signals from the front part of the brain gave reliable clues that could work across many people. Signals from the back of the brain seemed useful only when looking at the same person's data but not for others. This means using brain data from front regions is better for guessing hypnotizability across different individuals.
Open → 2610.28427v1

EEG signals reveal word and context tracking across deep language model layers

Deep LLM layers expose passage-level context in EEG during silent reading

Abstract: In a previous report we showed that a decoder can recover open-vocabulary word-level information from 19-channel EEG recorded during silent reading, by aligning short EEG windows with hidden-state embeddings of the presented word taken from a large language model (LLM). That analysis contrasted two of the model's 33 layers: the context-free input embedding and one mid-depth layer. Here we ask how EEG-decodable structure is distributed over the full depth of the language model. We trained one decoder per layer of Llama-3.1-8B, with and without a causal transformer over the sequence of EEG windows. We distinguish word-level decodability from a context-tracking component. Word-level decodability peaks in early layers and declines steadily towards the last layer. In contrast, the context-tracking component of the retrieval gain rises with depth, both with and without a causal transformer. Unexpectedly, a decoder that sees a single 0.5-s window at a time tracks the text passage too. Two new controls dissect this component. A target-geometry control, a synthetic predictor made of the true target plus noise calibrated to each decoder's word-level accuracy, shows that context tracking is not a by-product of word decoding and target geometry. A control that permutes predictions across runs from either the same or from different sessions shows that most of the observed context-tracking is not caused by an EEG recording session signature. Instead, context tracking mostly follows the text. A single EEG window therefore carries passage-level information that a contextual target can absorb. The results locate word identity in the early layers of the language model, discourse state in the deeper layers, and make the choice of target layer a design dial for EEG language decoders.

Fri 16 OctMachine Learning
The gist
This paper studies how brain signals measured by EEG during silent reading relate to the layers of a large language AI model. Early layers of the model correspond to recognizing individual words from the EEG data, while deeper layers capture the overall meaning or context of the passage. The researchers found that even a short EEG snapshot contains clues about the whole text, not just single words. This helps map how different levels of language understanding appear in brain activity and AI model layers.
Open → 2610.23638v1

Brain models better match people’s picture similarity judgments

Alignment of visual brain encoding models with individual perceptual similarity judgments

Abstract: Encoding models that predict brain activation responses to images have traditionally been trained to maximize accuracy when predicting observed brain data. However, their internal representations may not reflect individual human perception. In this work, we investigate whether we can fine-tune brain encoding models to better align their representations with individuals' similarity judgments. Using similarity judgments of 100 images from 8 participants in the Natural Scenes Dataset (NSD), we adapt a generic human similarity judgment model (DreamSim) separately for each participant to obtain personalized perceptual similarity models. These models are then used to obtain subject-specific similarity structure across images in their encoding model training sets. We fine-tune each participant's baseline encoder in two conditions, aligning its representations with either generic or personalized similarity judgments, with the same initialization and objective. We find that baseline brain encoders reflect within-subject perceptual similarity more strongly than measured fMRI responses and preserve intersubject correlations present in measured fMRI, but fail to reflect those of human perceptual similarity judgments. Fine-tuning with generic, population-level perceptual similarity information results in better alignment with human judgments than baseline encoders, but these models still fail to capture intersubject correlations of human judgments. However, fine-tuning with personalized perceptual similarity information results in models that are the most aligned with human perceptual similarity judgments and also reflect intersubject correlations of human judgments. Our framework provides an approach for bootstrapping human similarity judgment data into more individualized, human-aligned brain encoding models of vision.

Thu 15 OctComputer Vision and Pattern Recognition
The gist
Brain models used to predict how images activate the brain don’t always match how individual people see similarities between pictures. The authors fine-tuned these models using each person’s own similarity judgments on pictures. This personalized tuning made the brain models reflect individual perception more closely than before. It also captured how people differ or agree in their perception better than generic models.
Open → 2610.22569v1

Extended reality offers new ways to study human brain and behavior

Moving Beyond the Flat Screen: Opportunities and Challenges of Extended Reality for Studying Human Brain and Behavior

Abstract: Much of what we know about human perception and cognition comes from austere experimental settings: static stimuli presented to sedentary observers on flat monitors, complex responses reduced to simple button presses, and brain activity recorded from immobilized heads using EEG or fMRI. These highly controlled paradigms have provided remarkable insights, but capture a small and often unusual slice of behavior, raising questions about how well the findings generalize to the real world. Extended reality (XR), spanning both immersive virtual reality (VR) and augmented reality (AR) that overlays digital content on the real world, offers a way beyond these constraints, supporting controlled, reproducible experiments in which participants actively engage with three-dimensional tasks. Drawing on a growing body of VR and AR studies of attention, memory, and language -- our own and others', some involving EEG -- we outline what XR makes newly possible for cognitive neuroscience and reflect on the practical and conceptual obstacles that remain. The opportunities are substantial, but realizing them requires solving practical problems of hardware, timing, and measurement, and being realistic about what a virtual or augmented world can and cannot stand in for.

Tue 13 OctHuman-Computer Interaction
The gist
Most brain and behavior studies happen with people sitting still looking at flat screens, which doesn't fully match how we act in real life. The authors discuss how extended reality (XR), which includes virtual reality and augmented reality, lets researchers create more lifelike experiments where people move and interact naturally. These XR studies could reveal more about attention, memory, and language, but there are still challenges like hardware limits and measuring brain activity accurately. The authors highlight both the exciting possibilities and the practical problems of using XR in brain research.
Open → 2610.19199v1

Vision and language models represent children’s brain responses differently than adults

Vision Models Capture Complementary Representations in Children That Converge in Adults

Abstract: How the relationship between image-text aligned and vision-only models changes across development remains unknown. We applied time-resolved representational similarity analysis to EEG data from 8-year-olds, 12-year-olds, and adults. CLIP showed significant model-brain alignment already in children, whereas vision-only models aligned more strongly later in development. Residual analyses revealed complementary structure, with CLIP retaining alignment beyond an architecture-matched vision-only model from age 8. Much of the model-brain alignment reflected semantic structure, with EEG representations of category and animacy strengthening toward adulthood, while alignment with low-level image properties remained weak across age. Together, these findings suggest that image-text aligned and vision-only models capture complementary aspects of developing visual representations and may provide useful constraints for AI systems that aim to learn and adapt over time.

Mon 12 OctComputer Vision and Pattern Recognition
The gist
This paper studies how different artificial vision models match brain activity from children and adults when they see images. The authors found that image-text aligned models, like CLIP, match children's brain patterns well, while vision-only models line up better with adult brain patterns. Both types capture different, complementary ways the brain processes images and meanings as kids grow up. The study helps us understand how visual understanding evolves with age and could guide AI that learns more like humans.
Open → 2610.16860v1

MindVLM turns brain activity into personalized image descriptions

MindVLM: Neural-Grounded Visual Captioning via Subject-Aware Semantic Evidence Selection

Abstract: Translating visual brain activity into natural language offers a powerful window into human cognition and neural semantic representation. Most prior brain-captioning approaches project fMRI signals into language space using paired supervision. However, the widely used Natural Scenes Dataset (NSD) was built based only on image-fMRI pairs, while existing methods rely on MS-COCO captions as indirect textual supervision. Critically, during fMRI acquisition, participants observe only cropped image regions, whereas the associated MS-COCO captions describe full scenes. This mismatch creates a fundamental gap between neural representations and textual supervision, introducing an inherent semantic loss in NSD-based brain captioning. To mitigate this limitation, we reformulate brain captioning as Neural-Grounded Visual Captioning, where language is generated directly from visually grounded neural evidence rather than text supervision. We propose MindVLM, a framework that maps fMRI signals into subject-aware visual tokens and leverages a frozen vision language model (VLM) to produce interpretable and personalized descriptions. Instead of point-wise regression, MindVLM focuses on extracting semantically relevant visual cues from neural activity, naturally accommodating partial observability and inter-subject variability. Extensive experiments on NSD show that MindVLM consistently improves caption quality across multiple VLM backbones, including LLaVA-v1.5, Qwen2.5-VL, and Gemma3, beyond intrinsic model priors. Despite requiring neither text supervision nor an LLM during training and operating under an image-grounded inference paradigm distinct from conventional captioning methods, MindVLM remains competitive with supervised approaches, suggesting that subject-specific neural grounding provides an efficient, scalable, and interpretable path toward faithful brain-to-language generation.

Thu 8 OctComputational Engineering, Finance, and Science
The gist
Translating what people see in their brains directly into words is hard because brain data and text descriptions don’t always match. The authors found that existing methods use captions describing whole images, but brain scans often reflect only parts of an image someone is looking at. To fix this, they created MindVLM, which uses brain signals to select visual cues before generating captions, making the output more personalized and accurate. This method works without relying on direct text training and performs well compared to traditional captioning systems.
Open → 2610.12673v1

Social pain disrupts brain emotion action links in self injuring teens

Social Pain Disrupts Emotion-Action Brain-State Dynamics in Adolescents with Non-Suicidal Self-Injury

Abstract: Non-suicidal self-injury (NSSI) is prevalent among adolescents with depression, but the rapid brain-state dynamics linking social distress to maladaptive behavior remain unclear. We combine an experimental pain paradigm, electroencephalography (EEG) microstate analysis, and interpretable deep sequence modeling to investigate NSSI-related neurodynamics in 106 adolescents with depression, including 67 with NSSI (DN+) and 39 without NSSI (DN-), during social pain, physical pain, and resting-state conditions. A model integrating disease-specific, domain-adversarial, consistency, and contrastive learning captures higher-order dependencies in microstate sequences. Social pain yields the strongest NSSI discrimination, with 68.55% accuracy, outperforming the best baseline by 8.94% points. Model interpretation and conventional microstate analyses reveal weakened bidirectional transitions between MS3 and MS5 in DN+ adolescents during social pain. Source reconstruction associates MS3 with emotional/interoceptive processing and MS5 with action preparation, suggesting disrupted emotion-action coupling. Time-resolved analyses show greater early-to-middle action-state recruitment and later emotion-state recruitment in DN+ adolescents. In DN- adolescents, MS5-to-MS3 dynamics mediate associations between social-evaluation sensitivity and affective outcomes, whereas this mediation is absent in DN+; conversely, MS3-to-MS5 transitions are associated with greater negative affect in DN+. Together, these findings identify disrupted emotion-action coupling as a key neurodynamic mechanism underlying altered social pain processing in adolescents with NSSI, providing a mechanistically interpretable neural signature for objective identification of NSSI.

Thu 8 OctArtificial Intelligence
The gist
Many teenagers who hurt themselves without intending to die experience strong social pain. The authors studied brain activity patterns in depressed teens with and without this behavior, especially during social stress. They found that teens who hurt themselves have a breakdown in the brain’s usual link between feeling emotions and preparing actions. This could help us recognize when someone is struggling and better understand their feelings and behaviors.
Open → 2610.11155v1

CircuitATLAS maps brain circuits to find new neurological drug targets

CircuitATLAS: Agentic reasoning over a systems neuroscience knowledge graph for target discovery in circuitopathies

Abstract: Drug discovery for neurological disease has traditionally centered on the molecules altered by disease. But the molecules that cause pathology are not necessarily the best points from which to reverse it. Here, we ask which otherwise unaltered molecular control points can be engaged to restore pathological neural circuits toward functional states. We present CircuitATLAS, a provenance-grounded systems-neuroscience knowledge graph and agentic framework for target discovery in circuitopathies. It structures literature-derived relationships across diseases, phenotypes, electrophysiology, circuits, brain regions, cell types and molecular effectors, while deliberately excluding direct disease-gene and disease-protein edges to reduce shortcut reasoning. The graph contains 3.83 million nodes and 7.66 million edges, including 5.31 million LLM-extracted relations, and incorporates structured datasets such as the Human Cell Atlas and new multimodal in vivo measurements. We then introduce an agentic workflow that reasons from measurable disease phenotypes through their circuit and cellular substrates to molecular interventions, therapeutic feasibility and clinical constraints. Finally, we introduce a human-governed in vivo lab-in-the-loop linking hypothesis generation to experimental iteration. Within this framework an agent nominated ATP1A3, the neuronal alpha3 Na+/K+-ATPase, as a control point on cortical excitability; interneuron-restricted expression of ATP1A3 abolished the beta- and gamma-band response to a focal 4-aminopyridine challenge in vivo, and the validated target was then carried into a structure-guided small-molecule campaign terminating in a defined assay to resolve the direction of modulation. CircuitATLAS thus provides a framework for discovering therapeutics based not only on what is molecularly disrupted in disease, but on what can be controlled to restore circuit function.

Wed 7 OctArtificial Intelligence
The gist
Finding new treatments for brain diseases is hard because the molecules changed by disease aren't always the best to target. The authors created CircuitATLAS, a huge map of brain knowledge that links brain regions, circuits, cell types, and molecules but avoids shortcuts by excluding direct disease-molecule links. They built a system that can reason from disease symptoms to molecular targets that might fix brain circuit problems. They tested this by identifying a molecule, ATP1A3, that controls brain cell activity, confirmed its effect in living brains, and started developing drugs targeting it.
Open → 2610.09643v1

Detection transformers reveal fiber details from complex brain scans

Fiber-Resolved Microstructure Quantification from Multi-Shell Diffusion MRI using Detection Transformers

Abstract: Fiber orientation and compartmental microstructure are central to the characterization of white matter tissue in diffusion MRI, yet existing methods either resolve fiber orientations without quantifying microstructure, or quantify microstructure while assuming a fixed number of compartments and a single fiber direction. Nonparametric approaches that recover both require tensor-valued diffusion encoding and computationally expensive Monte-Carlo inversion of an ill-posed inverse Laplace transform. We propose to reframe this problem as an object detection-like task, adopting the Detection Transformer (DETR) architecture to jointly predict mean diffusivity (MD), fractional anisotropy (FA), main fiber direction, and signal fraction for a variable number of compartments per voxel from standard multi-shell diffusion MRI with linear encoding. Hungarian matching during training resolves permutation invariance across compartments. We introduce mean Average Precision as a reproducible benchmark metric. Evaluated on synthetic test data with up to five compartments per voxel, our model achieves $R^2=0.95$ for MD, $R^2=0.88$ for FA, and a median angular error of 4.2°, with performance scaling naturally with compartmental signal fraction.

Wed 30 SeptComputer Vision and Pattern RecognitionMachine Learning
The gist
Looking inside the brain's white matter is tricky because it contains many tiny fibers packed together. Existing methods either find the direction of these fibers or measure their properties, but not both at once when the fiber structure is complex. The authors used a special AI model called a Detection Transformer to predict both the fiber directions and their details from standard brain scans. Their approach works well even when there are several different fiber groups mixed in the same spot.
Open → 2609.39184v1

Spectral filtering improves brain data models for personalized prediction

Flattening the Connectome Spectrum: A Spectral Filter for FC Induces a Pretraining Target for fMRI Encoders

Abstract: Self-supervised pretraining reshaped prediction in language and vision, and brain foundation models (BFMs) inherited its promise. Representations learned from large unlabelled corpora should capture individual functional dynamics and generalise across cohorts. However, kernel ridge regression (KRR) fitted on functional connectivity (FC) matrices still predicts individual phenotypes more accurately than any BFM we tested. In this paper, we show that KRR is weighted by the eigenvalues of the FC which are miscalibrated for phenotype prediction. We apply an efficient spectral filter to recalibrate the eigenvalues of each subject's FC matrix, enabling the model to exploit more inter-individual variance. Across the 5 datasets, 11 parcellations and 6 prediction targets we tested, we match or exceed the KRR baseline. Based on this finding, we then pretrain a small encoder model on about 4,000 hours of fMRI from 162 open datasets, whereby we align the pairwise similarities between the embeddings of recording snippets with those between the recalibrated connectomes. Our model performs on par with the best of the 6 published BFMs we tested while having an order of magnitude fewer parameters. Our encoder performs better than FC on short scans and in smaller cohorts, especially in fingerprinting. We release the pretrained model weights, the code and the pretraining data, preprocessed and parcellated.

Tue 29 SeptArtificial IntelligenceMachine Learning
The gist
Functional MRI scans show how different parts of the brain connect, but predicting individual traits from this data can be tricky. The authors found that adjusting the mathematical properties of brain connectivity data helps models detect personal differences better. They used this adjustment to train a smaller brain data model that works as well as bigger models and does better with shorter scans and smaller groups. They also shared their model and code so others can use this improved approach.
Open → 2609.37642v1

NeuronDiscover separates causes of brain fluid transport in neurons

NeuronDiscover: Agent-in-Twin for Mechanistic Discovery in Neuronal Microenvironments with World Action Models

Abstract: Mechanistic discovery in neuronal microenvironments requires interventions and measurements that separate competing explanations of solute transport and neuronal response. Predictive accuracy cannot settle the question: a real mechanistic change and an error in the computational twin leave the same signature in sparse observations. We formalize this twin confounding and reason over a joint mechanism--discrepancy belief, designing experiments that separate the two. NeuronDiscover is an Agent-in-Twin framework whose shared, mechanism-grounded World Action Model (WAM) couples prediction, intervention proposals, and observation design; independently adjudicated outcomes revise a scoped Mechanism--Intervention--Observation--Outcome (MIOY) graph, whose supported relations compile into executable programs carrying discrepancy-adjusted acceptance bounds. We evaluate on simulated brain-fluid tracer-transport worlds adjudicated by an independently frozen finer-mesh reference solver, and on donor-disjoint public current-clamp recordings of cortical neurons. Counting only relations that reach a certified terminal status, and scoring abstentions as unresolved for every method, at a matched budget of 16 experiments over 32 source units NeuronDiscover resolves 4.0 relations per assigned world against 3.4 for the strongest baseline and 3.2 without graph revision, at 5% false support and 82% scope accuracy. Joint mechanism--discrepancy acquisition resolves 3.8 relations versus 2.9 for plug-in expected information gain; discrepancy-adjusted verification lowers accepted-program failure from 15% to 9% at 60% acceptance coverage; and transfer to the recordings yields 1.94 versus 1.53 relations per assigned world. Correctness is adjudicated within declared model worlds and archival recordings.

Mon 28 SeptMachine Learning
The gist
Understanding how fluids and signals move around neurons is tricky because errors in models can look like real changes in the brain. The authors designed a system called NeuronDiscover that acts like a digital twin to suggest smart experiments. This system helps figure out whether observations come from true brain mechanisms or just model errors, improving confidence in findings. They tested it with simulated brain data and real neuron recordings, showing it identifies correct explanations better than existing methods.
Open → 2609.35338v1

Brain signal analysis improves by modeling complex noise patterns

Beyond Gaussian Assumptions: Distribution-Aware Channel Capacity for Effective Connectivity

Abstract: Effective-connectivity estimation from brain signals often relies on Gaussian residual modeling, which enables tractable estimation but can discard informative distributional structure and distort inferred directed interactions when empirical residuals are non-Gaussian. We show across multiple modalities, species, and experimental conditions that both brain signals and fitted channel residuals frequently deviate from Gaussianity. We therefore introduce a distribution-aware, information-theoretic measure of effective connectivity based on channel capacity under general residual distributions. To estimate the resulting capacity from empirical, potentially non-Gaussian residuals, we develop a dual-flow min-max estimator based on normalizing flows, in which a generator searches over admissible input distributions under a power constraint while an observer estimates output entropy. We provide a theoretical characterization of the estimator, showing that the observer objective recovers differential entropy up to a KL approximation term, that the formulation reduces to classical Gaussian capacity as a special case, and that residual entropy can alter achievable information rates beyond variance; game-gap and error analyses further characterize optimization and approximation sources. In brain-like simulations with known directed connectivity, Dual-flow achieves the highest AUROC and AUPRC across ten conditions spanning diverse network topologies, hidden drivers, feedback, and heterogeneous hemodynamics, compared with Gaussian capacity, Granger causality, VAR-LiNGAM, and GIMME. Applied to multimodal brain signals, the method reveals time- and condition-resolved directed interactions consistent with known neurobiological circuitry. Together, these results establish a principled distribution-aware framework for effective-connectivity estimation beyond Gaussian residual modeling.

Sat 26 SeptMachine Learning
The gist
Estimating how different parts of the brain interact often assumes a simple type of noise called Gaussian noise, which can miss important details. The authors found that brain signals and their noise usually don’t follow this simple pattern. They created a new way to measure brain connectivity that considers these more complex noise patterns, resulting in more accurate insight into brain interactions. Their method uses advanced mathematical tools to better capture information flow in brain signals across different species and conditions.
Open → 2609.32774v1

EEG word tests show promise for adult ADHD screening

EEG-based Word Association Paradigm for Adult ADHD Screening: An Exploratory Pilot Study

Abstract: With the prevalence of Attention Deficit Hyperactivity Disorder (ADHD) over the past decades, healthcare systems across the globe face critical diagnostic challenges due to long diagnostic waiting times and a reliance on subjective behavioural assessments that cannot distinguish ADHD from comorbid psychiatric disorders, especially for adult patients. This exploratory study investigates whether EEG-based word association paradigms show promise as a complementary approach to screening for ADHD in adults. Using a mixed-method approach, the study examines neurological and cognitive differences between neurotypical individuals (NT), clinically diagnosed ADHD participants (ND), and self-reported ADHD cases awaiting formal diagnosis (SR) across three word association tasks. While established EEG biomarkers (ERP N400, Theta/Beta Ratio, and Alpha Suppression) show no significant group differences, semantic distance analysis reveals a statistically significant main effect ($p=0.003$), with the SR group showing the most divergent associations. These preliminary findings suggest that word association paradigms may capture cognitive differences not detected by standard EEG metrics and encourage further large-scale investigation as a potential complement to existing adult ADHD screening tools.

Fri 25 SeptHuman-Computer Interaction
The gist
Diagnosing ADHD in adults is tricky because current tests take a long time and rely on behaviors that can be similar to other disorders. This study looked at whether brain activity during word association tasks could help screen for ADHD. The researchers found that usual EEG brain wave measures didn’t distinguish groups well, but how people connected words did show differences, especially in those self-reporting ADHD symptoms. This suggests word association tasks combined with EEG might help identify adult ADHD better, but more research is needed.
Open → 2609.31359v1

Adaptive optimizer improves eeg decoding across different people

Adaptive Forgetting for Nonstationary Optimization: Towards Robust EEG Decoding

Abstract: Electroencephalography (EEG) provides non-invasive monitoring of brain activity and is widely used in emotion recognition, motor imagery and sleep staging. Although within-subject decoding has achieved considerable progress, cross-subject generalization remains a central challenge in practical applications. EEG decoders are typically trained with Adam/AdamW under a fixed second-moment decay coefficient, even though cross-subject learning involves low signal-to-noise ratios, subject variability, and gradient nonstationarity. A fixed coefficient implicitly assumes that gradient statistics are homogeneous across layers and time, which can limit model's adaptability to cross-subject EEG signals and degrade generalization. To address these issues, we propose AFOR, a tensor-wise adaptive optimizer that converts the fixed second-moment decay coefficient into a dynamic coefficient estimated online from local gradient state. AFOR combines a Residual-Alignment Signal Scorer (RASS) and an Adaptive Forgetting Controller (AFC). RASS summarizes local gradient residuals and directional agreement into a signal-quality score, and AFC maps this score through self-referential normalization to a bounded per-step decay coefficient, with cumulative-product initialization correction maintaining consistency under time-varying decay. Under a strict cross-subject protocol on three EEG benchmarks that cover three representative fields, AFOR achieves the best average performance among the compared optimizers, improving the mean test accuracy over Adam by 3.00%, 2.07%, and 4.38%, respectively.

Mon 21 SeptMachine LearningHuman-Computer Interaction
The gist
It is hard for brain signal decoding systems to perform well when used on different people because brain signals vary and are noisy. The authors propose a new method called AFOR that adjusts how it learns by watching the signals' behavior and changing its settings on the fly. This method helps the system adapt better to the differences between individuals and improves its accuracy in recognizing brain activity patterns. Tests on several EEG datasets showed that AFOR outperformed standard methods by a few percentage points.
Open → 2609.24233v1

Shared spatiotemporal motifs model brain spikes across tissue types

A discrete generative model of neuronal spiking activity on microelectrode arrays

Abstract: Generative models of neural activity could help characterize tissue dynamics, compare experimental conditions, and simulate population activity for applications ranging from disease and drug-response studies to closed-loop experimentation. Existing approaches, however, typically assume a fixed set of sorted neurons, whereas high-density microelectrode arrays produce extremely sparse, array-wide binary spike volumes in which the observed subset of electrodes varies across assays. We introduce a discrete generative model that represents this activity using a shared vocabulary of spatiotemporal motifs. A residual vector-quantized autoencoder learns the motif vocabulary, while a factorized masked transformer predicts where activity occurs and which motif appears at each active location. We evaluate the model on 31 assays spanning human brain organoids and acute \emph{ex vivo} human hippocampal tissue. The learned motifs are broadly reused: assay identity explains only $9%$ of the entropy in motif use, and motif overlap across tissue types is comparable to overlap within them. When representation quality is evaluated independently of the generative prior, our approach achieves $5.2\times$ the voxel-level reconstruction average precision of a matched flat tokenizer. For masked completion and free generation, the full model achieves $1.4$--$2.6\times$ the site-level average precision of the matched generative baseline and outperforms it across all four families of generation metrics. These results establish a compact, reusable representation for array-wide spiking activity without learned assay-specific parameters, providing a scalable foundation for generative modeling across diverse neural preparations.

Sun 20 SeptMachine Learning
The gist
Understanding how neurons fire is important for studying brain activity and diseases. This paper presents a way to model neuron spikes recorded by special electrodes, capturing these patterns as reusable motifs that appear across different brain tissues. The authors’ model learns these motifs and predicts where and when they occur, improving the accuracy of recreating and generating neuronal activity patterns. This approach works well on various human brain samples without needing to customize for each experiment.
Open → 2609.23907v1

Brainwidebench measures neural model transfer across mice and brain regions

BrainWideBench: Benchmarking large-scale pretraining and across-animal transfer in multi-region neural recordings

Abstract: Advances in large-scale neural recording have made it possible to collect data across many animals and distributed brain regions, raising the question of whether this scale can be exploited to learn general-purpose neural representations transferable across diverse downstream tasks. Yet, progress toward this goal has been limited by fragmented evaluation protocols and a narrow focus on individual task domains. Here, we present BrainWideBench, a benchmark for evaluating across-animal transfer on multi-region neural recordings, built on the International Brain Laboratory Brainwide Map dataset of neural and behavioral recordings spanning 276 brain regions from 139 mice performing a sensory-guided decision-making task. The benchmark is organized around three complementary task suites that evaluate whether learned representations support downstream decoding of behavior, can predict masked or future neural activity, and can recover biologically meaningful anatomical organization. With this benchmark, we systematically evaluate pretraining methods across transfer settings, including finetuning on downstream objectives and zero-shot generalization to unseen animals. Our results confirm pretraining improves performance over matched single-session baselines, but we show current methods exhibit heterogeneity in transfer capabilities: gains depend strongly on the alignment between pretraining objectives and downstream tasks. No single approach performs uniformly well across all three suites, and most methods are designed to only address a subset of them. Together, these findings suggest that learning representations that jointly generalize across behavior, dynamics, and anatomy remains an open challenge. By providing a unified and reproducible evaluation suite, BrainWideBench establishes a framework for measuring progress toward general-purpose models of the mouse brain.

Fri 18 SeptMachine Learning
The gist
Collecting brain activity from many mice and brain areas creates a huge amount of complex data. The authors introduce BrainWideBench, a benchmark to test how well computer models trained on this data can predict behavior, brain activity, and brain structure across different mice. Their results show that training models on large datasets improves performance compared to training on single sessions, but no single method works perfectly for all tasks. This benchmark helps researchers compare and improve models that aim to understand brain neural activity across individuals.
Open → 2609.22064v1

Multimodal model improves brain signal analysis without retraining

A Language-Guided Multimodal Foundation Model for Zero-Shot and Multi-Task Brain Signal Analysis

Abstract: Brain signal analysis is essential for both neuroscience research and clinical diagnostics, yet current approaches face critical limitations. End-to-end models require task-specific retraining and exhibit limited generalization, while pre-trained models lack semantic depth and still depend on extensive fine-tuning. Meanwhile, general-purpose multimodal foundation models, though powerful in other domains, struggle to interpret brain signals due to representational misalignment and lack of domain knowledge. This study introduces a multimodal foundation model for zero-shot and multi-task brain signal analysis (METIS) through a unified language-signal alignment framework. METIS is pretrained on the largest and most diverse brain-signal corpus to date, comprising over 70,000 h of recordings from more than 11,000 subjects across 20 datasets. In a comprehensive zero-shot evaluation across 12 datasets, METIS outperformed the leading generalist model by over 20.9% in average accuracy. Remarkably, without any fine-tuning, METIS's performance matches or exceeds that of supervised, task-specific models. Furthermore, METIS demonstrates exceptional data efficiency and strong generalization, achieving an average AUROC advantage of over 16.0% in few-shot settings and 15.9% in cross-dataset transfer. This work establishes a new paradigm for general-purpose brain signal analysis, paving the way for next-generation neurotechnology.

Mon 14 SeptMachine LearningArtificial Intelligence
The gist
Brain signals are important for studying the brain and diagnosing diseases, but existing models usually need to be retrained for each task or don’t understand the signals deeply enough. The authors created METIS, a large model trained on diverse brain signal data that can analyze many tasks without extra training. It performs better than previous general models across many tests and works well even with little new data. This opens up better ways to study and use brain signals.
Open → 2609.15740v1