Versatile Framework with Semantic and Structural guidance for Image Reconstruction from Brain Activity

Reconstructing visual stimuli from brain recordings has been a meaningful and challenging task in brain decoding. Especially, the achievement of precise and controllable image reconstruction bears great significance in propelling the progress and utilization of brain-computer interfaces. Recent methods, leveraging advances in the power of text-to-image generation models, have reconstructed images that closely approximate complex natural stimuli in terms of semantics (e.g., concepts and objects). However, they struggle to maintain consistency with the original stimuli in fine-grained structural information (e.g., position, orientation and size), which undermines both the controllability and interpretability of the models. To address the aforementioned issues, we propose a two-stage image reconstruction framework, termed MindDiffuser. In Stage 1, Contrastive Language-Image Pretraining (CLIP) text embeddings decoded from brain responses are input into Stable Diffusion, generating a preliminary image containing semantic information. In Stage 2, we use decoded shallow CLIP visual features as supervisory signals, iteratively refining the feature vectors from Stage 1 via backpropagation to align structural information. We conducted extensive experiments on brain response datasets across three modalities (fMRI, EEG, MEG) elicited by visual stimuli, demonstrating that our framework significantly enhances the performance of previous state-of-the-art models, highlighting the effectiveness and versatility of our approach. Spatial and temporal visualization results further support the neurobiological plausibility of our framework, providing guidance for future neural decoding efforts across different brain signal modalities.

Mind-Omni: A Unified Multi-Task Framework for Brain-Vision-Language Modeling via Discrete Diffusion

Modeling the interplay between external stimuli and internal neural representations is a pivotal research area for Brain-Computer Interfaces (BCIs). A major limitation of prior work is the prevailing paradigm of specialized, single-task models, which curtails versatility and neglects inter-task synergies. To address this, we propose Mind-Omni, the first versatile framework that unifies seven distinct encoding and decoding tasks through a discrete diffusion paradigm. At its core is a novel Brain Tokenizer that transforms heterogeneous, continuous brain signals into standardized, discrete tokens. This enables direct, token-level interactions for mutual understanding and generation between any two or more modalities within a shared semantic space. To unlock advanced reasoning capabilities, we further curate a specialized Brain Question Answering (BQA) instruction-tuning dataset. Our model not only establishes a new state-of-the-art among multi-task unified frameworks but also provides strong evidence for multi-task synergy. By demonstrating performance competitive with, and at times superior to, larger specialized models, our work offers a powerful new paradigm for neural modeling and paves the way for foundation models of neural activity. The code is publicly available at https://github.com/ReedOnePeck/Mind-Omni.

Diffusion Model-Based Data Augmentation for Enhanced Neuron Segmentation

Neuron segmentation in electron microscopy (EM) aims to reconstruct the complete neuronal connectome; however, current deep learning-based methods are limited by their reliance on large-scale training data and extensive, time-consuming manual annotations. Traditional methods augment the training set through geometric and photometric transformations; however, the generated samples remain highly correlated with the original images and lack structural diversity. To address this limitation, we propose a diffusion-based data augmentation framework capable of generating diverse and structurally plausible image-label pairs for neuron segmentation. Specifically, the framework employs a resolution-aware conditional diffusion model with multi-scale conditioning and EM resolution priors to enable voxel-level image synthesis from 3D masks. It further incorporates a biology-guided mask remodeling module that produces augmented masks with enhanced structural realism. Together, these components effectively enrich the training set and improve segmentation performance. On the AC3 and AC4 datasets under low-annotation regimes, our method improves the ARAND metric by 32.1% and 30.7%, respectively, when combined with two different post-processing methods. Our code is available at https://github.com/HeadLiuYun/NeuroDiff.

NeuroMamba: Multi-Perspective Feature Interaction with Visual Mamba for Neuron Segmentation

Neuron segmentation is the cornerstone of reconstructing comprehensive neuronal connectomes, which is essential for deciphering the functional organization of the brain. The irregular morphology and densely intertwined structures of neurons make this task particularly challenging. Prevailing CNN-based methods often fail to resolve ambiguous boundaries due to the lack of long-range context, whereas Transformer-based methods suffer from boundary imprecision caused by the loss of voxel-level details during patch partitioning. To address these limitations, we propose NeuroMamba, a multi-perspective framework that exploits the linear complexity of Mamba to enable patch-free global modeling and synergizes this with complementary local feature modeling, thereby efficiently capturing long-range dependencies while meticulously preserving fine-grained voxel details. Specifically, we design a channel-gated Boundary Discriminative Feature Extractor (BDFE) to enhance local morphological cues. Complementing this, we introduce the Spatial Continuous Feature Extractor (SCFE), which integrates a resolution-aware scanning mechanism into the Visual Mamba architecture to adaptively model global dependencies across varying data resolutions. Finally, a cross-modulation mechanism synergistically fuses these multi-perspective features. Our method demonstrates state-of-the-art performance across four public EM datasets, validating its exceptional adaptability to both anisotropic and isotropic resolutions. The source code will be made publicly available.

Animate Your Thoughts: Decoupled Reconstruction of Dynamic Natural Vision from Slow Brain Activity

Reconstructing human dynamic vision from brain activity is a challenging task with great scientific significance. The difficulty stems from two primary issues: (1) vision-processing mechanisms in the brain are highly intricate and not fully revealed, making it challenging to directly learn a mapping between fMRI and video; (2) the temporal resolution of fMRI is significantly lower than that of natural videos. To overcome these issues, this paper propose a two-stage model named Mind-Animator, which achieves state-of-the-art performance on three public datasets. Specifically, during the fMRI-to-feature stage, we decouple semantic, structural, and motion features from fMRI through fMRI-vision-language tri-modal contrastive learning and sparse causal attention. In the feature-to-video stage, these features are merged to videos by an inflated Stable Diffusion. We substantiate that the reconstructed video dynamics are indeed derived from fMRI, rather than hallucinations of the generative model, through permutation tests. Additionally, the visualization of voxel-wise and ROI-wise importance maps confirms the neurobiological interpretability of our model.

MindDiffuser: Controlled Image Reconstruction from Human Brain Activity with Semantic and Structural Diffusion

Reconstructing visual stimuli from brain recordings has been a meaningful and challenging task. Especially, the achievement of precise and controllable image reconstruction bears great significance in propelling the progress and utilization of brain-computer interfaces. Despite the advancements in complex image reconstruction techniques, the challenge persists in achieving a cohesive alignment of both semantic (concepts and objects) and structure (position, orientation, and size) with the image stimuli. To address the aforementioned issue, we propose a two-stage image reconstruction model called MindDiffuser. In Stage 1, the VQ-VAE latent representations and the CLIP text embeddings decoded from fMRI are put into Stable Diffusion, which yields a preliminary image that contains semantic information. In Stage 2, we utilize the CLIP visual feature decoded from fMRI as supervisory information, and continually adjust the two feature vectors decoded in Stage 1 through backpropagation to align the structural information. The results of both qualitative and quantitative analyses demonstrate that our model has surpassed the current state-of-the-art models on Natural Scenes Dataset (NSD). The subsequent experimental findings corroborate the neurobiological plausibility of the model, as evidenced by the interpretability of the multimodal feature employed, which align with the corresponding brain responses.