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Jul 31

Beyond Core and Penumbra: Bi-Temporal Image-Driven Stroke Evolution Analysis

Computed tomography perfusion (CTP) at admission is routinely used to estimate the ischemic core and penumbra, while follow-up diffusion-weighted MRI (DWI) provides the definitive infarct outcome. However, single time-point segmentations fail to capture the biological heterogeneity and temporal evolution of stroke. We propose a bi-temporal analysis framework that characterizes ischemic tissue using statistical descriptors, radiomic texture features, and deep feature embeddings from two architectures (mJ-Net and nnU-Net). Bi-temporal refers to admission (T1) and post-treatment follow-up (T2). All features are extracted at T1 from CTP, with follow-up DWI aligned to ensure spatial correspondence. Manually delineated masks at T1 and T2 are intersected to construct six regions of interest (ROIs) encoding both initial tissue state and final outcome. Features were aggregated per region and analyzed in feature space. Evaluation on 18 patients with successful reperfusion demonstrated meaningful clustering of region-level representations. Regions classified as penumbra or healthy at T1 that ultimately recovered exhibited feature similarity to preserved brain tissue, whereas infarct-bound regions formed distinct groupings. Both baseline GLCM and deep embeddings showed a similar trend: penumbra regions exhibit features that are significantly different depending on final state, whereas this difference is not significant for core regions. Deep feature spaces, particularly mJ-Net, showed strong separation between salvageable and non-salvageable tissue, with a penumbra separation index that differed significantly from zero (Wilcoxon signed-rank test). These findings suggest that encoder-derived feature manifolds reflect underlying tissue phenotypes and state transitions, providing insight into imaging-based quantification of stroke evolution.

  • 4 authors
·
Feb 6

BrainDINO: A Brain MRI Foundation Model for Generalizable Clinical Representation Learning

Brain MRI underpins a wide range of neuroscientific and clinical applications, yet most learning-based methods remain task-specific and require substantial labeled data. Here we show that a single self-supervised representation can generalize across heterogeneous brain MRI endpoints. We trained BrainDINO, a self-distilled foundation model, on approximately 6.6 million unlabeled axial slices from 20 datasets encompassing broad variation in population, disease, and acquisition setting. Using a frozen encoder with lightweight task heads, BrainDINO supported transfer across tumor segmentation, neurodegenerative and neurodevelopmental conditions classification, brain age estimation, post-stroke temporal prediction, molecular status prediction, MRI sequence classification, and survival modeling. Across tasks and supervision regimes, BrainDINO consistently equaled or exceeded natural-image and MRI-specific self-supervised baselines, with particularly strong advantages under label scarcity. Representation analyses further showed anatomically organized and pathology-sensitive feature structure in the absence of task-specific supervision. Our findings indicate that large-scale slice-wise self-supervised learning can yield a unified brain MRI representation that supports diverse neuroimaging tasks without volumetric pretraining or full-network fine-tuning, establishing a scalable foundation for robust and data-efficient brain imaging analysis.

  • 8 authors
·
Apr 29

Look, Compare and Draw: Differential Query Transformer for Automatic Oil Painting

This work introduces a new approach to automatic oil painting that emphasizes the creation of dynamic and expressive brushstrokes. A pivotal challenge lies in mitigating the duplicate and common-place strokes, which often lead to less aesthetic outcomes. Inspired by the human painting process, \ie, observing, comparing, and drawing, we incorporate differential image analysis into a neural oil painting model, allowing the model to effectively concentrate on the incremental impact of successive brushstrokes. To operationalize this concept, we propose the Differential Query Transformer (DQ-Transformer), a new architecture that leverages differentially derived image representations enriched with positional encoding to guide the stroke prediction process. This integration enables the model to maintain heightened sensitivity to local details, resulting in more refined and nuanced stroke generation. Furthermore, we incorporate adversarial training into our framework, enhancing the accuracy of stroke prediction and thereby improving the overall realism and fidelity of the synthesized paintings. Extensive qualitative evaluations, complemented by a controlled user study, validate that our DQ-Transformer surpasses existing methods in both visual realism and artistic authenticity, typically achieving these results with fewer strokes. The stroke-by-stroke painting animations are available on our project website.

  • 5 authors
·
Mar 28

A multi-path 2.5 dimensional convolutional neural network system for segmenting stroke lesions in brain MRI images

Automatic identification of brain lesions from magnetic resonance imaging (MRI) scans of stroke survivors would be a useful aid in patient diagnosis and treatment planning. We propose a multi-modal multi-path convolutional neural network system for automating stroke lesion segmentation. Our system has nine end-to-end UNets that take as input 2-dimensional (2D) slices and examines all three planes with three different normalizations. Outputs from these nine total paths are concatenated into a 3D volume that is then passed to a 3D convolutional neural network to output a final lesion mask. We trained and tested our method on datasets from three sources: Medical College of Wisconsin (MCW), Kessler Foundation (KF), and the publicly available Anatomical Tracings of Lesions After Stroke (ATLAS) dataset. Cross-study validation results (with independent training and validation datasets) were obtained to compare with previous methods based on naive Bayes, random forests, and three recently published convolutional neural networks. Model performance was quantified in terms of the Dice coefficient. Training on the KF and MCW images and testing on the ATLAS images yielded a mean Dice coefficient of 0.54. This was reliably better than the next best previous model, UNet, at 0.47. Reversing the train and test datasets yields a mean Dice of 0.47 on KF and MCW images, whereas the next best UNet reaches 0.45. With all three datasets combined, the current system compared to previous methods also attained a reliably higher cross-validation accuracy. It also achieved high Dice values for many smaller lesions that existing methods have difficulty identifying. Overall, our system is a clear improvement over previous methods for automating stroke lesion segmentation, bringing us an important step closer to the inter-rater accuracy level of human experts.

  • 7 authors
·
May 26, 2019

STROKEVISION-BENCH: A Multimodal Video And 2D Pose Benchmark For Tracking Stroke Recovery

Despite advancements in rehabilitation protocols, clinical assessment of upper extremity (UE) function after stroke largely remains subjective, relying heavily on therapist observation and coarse scoring systems. This subjectivity limits the sensitivity of assessments to detect subtle motor improvements, which are critical for personalized rehabilitation planning. Recent progress in computer vision offers promising avenues for enabling objective, quantitative, and scalable assessment of UE motor function. Among standardized tests, the Box and Block Test (BBT) is widely utilized for measuring gross manual dexterity and tracking stroke recovery, providing a structured setting that lends itself well to computational analysis. However, existing datasets targeting stroke rehabilitation primarily focus on daily living activities and often fail to capture clinically structured assessments such as block transfer tasks. Furthermore, many available datasets include a mixture of healthy and stroke-affected individuals, limiting their specificity and clinical utility. To address these critical gaps, we introduce StrokeVision-Bench, the first-ever dedicated dataset of stroke patients performing clinically structured block transfer tasks. StrokeVision-Bench comprises 1,000 annotated videos categorized into four clinically meaningful action classes, with each sample represented in two modalities: raw video frames and 2D skeletal keypoints. We benchmark several state-of-the-art video action recognition and skeleton-based action classification methods to establish performance baselines for this domain and facilitate future research in automated stroke rehabilitation assessment.

  • 5 authors
·
Sep 2, 2025

Advancing Tabular Stroke Modelling Through a Novel Hybrid Architecture and Feature-Selection Synergy

Brain stroke remains one of the principal causes of death and disability worldwide, yet most tabular-data prediction models still hover below the 95% accuracy threshold, limiting real-world utility. Addressing this gap, the present work develops and validates a completely data-driven and interpretable machine-learning framework designed to predict strokes using ten routinely gathered demographic, lifestyle, and clinical variables sourced from a public cohort of 4,981 records. We employ a detailed exploratory data analysis (EDA) to understand the dataset's structure and distribution, followed by rigorous data preprocessing, including handling missing values, outlier removal, and class imbalance correction using Synthetic Minority Over-sampling Technique (SMOTE). To streamline feature selection, point-biserial correlation and random-forest Gini importance were utilized, and ten varied algorithms-encompassing tree ensembles, boosting, kernel methods, and a multilayer neural network-were optimized using stratified five-fold cross-validation. Their predictions based on probabilities helped us build the proposed model, which included Random Forest, XGBoost, LightGBM, and a support-vector classifier, with logistic regression acting as a meta-learner. The proposed model achieved an accuracy rate of 97.2% and an F1-score of 97.15%, indicating a significant enhancement compared to the leading individual model, LightGBM, which had an accuracy of 91.4%. Our study's findings indicate that rigorous preprocessing, coupled with a diverse hybrid model, can convert low-cost tabular data into a nearly clinical-grade stroke-risk assessment tool.

  • 3 authors
·
May 18, 2025

ISLES 2022: A multi-center magnetic resonance imaging stroke lesion segmentation dataset

Magnetic resonance imaging (MRI) is a central modality for stroke imaging. It is used upon patient admission to make treatment decisions such as selecting patients for intravenous thrombolysis or endovascular therapy. MRI is later used in the duration of hospital stay to predict outcome by visualizing infarct core size and location. Furthermore, it may be used to characterize stroke etiology, e.g. differentiation between (cardio)-embolic and non-embolic stroke. Computer based automated medical image processing is increasingly finding its way into clinical routine. Previous iterations of the Ischemic Stroke Lesion Segmentation (ISLES) challenge have aided in the generation of identifying benchmark methods for acute and sub-acute ischemic stroke lesion segmentation. Here we introduce an expert-annotated, multicenter MRI dataset for segmentation of acute to subacute stroke lesions. This dataset comprises 400 multi-vendor MRI cases with high variability in stroke lesion size, quantity and location. It is split into a training dataset of n=250 and a test dataset of n=150. All training data will be made publicly available. The test dataset will be used for model validation only and will not be released to the public. This dataset serves as the foundation of the ISLES 2022 challenge with the goal of finding algorithmic methods to enable the development and benchmarking of robust and accurate segmentation algorithms for ischemic stroke.

  • 25 authors
·
Jun 14, 2022

ISLES 2024: The first longitudinal multimodal multi-center real-world dataset in (sub-)acute stroke

Stroke remains a leading cause of global morbidity and mortality, placing a heavy socioeconomic burden. Over the past decade, advances in endovascular reperfusion therapy and the use of CT and MRI imaging for treatment guidance have significantly improved patient outcomes and are now standard in clinical practice. To develop machine learning algorithms that can extract meaningful and reproducible models of brain function for both clinical and research purposes from stroke images - particularly for lesion identification, brain health quantification, and prognosis - large, diverse, and well-annotated public datasets are essential. While only a few datasets with (sub-)acute stroke data were previously available, several large, high-quality datasets have recently been made publicly accessible. However, these existing datasets include only MRI data. In contrast, our dataset is the first to offer comprehensive longitudinal stroke data, including acute CT imaging with angiography and perfusion, follow-up MRI at 2-9 days, as well as acute and longitudinal clinical data up to a three-month outcome. The dataset includes a training dataset of n = 150 and a test dataset of n = 100 scans. Training data is publicly available, while test data will be used exclusively for model validation. We are making this dataset available as part of the 2024 edition of the Ischemic Stroke Lesion Segmentation (ISLES) challenge (https://www.isles-challenge.org/), which continuously aims to establish benchmark methods for acute and sub-acute ischemic stroke lesion segmentation, aiding in creating open stroke imaging datasets and evaluating cutting-edge image processing algorithms.

  • 18 authors
·
Aug 20, 2024

AttentionHand: Text-driven Controllable Hand Image Generation for 3D Hand Reconstruction in the Wild

Recently, there has been a significant amount of research conducted on 3D hand reconstruction to use various forms of human-computer interaction. However, 3D hand reconstruction in the wild is challenging due to extreme lack of in-the-wild 3D hand datasets. Especially, when hands are in complex pose such as interacting hands, the problems like appearance similarity, self-handed occclusion and depth ambiguity make it more difficult. To overcome these issues, we propose AttentionHand, a novel method for text-driven controllable hand image generation. Since AttentionHand can generate various and numerous in-the-wild hand images well-aligned with 3D hand label, we can acquire a new 3D hand dataset, and can relieve the domain gap between indoor and outdoor scenes. Our method needs easy-to-use four modalities (i.e, an RGB image, a hand mesh image from 3D label, a bounding box, and a text prompt). These modalities are embedded into the latent space by the encoding phase. Then, through the text attention stage, hand-related tokens from the given text prompt are attended to highlight hand-related regions of the latent embedding. After the highlighted embedding is fed to the visual attention stage, hand-related regions in the embedding are attended by conditioning global and local hand mesh images with the diffusion-based pipeline. In the decoding phase, the final feature is decoded to new hand images, which are well-aligned with the given hand mesh image and text prompt. As a result, AttentionHand achieved state-of-the-art among text-to-hand image generation models, and the performance of 3D hand mesh reconstruction was improved by additionally training with hand images generated by AttentionHand.

  • 3 authors
·
Jul 25, 2024

ISLES'24: Final Infarct Prediction with Multimodal Imaging and Clinical Data. Where Do We Stand?

Accurate estimation of brain infarction (i.e., irreversibly damaged tissue) is critical for guiding treatment decisions in acute ischemic stroke. Reliable infarct prediction informs key clinical interventions, including the need for patient transfer to comprehensive stroke centers, the potential benefit of additional reperfusion attempts during mechanical thrombectomy, decisions regarding secondary neuroprotective treatments, and ultimately, prognosis of clinical outcomes. This work introduces the Ischemic Stroke Lesion Segmentation (ISLES) 2024 challenge, which focuses on the prediction of final infarct volumes from pre-interventional acute stroke imaging and clinical data. ISLES24 provides a comprehensive, multimodal setting where participants can leverage all clinically and practically available data, including full acute CT imaging, sub-acute follow-up MRI, and structured clinical information, across a train set of 150 cases. On the hidden test set of 98 cases, the top-performing model, a multimodal nnU-Net-based architecture, achieved a Dice score of 0.285 (+/- 0.213) and an absolute volume difference of 21.2 (+/- 37.2) mL, underlining the significant challenges posed by this task and the need for further advances in multimodal learning. This work makes two primary contributions: first, we establish a standardized, clinically realistic benchmark for post-treatment infarct prediction, enabling systematic evaluation of multimodal algorithmic strategies on a longitudinal stroke dataset; second, we analyze current methodological limitations and outline key research directions to guide the development of next-generation infarct prediction models.

  • 40 authors
·
Aug 20, 2024

Applying Dimensionality Reduction as Precursor to LSTM-CNN Models for Classifying Imagery and Motor Signals in ECoG-Based BCIs

Motor impairments, frequently caused by neurological incidents like strokes or traumatic brain injuries, present substantial obstacles in rehabilitation therapy. This research aims to elevate the field by optimizing motor imagery classification algorithms within Brain-Computer Interfaces (BCIs). By improving the efficiency of BCIs, we offer a novel approach that holds significant promise for enhancing motor rehabilitation outcomes. Utilizing unsupervised techniques for dimensionality reduction, namely Uniform Manifold Approximation and Projection (UMAP) coupled with K-Nearest Neighbors (KNN), we evaluate the necessity of employing supervised methods such as Long Short-Term Memory (LSTM) and Convolutional Neural Networks (CNNs) for classification tasks. Importantly, participants who exhibited high KNN scores following UMAP dimensionality reduction also achieved high accuracy in supervised deep learning (DL) models. Due to individualized model requirements and massive neural training data, dimensionality reduction becomes an effective preprocessing step that minimizes the need for extensive data labeling and supervised deep learning techniques. This approach has significant implications not only for targeted therapies in motor dysfunction but also for addressing regulatory, safety, and reliability concerns in the rapidly evolving BCI field.

  • 1 authors
·
Nov 22, 2023

The Neural Representation Benchmark and its Evaluation on Brain and Machine

A key requirement for the development of effective learning representations is their evaluation and comparison to representations we know to be effective. In natural sensory domains, the community has viewed the brain as a source of inspiration and as an implicit benchmark for success. However, it has not been possible to directly test representational learning algorithms directly against the representations contained in neural systems. Here, we propose a new benchmark for visual representations on which we have directly tested the neural representation in multiple visual cortical areas in macaque (utilizing data from [Majaj et al., 2012]), and on which any computer vision algorithm that produces a feature space can be tested. The benchmark measures the effectiveness of the neural or machine representation by computing the classification loss on the ordered eigendecomposition of a kernel matrix [Montavon et al., 2011]. In our analysis we find that the neural representation in visual area IT is superior to visual area V4. In our analysis of representational learning algorithms, we find that three-layer models approach the representational performance of V4 and the algorithm in [Le et al., 2012] surpasses the performance of V4. Impressively, we find that a recent supervised algorithm [Krizhevsky et al., 2012] achieves performance comparable to that of IT for an intermediate level of image variation difficulty, and surpasses IT at a higher difficulty level. We believe this result represents a major milestone: it is the first learning algorithm we have found that exceeds our current estimate of IT representation performance. We hope that this benchmark will assist the community in matching the representational performance of visual cortex and will serve as an initial rallying point for further correspondence between representations derived in brains and machines.

  • 6 authors
·
Jan 15, 2013

Stroke of Surprise: Progressive Semantic Illusions in Vector Sketching

Visual illusions traditionally rely on spatial manipulations such as multi-view consistency. In this work, we introduce Progressive Semantic Illusions, a novel vector sketching task where a single sketch undergoes a dramatic semantic transformation through the sequential addition of strokes. We present Stroke of Surprise, a generative framework that optimizes vector strokes to satisfy distinct semantic interpretations at different drawing stages. The core challenge lies in the "dual-constraint": initial prefix strokes must form a coherent object (e.g., a duck) while simultaneously serving as the structural foundation for a second concept (e.g., a sheep) upon adding delta strokes. To address this, we propose a sequence-aware joint optimization framework driven by a dual-branch Score Distillation Sampling (SDS) mechanism. Unlike sequential approaches that freeze the initial state, our method dynamically adjusts prefix strokes to discover a "common structural subspace" valid for both targets. Furthermore, we introduce a novel Overlay Loss that enforces spatial complementarity, ensuring structural integration rather than occlusion. Extensive experiments demonstrate that our method significantly outperforms state-of-the-art baselines in recognizability and illusion strength, successfully expanding visual anagrams from the spatial to the temporal dimension. Project page: https://stroke-of-surprise.github.io/

PRISM: Prior Rectification and Uncertainty-Aware Structure Modeling for Diffusion-Based Text Image Super-Resolution

Text image super-resolution (Text-SR) requires more than visually plausible detail synthesis: slight errors in stroke topology may alter character identity and break readability. Existing methods improve text fidelity with stronger recognition-based or generative priors, yet they still face two unresolved challenges under severe degradation: the text condition extracted from low-quality inputs can itself be unreliable, and a plausible global prior does not fully determine fine-grained stroke boundaries. We present PRISM, a single-step diffusion-based Text-SR framework that addresses these two challenges through Flow-Matching Prior Rectification (FMPR) and a Structure-guided Uncertainty-aware Residual Encoder (SURE). FMPR constructs a privileged training-time prior from paired low-quality/high-quality latents and learns a flow matching that transports degraded embeddings toward this restoration-oriented prior space, yielding more accurate and reliable global text guidance. SURE further predicts uncertainty-aware structural residuals to selectively absorb reliable local boundary evidence while suppressing ambiguous stroke cues. Together, these components enable explicit global prior rectification and local structure refinement within a single diffusion restoration pass. Experiments on both synthetic and real-world benchmarks show that PRISM achieves state-of-the-art performance with millisecond-level inference. Our dataset and code will be available at https://github.com/faithxuz/PRISM.

  • 5 authors
·
May 12 3

FBCNet: A Multi-view Convolutional Neural Network for Brain-Computer Interface

Lack of adequate training samples and noisy high-dimensional features are key challenges faced by Motor Imagery (MI) decoding algorithms for electroencephalogram (EEG) based Brain-Computer Interface (BCI). To address these challenges, inspired from neuro-physiological signatures of MI, this paper proposes a novel Filter-Bank Convolutional Network (FBCNet) for MI classification. FBCNet employs a multi-view data representation followed by spatial filtering to extract spectro-spatially discriminative features. This multistage approach enables efficient training of the network even when limited training data is available. More significantly, in FBCNet, we propose a novel Variance layer that effectively aggregates the EEG time-domain information. With this design, we compare FBCNet with state-of-the-art (SOTA) BCI algorithm on four MI datasets: The BCI competition IV dataset 2a (BCIC-IV-2a), the OpenBMI dataset, and two large datasets from chronic stroke patients. The results show that, by achieving 76.20% 4-class classification accuracy, FBCNet sets a new SOTA for BCIC-IV-2a dataset. On the other three datasets, FBCNet yields up to 8% higher binary classification accuracies. Additionally, using explainable AI techniques we present one of the first reports about the differences in discriminative EEG features between healthy subjects and stroke patients. Also, the FBCNet source code is available at https://github.com/ravikiran-mane/FBCNet.

  • 8 authors
·
Mar 16, 2021

WriteViT: Handwritten Text Generation with Vision Transformer

Humans can quickly generalize handwriting styles from a single example by intuitively separating content from style. Machines, however, struggle with this task, especially in low-data settings, often missing subtle spatial and stylistic cues. Motivated by this gap, we introduce WriteViT, a one-shot handwritten text synthesis framework that incorporates Vision Transformers (ViT), a family of models that have shown strong performance across various computer vision tasks. WriteViT integrates a ViT-based Writer Identifier for extracting style embeddings, a multi-scale generator built with Transformer encoder-decoder blocks enhanced by conditional positional encoding (CPE), and a lightweight ViT-based recognizer. While previous methods typically rely on CNNs or CRNNs, our design leverages transformers in key components to better capture both fine-grained stroke details and higher-level style information. Although handwritten text synthesis has been widely explored, its application to Vietnamese -- a language rich in diacritics and complex typography -- remains limited. Experiments on Vietnamese and English datasets demonstrate that WriteViT produces high-quality, style-consistent handwriting while maintaining strong recognition performance in low-resource scenarios. These results highlight the promise of transformer-based designs for multilingual handwriting generation and efficient style adaptation.

  • 3 authors
·
May 19, 2025

Neural Network-derived perfusion maps: a Model-free approach to computed tomography perfusion in patients with acute ischemic stroke

Purpose: In this study we investigate whether a Convolutional Neural Network (CNN) can generate clinically relevant parametric maps from CT perfusion data in a clinical setting of patients with acute ischemic stroke. Methods: Training of the CNN was done on a subset of 100 perfusion data, while 15 samples were used as validation. All the data used for the training/validation of the network and to generate ground truth (GT) maps, using a state-of-the-art deconvolution-algorithm, were previously pre-processed using a standard pipeline. Validation was carried out through manual segmentation of infarct core and penumbra on both CNN-derived maps and GT maps. Concordance among segmented lesions was assessed using the Dice and the Pearson correlation coefficients across lesion volumes. Results: Mean Dice scores from two different raters and the GT maps were > 0.70 (good-matching). Inter-rater concordance was also high and strong correlation was found between lesion volumes of CNN maps and GT maps (0.99, 0.98). Conclusion: Our CNN-based approach generated clinically relevant perfusion maps that are comparable to state-of-the-art perfusion analysis methods based on deconvolution of the data. Moreover, the proposed technique requires less information to estimate the ischemic core and thus might allow the development of novel perfusion protocols with lower radiation dose.

  • 8 authors
·
Jan 15, 2021

Online Writer Retrieval with Chinese Handwritten Phrases: A Synergistic Temporal-Frequency Representation Learning Approach

Currently, the prevalence of online handwriting has spurred a critical need for effective retrieval systems to accurately search relevant handwriting instances from specific writers, known as online writer retrieval. Despite the growing demand, this field suffers from a scarcity of well-established methodologies and public large-scale datasets. This paper tackles these challenges with a focus on Chinese handwritten phrases. First, we propose DOLPHIN, a novel retrieval model designed to enhance handwriting representations through synergistic temporal-frequency analysis. For frequency feature learning, we propose the HFGA block, which performs gated cross-attention between the vanilla temporal handwriting sequence and its high-frequency sub-bands to amplify salient writing details. For temporal feature learning, we propose the CAIR block, tailored to promote channel interaction and reduce channel redundancy. Second, to address data deficit, we introduce OLIWER, a large-scale online writer retrieval dataset encompassing over 670,000 Chinese handwritten phrases from 1,731 individuals. Through extensive evaluations, we demonstrate the superior performance of DOLPHIN over existing methods. In addition, we explore cross-domain writer retrieval and reveal the pivotal role of increasing feature alignment in bridging the distributional gap between different handwriting data. Our findings emphasize the significance of point sampling frequency and pressure features in improving handwriting representation quality and retrieval performance. Code and dataset are available at https://github.com/SCUT-DLVCLab/DOLPHIN.

  • 2 authors
·
Dec 16, 2024

Multicentric thrombus segmentation using an attention-based recurrent network with gradual modality dropout

Detecting and delineating tiny targets in 3D brain scans is a central yet under-addressed challenge in medical imaging.In ischemic stroke, for instance, the culprit thrombus is small, low-contrast, and variably expressed across modalities(e.g., susceptibility-weighted T2 blooming, diffusion restriction on DWI/ADC), while real-world multi-center dataintroduce domain shifts, anisotropy, and frequent missing sequences. We introduce a methodology that couples an attention-based recurrent segmentation network (UpAttLLSTM), a training schedule that progressively increases the difficulty of hetero-modal learning, with gradual modality dropout, UpAttLLSTM aggregates context across slices via recurrent units (2.5D) and uses attention gates to fuse complementary cues across available sequences, making it robust to anisotropy and class imbalance. Gradual modality dropout systematically simulates site heterogeneity,noise, and missing modalities during training, acting as both augmentation and regularization to improve multi-center generalization. On a monocentric cohort, our approach detects thrombi in >90% of cases with a Dice score of 0.65. In a multi-center setting with missing modalities, it achieves-80% detection with a Dice score around 0.35. Beyond stroke, the proposed methodology directly transfers to other small-lesion tasks in 3D medical imaging where targets are scarce, subtle, and modality-dependent

  • 4 authors
·
Mar 31

SpiS-GAN: Spiral-Modulated Handwriting Synthesis with Star Operation

Training robust handwriting recognition (HTR) systems requires massive amounts of annotated data, which is often difficult to acquire. While synthetic handwriting generation offers a practical solution to expand training sets, existing models struggle with several core issues. First, previous approaches, even MLP-based models fail to effectively trace cursive handwriting due to fixed-grid spatial receptive field. Second, their CNN-relied discriminators usually lose structural details through aggressive downsampling, making broken connections difficult to detect. Third, existing architectures are either limited to linear feature interactions or too expensive for high-resolution synthesis. Finally, existing approaches lack explicit edge constraints, often resulting in blurred stroke boundaries. To address these challenges, this study proposes a Spiral-Modulated Handwriting Synthesis framework based on Generative Adversarial Networks (SpiS-GAN). Our generator employs Star-Spiral Blocks combining proposed Modulated Elliptical SpiralFC with the star operation to capture spatial relationships and efficiently follow complex handwriting stroke trajectories, while a Spiral-Modulated discriminator is introduced for multi-domain flaws detection. Additionally, we introduce a Sobel-Regularized Edge Reconstruction Loss that provides edge guidance, ensuring every character remains clear and legible. Evaluations on the English and Vietnamese datasets demonstrate that SpiS-GAN significantly outperforms current state-of-the-art models. The generated images are highly authentic, accurately preserve the original writer's style across languages, and successfully lower error rates when training downstream HTR systems.

  • 5 authors
·
Jul 7

GlyphMastero: A Glyph Encoder for High-Fidelity Scene Text Editing

Scene text editing, a subfield of image editing, requires modifying texts in images while preserving style consistency and visual coherence with the surrounding environment. While diffusion-based methods have shown promise in text generation, they still struggle to produce high-quality results. These methods often generate distorted or unrecognizable characters, particularly when dealing with complex characters like Chinese. In such systems, characters are composed of intricate stroke patterns and spatial relationships that must be precisely maintained. We present GlyphMastero, a specialized glyph encoder designed to guide the latent diffusion model for generating texts with stroke-level precision. Our key insight is that existing methods, despite using pretrained OCR models for feature extraction, fail to capture the hierarchical nature of text structures - from individual strokes to stroke-level interactions to overall character-level structure. To address this, our glyph encoder explicitly models and captures the cross-level interactions between local-level individual characters and global-level text lines through our novel glyph attention module. Meanwhile, our model implements a feature pyramid network to fuse the multi-scale OCR backbone features at the global-level. Through these cross-level and multi-scale fusions, we obtain more detailed glyph-aware guidance, enabling precise control over the scene text generation process. Our method achieves an 18.02\% improvement in sentence accuracy over the state-of-the-art multi-lingual scene text editing baseline, while simultaneously reducing the text-region Fr\'echet inception distance by 53.28\%.

  • 6 authors
·
May 7, 2025

AnyText: Multilingual Visual Text Generation And Editing

Diffusion model based Text-to-Image has achieved impressive achievements recently. Although current technology for synthesizing images is highly advanced and capable of generating images with high fidelity, it is still possible to give the show away when focusing on the text area in the generated image. To address this issue, we introduce AnyText, a diffusion-based multilingual visual text generation and editing model, that focuses on rendering accurate and coherent text in the image. AnyText comprises a diffusion pipeline with two primary elements: an auxiliary latent module and a text embedding module. The former uses inputs like text glyph, position, and masked image to generate latent features for text generation or editing. The latter employs an OCR model for encoding stroke data as embeddings, which blend with image caption embeddings from the tokenizer to generate texts that seamlessly integrate with the background. We employed text-control diffusion loss and text perceptual loss for training to further enhance writing accuracy. AnyText can write characters in multiple languages, to the best of our knowledge, this is the first work to address multilingual visual text generation. It is worth mentioning that AnyText can be plugged into existing diffusion models from the community for rendering or editing text accurately. After conducting extensive evaluation experiments, our method has outperformed all other approaches by a significant margin. Additionally, we contribute the first large-scale multilingual text images dataset, AnyWord-3M, containing 3 million image-text pairs with OCR annotations in multiple languages. Based on AnyWord-3M dataset, we propose AnyText-benchmark for the evaluation of visual text generation accuracy and quality. Our project will be open-sourced on https://github.com/tyxsspa/AnyText to improve and promote the development of text generation technology.

  • 5 authors
·
Nov 6, 2023

TextPixs: Glyph-Conditioned Diffusion with Character-Aware Attention and OCR-Guided Supervision

The modern text-to-image diffusion models boom has opened a new era in digital content production as it has proven the previously unseen ability to produce photorealistic and stylistically diverse imagery based on the semantics of natural-language descriptions. However, the consistent disadvantage of these models is that they cannot generate readable, meaningful, and correctly spelled text in generated images, which significantly limits the use of practical purposes like advertising, learning, and creative design. This paper introduces a new framework, namely Glyph-Conditioned Diffusion with Character-Aware Attention (GCDA), using which a typical diffusion backbone is extended by three well-designed modules. To begin with, the model has a dual-stream text encoder that encodes both semantic contextual information and explicit glyph representations, resulting in a character-aware representation of the input text that is rich in nature. Second, an attention mechanism that is aware of the character is proposed with a new attention segregation loss that aims to limit the attention distribution of each character independently in order to avoid distortion artifacts. Lastly, GCDA has an OCR-in-the-loop fine-tuning phase, where a full text perceptual loss, directly optimises models to be legible and accurately spell. Large scale experiments to benchmark datasets, such as MARIO-10M and T2I-CompBench, reveal that GCDA sets a new state-of-the-art on all metrics, with better character based metrics on text rendering (Character Error Rate: 0.08 vs 0.21 for the previous best; Word Error Rate: 0.15 vs 0.25), human perception, and comparable image synthesis quality on high-fidelity (FID: 14.3).

  • 6 authors
·
Jul 8, 2025

ViQ: Text-Aligned Visual Quantized Representations at Any Resolution

A unified representation for text and vision is a natural pursuit, as it enables simpler multimodal modeling and more efficient training. However, representing images as discrete signals in the same way as text inevitably introduces severe information loss. Existing work struggles to balance low-level details and high-level semantics in discrete representations: reconstruction-oriented representations often lack semantic information, whereas semantically stronger features typically suffer from severe loss of detail. We present ViQ, a Visual Quantized Representations framework, which is designed to balance semantics and details in discrete representations while supporting inputs at native resolutions, thereby enabling it to serve as a unified and general discrete representation for arbitrary visual inputs. Our approach structures quantization learning into two stages: text-aligned pre-training and feature discretization. With text-aligned pre-training, we enhance the visual encoder semantic-rich supervision from the pretrained language model and enable it to process native-resolution visual inputs. During discretization, we propose a proximal representation learning strategy to progressively compact the feature space, along with a position-aware head-wise quantization mechanism that enables flexible processing of arbitrary resolutions. Extensive experiments on multimodal tasks demonstrate that ViQ achieves competitive performance compared to state-of-the-art multimodal vision encoders with continuous and high-dimensional visual features, while maintaining high precision in low-level reconstruction. We also show that multimodal training with visual quantized representations largely improves efficiency, yielding up to 20\%-70\% acceleration with different base LLMs and training recipes.

ASCIIEval: Benchmarking Models' Visual Perception in Text Strings via ASCII Art

Perceiving visual semantics embedded within consecutive characters is a crucial yet under-explored capability for both Large Language Models (LLMs) and Multi-modal Large Language Models (MLLMs). In this work, we select ASCII art as a representative artifact. It depicts concepts through careful arrangement of characters, which can be formulated in both text and image modalities. We frame the problem as a recognition task, and construct a novel benchmark, ASCIIEval. It covers over 3K samples with an elaborate categorization tree, along with a training set for further enhancement. Encompassing a comprehensive analysis of tens of models through different input modalities, our benchmark demonstrate its multi-faceted diagnostic power. Given textual input, language models shows their visual perception ability on ASCII art concepts. Proprietary models achieve over 70% accuracy on certain categories, with GPT-5 topping the rank. For image inputs, we reveal that open-source MLLMs suffer from a trade-off between fine-grained text recognition and collective visual perception. They exhibit limited generalization ability to this special kind of arts, leading to the dramatic gap of over 20.01% accuracy compared with their proprietary counterparts. Another critical finding is that model performance is sensitive to the length of the ASCII art, with this sensitivity varying across input modalities. Unfortunately, none of the models could successfully benefit from the simultaneous provision of both modalities, highlighting the need for more flexible modality-fusion approaches. Besides, we also introduce approaches for further enhancement and discuss future directions. Resources are available at https://github.com/JiaQiSJTU/VisionInText.

  • 8 authors
·
Oct 2, 2024

Text-to-Image Models Need Less from Text Encoders Than You Think

Text-to-image models rely on text prompts as their primary interface to human intent. Prompts are encoded by a text encoder into embeddings that condition the image generation process. Beyond individual token meanings, text embeddings encode contextual information across the full prompt, such as compositionality and attribute binding. However, whether image models actually exploit this richer information remains underexplored. Here, we address the question: Which aspects of text representation are essential for image generation? We show that text-to-image diffusion transformer-based models commonly rely only on two relatively straightforward aspects of text representations: (i) the merging of adjacent tokens into a word representation, for words spanning multiple tokens, and (ii) word order, which is imprinted by the positional embedding of the text-encoder. To show this, we construct a new text embedding that encodes only individual word meanings and order but lacks any contextual information about the full prompt. We find that this bag of position-tagged words representation is sufficient to successfully guide image generation, achieving visual quality and text fidelity that are on par with full text embedding-guided generation. This demonstrates that, contrary to common belief, text-to-image models often do not use the rich information encoded in the text embedding beyond individual word meanings and word order. Instead, the decoding of complex linguistic structures is performed by the image model itself. Project webpage: https://nsping13.github.io/contextless-TTI/

  • 4 authors
·
Jun 1 2

NeuroVLM-Bench: Evaluation of Vision-Enabled Large Language Models for Clinical Reasoning in Neurological Disorders

Recent advances in multimodal large language models enable new possibilities for image-based decision support. However, their reliability and operational trade-offs in neuroimaging remain insufficiently understood. We present a comprehensive benchmarking study of vision-enabled large language models for 2D neuroimaging using curated MRI and CT datasets covering multiple sclerosis, stroke, brain tumors, other abnormalities, and normal controls. Models are required to generate multiple outputs simultaneously, including diagnosis, diagnosis subtype, imaging modality, specialized sequence, and anatomical plane. Performance is evaluated across four directions: discriminative classification with abstention, calibration, structured-output validity, and computational efficiency. A multi-phase framework ensures fair comparison while controlling for selection bias. Across twenty frontier multimodal models, the results show that technical imaging attributes such as modality and plane are nearly solved, whereas diagnostic reasoning, especially subtype prediction, remains challenging. Tumor classification emerges as the most reliable task, stroke is moderately solvable, while multiple sclerosis and rare abnormalities remain difficult. Few-shot prompting improves performance for several models but increases token usage, latency, and cost. Gemini-2.5-Pro and GPT-5-Chat achieve the strongest overall diagnostic performance, while Gemini-2.5-Flash offers the best efficiency-performance trade-off. Among open-weight architectures, MedGemma-1.5-4B demonstrates the most promising results, as under few-shot prompting, it approaches the zero-shot performance of several proprietary models, while maintaining perfect structured output. These findings provide practical insights into performance, reliability, and efficiency trade-offs, supporting standardized evaluation of multimodal LLMs in neuroimaging.

  • 8 authors
·
Mar 24

Whole Brain Vessel Graphs: A Dataset and Benchmark for Graph Learning and Neuroscience (VesselGraph)

Biological neural networks define the brain function and intelligence of humans and other mammals, and form ultra-large, spatial, structured graphs. Their neuronal organization is closely interconnected with the spatial organization of the brain's microvasculature, which supplies oxygen to the neurons and builds a complementary spatial graph. This vasculature (or the vessel structure) plays an important role in neuroscience; for example, the organization of (and changes to) vessel structure can represent early signs of various pathologies, e.g. Alzheimer's disease or stroke. Recently, advances in tissue clearing have enabled whole brain imaging and segmentation of the entirety of the mouse brain's vasculature. Building on these advances in imaging, we are presenting an extendable dataset of whole-brain vessel graphs based on specific imaging protocols. Specifically, we extract vascular graphs using a refined graph extraction scheme leveraging the volume rendering engine Voreen and provide them in an accessible and adaptable form through the OGB and PyTorch Geometric dataloaders. Moreover, we benchmark numerous state-of-the-art graph learning algorithms on the biologically relevant tasks of vessel prediction and vessel classification using the introduced vessel graph dataset. Our work paves a path towards advancing graph learning research into the field of neuroscience. Complementarily, the presented dataset raises challenging graph learning research questions for the machine learning community, in terms of incorporating biological priors into learning algorithms, or in scaling these algorithms to handle sparse,spatial graphs with millions of nodes and edges. All datasets and code are available for download at https://github.com/jocpae/VesselGraph .

  • 12 authors
·
Aug 30, 2021

A Robust Ensemble Algorithm for Ischemic Stroke Lesion Segmentation: Generalizability and Clinical Utility Beyond the ISLES Challenge

Diffusion-weighted MRI (DWI) is essential for stroke diagnosis, treatment decisions, and prognosis. However, image and disease variability hinder the development of generalizable AI algorithms with clinical value. We address this gap by presenting a novel ensemble algorithm derived from the 2022 Ischemic Stroke Lesion Segmentation (ISLES) challenge. ISLES'22 provided 400 patient scans with ischemic stroke from various medical centers, facilitating the development of a wide range of cutting-edge segmentation algorithms by the research community. Through collaboration with leading teams, we combined top-performing algorithms into an ensemble model that overcomes the limitations of individual solutions. Our ensemble model achieved superior ischemic lesion detection and segmentation accuracy on our internal test set compared to individual algorithms. This accuracy generalized well across diverse image and disease variables. Furthermore, the model excelled in extracting clinical biomarkers. Notably, in a Turing-like test, neuroradiologists consistently preferred the algorithm's segmentations over manual expert efforts, highlighting increased comprehensiveness and precision. Validation using a real-world external dataset (N=1686) confirmed the model's generalizability. The algorithm's outputs also demonstrated strong correlations with clinical scores (admission NIHSS and 90-day mRS) on par with or exceeding expert-derived results, underlining its clinical relevance. This study offers two key findings. First, we present an ensemble algorithm (https://github.com/Tabrisrei/ISLES22_Ensemble) that detects and segments ischemic stroke lesions on DWI across diverse scenarios on par with expert (neuro)radiologists. Second, we show the potential for biomedical challenge outputs to extend beyond the challenge's initial objectives, demonstrating their real-world clinical applicability.

  • 58 authors
·
Mar 28, 2024

On the Continuity of Rotation Representations in Neural Networks

In neural networks, it is often desirable to work with various representations of the same space. For example, 3D rotations can be represented with quaternions or Euler angles. In this paper, we advance a definition of a continuous representation, which can be helpful for training deep neural networks. We relate this to topological concepts such as homeomorphism and embedding. We then investigate what are continuous and discontinuous representations for 2D, 3D, and n-dimensional rotations. We demonstrate that for 3D rotations, all representations are discontinuous in the real Euclidean spaces of four or fewer dimensions. Thus, widely used representations such as quaternions and Euler angles are discontinuous and difficult for neural networks to learn. We show that the 3D rotations have continuous representations in 5D and 6D, which are more suitable for learning. We also present continuous representations for the general case of the n-dimensional rotation group SO(n). While our main focus is on rotations, we also show that our constructions apply to other groups such as the orthogonal group and similarity transforms. We finally present empirical results, which show that our continuous rotation representations outperform discontinuous ones for several practical problems in graphics and vision, including a simple autoencoder sanity test, a rotation estimator for 3D point clouds, and an inverse kinematics solver for 3D human poses.

  • 5 authors
·
Dec 17, 2018

StyleTokenizer: Defining Image Style by a Single Instance for Controlling Diffusion Models

Despite the burst of innovative methods for controlling the diffusion process, effectively controlling image styles in text-to-image generation remains a challenging task. Many adapter-based methods impose image representation conditions on the denoising process to accomplish image control. However these conditions are not aligned with the word embedding space, leading to interference between image and text control conditions and the potential loss of semantic information from the text prompt. Addressing this issue involves two key challenges. Firstly, how to inject the style representation without compromising the effectiveness of text representation in control. Secondly, how to obtain the accurate style representation from a single reference image. To tackle these challenges, we introduce StyleTokenizer, a zero-shot style control image generation method that aligns style representation with text representation using a style tokenizer. This alignment effectively minimizes the impact on the effectiveness of text prompts. Furthermore, we collect a well-labeled style dataset named Style30k to train a style feature extractor capable of accurately representing style while excluding other content information. Experimental results demonstrate that our method fully grasps the style characteristics of the reference image, generating appealing images that are consistent with both the target image style and text prompt. The code and dataset are available at https://github.com/alipay/style-tokenizer.

  • 8 authors
·
Sep 4, 2024

Birth of a Painting: Differentiable Brushstroke Reconstruction

Painting embodies a unique form of visual storytelling, where the creation process is as significant as the final artwork. Although recent advances in generative models have enabled visually compelling painting synthesis, most existing methods focus solely on final image generation or patch-based process simulation, lacking explicit stroke structure and failing to produce smooth, realistic shading. In this work, we present a differentiable stroke reconstruction framework that unifies painting, stylized texturing, and smudging to faithfully reproduce the human painting-smudging loop. Given an input image, our framework first optimizes single- and dual-color Bezier strokes through a parallel differentiable paint renderer, followed by a style generation module that synthesizes geometry-conditioned textures across diverse painting styles. We further introduce a differentiable smudge operator to enable natural color blending and shading. Coupled with a coarse-to-fine optimization strategy, our method jointly optimizes stroke geometry, color, and texture under geometric and semantic guidance. Extensive experiments on oil, watercolor, ink, and digital paintings demonstrate that our approach produces realistic and expressive stroke reconstructions, smooth tonal transitions, and richly stylized appearances, offering a unified model for expressive digital painting creation. See our project page for more demos: https://yingjiang96.github.io/DiffPaintWebsite/.

  • 7 authors
·
Nov 17, 2025

SINC: Spatial Composition of 3D Human Motions for Simultaneous Action Generation

Our goal is to synthesize 3D human motions given textual inputs describing simultaneous actions, for example 'waving hand' while 'walking' at the same time. We refer to generating such simultaneous movements as performing 'spatial compositions'. In contrast to temporal compositions that seek to transition from one action to another, spatial compositing requires understanding which body parts are involved in which action, to be able to move them simultaneously. Motivated by the observation that the correspondence between actions and body parts is encoded in powerful language models, we extract this knowledge by prompting GPT-3 with text such as "what are the body parts involved in the action <action name>?", while also providing the parts list and few-shot examples. Given this action-part mapping, we combine body parts from two motions together and establish the first automated method to spatially compose two actions. However, training data with compositional actions is always limited by the combinatorics. Hence, we further create synthetic data with this approach, and use it to train a new state-of-the-art text-to-motion generation model, called SINC ("SImultaneous actioN Compositions for 3D human motions"). In our experiments, that training with such GPT-guided synthetic data improves spatial composition generation over baselines. Our code is publicly available at https://sinc.is.tue.mpg.de/.

  • 4 authors
·
Apr 20, 2023

Matryoshka Representation Learning

Learned representations are a central component in modern ML systems, serving a multitude of downstream tasks. When training such representations, it is often the case that computational and statistical constraints for each downstream task are unknown. In this context rigid, fixed capacity representations can be either over or under-accommodating to the task at hand. This leads us to ask: can we design a flexible representation that can adapt to multiple downstream tasks with varying computational resources? Our main contribution is Matryoshka Representation Learning (MRL) which encodes information at different granularities and allows a single embedding to adapt to the computational constraints of downstream tasks. MRL minimally modifies existing representation learning pipelines and imposes no additional cost during inference and deployment. MRL learns coarse-to-fine representations that are at least as accurate and rich as independently trained low-dimensional representations. The flexibility within the learned Matryoshka Representations offer: (a) up to 14x smaller embedding size for ImageNet-1K classification at the same level of accuracy; (b) up to 14x real-world speed-ups for large-scale retrieval on ImageNet-1K and 4K; and (c) up to 2% accuracy improvements for long-tail few-shot classification, all while being as robust as the original representations. Finally, we show that MRL extends seamlessly to web-scale datasets (ImageNet, JFT) across various modalities -- vision (ViT, ResNet), vision + language (ALIGN) and language (BERT). MRL code and pretrained models are open-sourced at https://github.com/RAIVNLab/MRL.

  • 11 authors
·
May 26, 2022

Doctors Handwritten Prescription Recognition System In Multi Language Using Deep Learning

Doctors typically write in incomprehensible handwriting, making it difficult for both the general public and some pharmacists to understand the medications they have prescribed. It is not ideal for them to write the prescription quietly and methodically because they will be dealing with dozens of patients every day and will be swamped with work.As a result, their handwriting is illegible. This may result in reports or prescriptions consisting of short forms and cursive writing that a typical person or pharmacist won't be able to read properly, which will cause prescribed medications to be misspelled. However, some individuals are accustomed to writing prescriptions in regional languages because we all live in an area with a diversity of regional languages. It makes analyzing the content much more challenging. So, in this project, we'll use a recognition system to build a tool that can translate the handwriting of physicians in any language. This system will be made into an application which is fully autonomous in functioning. As the user uploads the prescription image the program will pre-process the image by performing image pre-processing, and word segmentations initially before processing the image for training. And it will be done for every language we require the model to detect. And as of the deduction model will be made using deep learning techniques including CNN, RNN, and LSTM, which are utilized to train the model. To match words from various languages that will be written in the system, Unicode will be used. Furthermore, fuzzy search and market basket analysis are employed to offer an end result that will be optimized from the pharmaceutical database and displayed to the user as a structured output.

  • 6 authors
·
Oct 20, 2022

Learning Sparse Latent Predictive Foundation Model for Multimodal Neuroimaging

Brain MRIs are routinely acquired as multiple complementary sequences with unique contrast weighting, including T1-weighed imaging (T1w) anatomic and fluid-sensitive T2-weighted (T2w) contrasts. However, methods for learning unified representations across the multitude of MRI contrast mechanisms at health-system scale are lacking. In this study, we introduce Neuro-JEPA, a sparse multimodal neuroimaging foundation model that combines a latent predictive objective with a Mixture-of-Experts architecture to encode brain MRI across core T1w, T2w, and fluid-suppressed FLAIR imaging (FLAIR). We further provide a systematic methodological study of architectural, masking, objective, and sparsity design choices beneficial for robust neuroimaging multimodal representation learning. Neuro-JEPA was pretrained on 1,551,862 scans from 428,647 studies after modality-specific preprocessing with data curation across three core structural brain MRI sequences. We evaluated the learned representations across clinical and research settings, including 25 tasks from three health systems: NYU Langone, NYU Long Island, and Massachusetts General Hospital, and 22 tasks from 12 public datasets, covering unimodal, multimodal and cross-domain evaluation configurations. Across these benchmarks, existing neuroimaging foundation models showed inconsistent gains over a simple convolutional neural network (CNN) baseline, whereas Neuro-JEPA achieved stronger and more consistent performance across all evaluated settings. These results establish a scalable methodological framework for multimodal neuroimaging representation learning and highlight the need for foundation model evaluation protocols that include simple baselines, clinically heterogeneous cohorts and controlled multimodal comparisons.

  • 11 authors
·
Jun 11

Patient-Aware Contrastive Learning Preserves Per-Patient Structure in RR-Interval Representations

Contrastive representation learning struggles on physiological signals when each subject contributes a distinct baseline pattern. If class differences overlap with subject differences,class-level objectives such as supervised contrastive learning tend to merge per-subject structure into a single per-class cluster,removing the individual variation that a model needs to generalize to unseen patients. We study this problem in the setting of Paroxysmal Atrial Fibrillation(PAF) detection from RR-interval(RRI) sequences and propose a patient-aware contrastive objective that forms positive pairs only from same-patient, same-class segments, preserving each patient's own sinus rhythm(SR) baseline while still pushing the two classes apart. Examining the learned embeddings directly, our objective achieves the most consistent per-patient SR structure (cohesion 0.850 vs. 0.800 for supervised contrastive loss (SupCon) and 0.772 for binary cross-entropy (BCE)). We also identify that BCE produces the cleanest global class separation yet the most disordered per-patient structure. This is precisely why a linear probe trained on its features breaks down on unseen patients. On the IRIDIA-AF dataset, the resulting representation reaches a patient-independent Area Under the Receiver Operating Characteristic Curve (AUROC) of 0.989 pm 0.003 with 2.6times lower seed variance than supervised contrastive baselines.These results highlight that per-subject geometric consistency, rather than global class separability, is key to robust cross-patient generalization.

  • 3 authors
·
Jun 21

Anatomical Foundation Models for Brain MRIs

Deep Learning (DL) in neuroimaging has become increasingly relevant for detecting neurological conditions and neurodegenerative disorders. One of the most predominant biomarkers in neuroimaging is represented by brain age, which has been shown to be a good indicator for different conditions, such as Alzheimer's Disease. Using brain age for weakly supervised pre-training of DL models in transfer learning settings has also recently shown promising results, especially when dealing with data scarcity of different conditions. On the other hand, anatomical information of brain MRIs (e.g. cortical thickness) can provide important information for learning good representations that can be transferred to many downstream tasks. In this work, we propose AnatCL, an anatomical foundation model for brain MRIs that i.) leverages anatomical information in a weakly contrastive learning approach, and ii.) achieves state-of-the-art performances across many different downstream tasks. To validate our approach we consider 12 different downstream tasks for the diagnosis of different conditions such as Alzheimer's Disease, autism spectrum disorder, and schizophrenia. Furthermore, we also target the prediction of 10 different clinical assessment scores using structural MRI data. Our findings show that incorporating anatomical information during pre-training leads to more robust and generalizable representations. Pre-trained models can be found at: https://github.com/EIDOSLAB/AnatCL.

  • 4 authors
·
Aug 7, 2024

Du-IN: Discrete units-guided mask modeling for decoding speech from Intracranial Neural signals

Invasive brain-computer interfaces have garnered significant attention due to their high performance. The current intracranial stereoElectroEncephaloGraphy (sEEG) foundation models typically build univariate representations based on a single channel. Some of them further use Transformer to model the relationship among channels. However, due to the locality and specificity of brain computation, their performance on more difficult tasks, e.g., speech decoding, which demands intricate processing in specific brain regions, is yet to be fully investigated. We hypothesize that building multi-variate representations within certain brain regions can better capture the specific neural processing. To explore this hypothesis, we collect a well-annotated Chinese word-reading sEEG dataset, targeting language-related brain networks, over 12 subjects. Leveraging this benchmark dataset, we developed the Du-IN model that can extract contextual embeddings from specific brain regions through discrete codebook-guided mask modeling. Our model achieves SOTA performance on the downstream 61-word classification task, surpassing all baseline models. Model comparison and ablation analysis reveal that our design choices, including (i) multi-variate representation by fusing channels in vSMC and STG regions and (ii) self-supervision by discrete codebook-guided mask modeling, significantly contribute to these performances. Collectively, our approach, inspired by neuroscience findings, capitalizing on multi-variate neural representation from specific brain regions, is suitable for invasive brain modeling. It marks a promising neuro-inspired AI approach in BCI.

  • 9 authors
·
May 19, 2024

Brain Captioning: Decoding human brain activity into images and text

Every day, the human brain processes an immense volume of visual information, relying on intricate neural mechanisms to perceive and interpret these stimuli. Recent breakthroughs in functional magnetic resonance imaging (fMRI) have enabled scientists to extract visual information from human brain activity patterns. In this study, we present an innovative method for decoding brain activity into meaningful images and captions, with a specific focus on brain captioning due to its enhanced flexibility as compared to brain decoding into images. Our approach takes advantage of cutting-edge image captioning models and incorporates a unique image reconstruction pipeline that utilizes latent diffusion models and depth estimation. We utilized the Natural Scenes Dataset, a comprehensive fMRI dataset from eight subjects who viewed images from the COCO dataset. We employed the Generative Image-to-text Transformer (GIT) as our backbone for captioning and propose a new image reconstruction pipeline based on latent diffusion models. The method involves training regularized linear regression models between brain activity and extracted features. Additionally, we incorporated depth maps from the ControlNet model to further guide the reconstruction process. We evaluate our methods using quantitative metrics for both generated captions and images. Our brain captioning approach outperforms existing methods, while our image reconstruction pipeline generates plausible images with improved spatial relationships. In conclusion, we demonstrate significant progress in brain decoding, showcasing the enormous potential of integrating vision and language to better understand human cognition. Our approach provides a flexible platform for future research, with potential applications in various fields, including neural art, style transfer, and portable devices.

  • 5 authors
·
May 19, 2023

Computation-Efficient Era: A Comprehensive Survey of State Space Models in Medical Image Analysis

Sequence modeling plays a vital role across various domains, with recurrent neural networks being historically the predominant method of performing these tasks. However, the emergence of transformers has altered this paradigm due to their superior performance. Built upon these advances, transformers have conjoined CNNs as two leading foundational models for learning visual representations. However, transformers are hindered by the O(N^2) complexity of their attention mechanisms, while CNNs lack global receptive fields and dynamic weight allocation. State Space Models (SSMs), specifically the \textbf{Mamba} model with selection mechanisms and hardware-aware architecture, have garnered immense interest lately in sequential modeling and visual representation learning, challenging the dominance of transformers by providing infinite context lengths and offering substantial efficiency maintaining linear complexity in the input sequence. Capitalizing on the advances in computer vision, medical imaging has heralded a new epoch with Mamba models. Intending to help researchers navigate the surge, this survey seeks to offer an encyclopedic review of Mamba models in medical imaging. Specifically, we start with a comprehensive theoretical review forming the basis of SSMs, including Mamba architecture and its alternatives for sequence modeling paradigms in this context. Next, we offer a structured classification of Mamba models in the medical field and introduce a diverse categorization scheme based on their application, imaging modalities, and targeted organs. Finally, we summarize key challenges, discuss different future research directions of the SSMs in the medical domain, and propose several directions to fulfill the demands of this field. In addition, we have compiled the studies discussed in this paper along with their open-source implementations on our GitHub repository.

  • 11 authors
·
Jun 5, 2024

BrainSegFounder: Towards 3D Foundation Models for Neuroimage Segmentation

The burgeoning field of brain health research increasingly leverages artificial intelligence (AI) to interpret and analyze neurological data. This study introduces a novel approach towards the creation of medical foundation models by integrating a large-scale multi-modal magnetic resonance imaging (MRI) dataset derived from 41,400 participants in its own. Our method involves a novel two-stage pretraining approach using vision transformers. The first stage is dedicated to encoding anatomical structures in generally healthy brains, identifying key features such as shapes and sizes of different brain regions. The second stage concentrates on spatial information, encompassing aspects like location and the relative positioning of brain structures. We rigorously evaluate our model, BrainFounder, using the Brain Tumor Segmentation (BraTS) challenge and Anatomical Tracings of Lesions After Stroke v2.0 (ATLAS v2.0) datasets. BrainFounder demonstrates a significant performance gain, surpassing the achievements of the previous winning solutions using fully supervised learning. Our findings underscore the impact of scaling up both the complexity of the model and the volume of unlabeled training data derived from generally healthy brains, which enhances the accuracy and predictive capabilities of the model in complex neuroimaging tasks with MRI. The implications of this research provide transformative insights and practical applications in healthcare and make substantial steps towards the creation of foundation models for Medical AI. Our pretrained models and training code can be found at https://github.com/lab-smile/GatorBrain.

  • 8 authors
·
Nov 6, 2024

BiomechGPT: Extending Motion-Language Models to Clinical Motion Understanding

Advances in markerless motion capture are making high-quality biomechanical data increasingly accessible, creating a growing need for scalable downstream analytics. Building a bespoke pipeline for each analysis task is time-consuming, motivating models that can flexibly handle diverse clinical questions within a single framework. Recent work has shown that fine-tuning language models to accept tokenized motion as an additional modality enables descriptive captioning of movement, raising the question of whether these models are also capable of clinically relevant motion understanding, where diverse tasks and annotations provide a natural testbed. We investigate whether such a multimodal motion--language model can answer detailed, clinically meaningful questions about movement. We collected 71 hours of biomechanical data from 750 participants, many with movement impairments, performing tasks commonly used in clinical assessment. To further expand the training dataset, we designed a cross-format tokenizer that directly encodes motion data from heterogeneous formats into a shared latent space without paired data, allowing a second dataset to be incorporated and enabling pooling annotations across datasets. From these tokenized representations, we constructed a multimodal dataset of motion-related question--answer pairs and used it to train BiomechGPT, a multimodal biomechanics--language model. BiomechGPT achieves competitive performance across a range of clinically relevant tasks, with performance scaling with both dataset and model size. It offers a new way for clinicians and researchers to interact with biomechanical data and represents a promising direction for rehabilitation-focused movement analysis. Project page: https://intelligentsensingandrehabilitation.github.io/BiomechGPT/

  • 3 authors
·
Jul 9

Contrast Everything: A Hierarchical Contrastive Framework for Medical Time-Series

Contrastive representation learning is crucial in medical time series analysis as it alleviates dependency on labor-intensive, domain-specific, and scarce expert annotations. However, existing contrastive learning methods primarily focus on one single data level, which fails to fully exploit the intricate nature of medical time series. To address this issue, we present COMET, an innovative hierarchical framework that leverages data consistencies at all inherent levels in medical time series. Our meticulously designed model systematically captures data consistency from four potential levels: observation, sample, trial, and patient levels. By developing contrastive loss at multiple levels, we can learn effective representations that preserve comprehensive data consistency, maximizing information utilization in a self-supervised manner. We conduct experiments in the challenging patient-independent setting. We compare COMET against six baselines using three diverse datasets, which include ECG signals for myocardial infarction and EEG signals for Alzheimer's and Parkinson's diseases. The results demonstrate that COMET consistently outperforms all baselines, particularly in setup with 10% and 1% labeled data fractions across all datasets. These results underscore the significant impact of our framework in advancing contrastive representation learning techniques for medical time series. The source code is available at https://github.com/DL4mHealth/COMET.

  • 4 authors
·
Oct 21, 2023

Siamese based Neural Network for Offline Writer Identification on word level data

Handwriting recognition is one of the desirable attributes of document comprehension and analysis. It is concerned with the documents writing style and characteristics that distinguish the authors. The diversity of text images, notably in images with varying handwriting, makes the process of learning good features difficult in cases where little data is available. In this paper, we propose a novel scheme to identify the author of a document based on the input word image. Our method is text independent and does not impose any constraint on the size of the input image under examination. To begin with, we detect crucial components in handwriting and extract regions surrounding them using Scale Invariant Feature Transform (SIFT). These patches are designed to capture individual writing features (including allographs, characters, or combinations of characters) that are likely to be unique for an individual writer. These features are then passed through a deep Convolutional Neural Network (CNN) in which the weights are learned by applying the concept of Similarity learning using Siamese network. Siamese network enhances the discrimination power of CNN by mapping similarity between different pairs of input image. Features learned at different scales of the extracted SIFT key-points are encoded using Sparse PCA, each components of the Sparse PCA is assigned a saliency score signifying its level of significance in discriminating different writers effectively. Finally, the weighted Sparse PCA corresponding to each SIFT key-points is combined to arrive at a final classification score for each writer. The proposed algorithm was evaluated on two publicly available databases (namely IAM and CVL) and is able to achieve promising result, when compared with other deep learning based algorithm.

  • 2 authors
·
Nov 17, 2022

The Topology and Geometry of Neural Representations

A central question for neuroscience is how to characterize brain representations of perceptual and cognitive content. An ideal characterization should distinguish different functional regions with robustness to noise and idiosyncrasies of individual brains that do not correspond to computational differences. Previous studies have characterized brain representations by their representational geometry, which is defined by the representational dissimilarity matrix (RDM), a summary statistic that abstracts from the roles of individual neurons (or responses channels) and characterizes the discriminability of stimuli. Here we explore a further step of abstraction: from the geometry to the topology of brain representations. We propose topological representational similarity analysis (tRSA), an extension of representational similarity analysis (RSA) that uses a family of geo-topological summary statistics that generalizes the RDM to characterize the topology while de-emphasizing the geometry. We evaluate this new family of statistics in terms of the sensitivity and specificity for model selection using both simulations and functional MRI (fMRI) data. In the simulations, the ground truth is a data-generating layer representation in a neural network model and the models are the same and other layers in different model instances (trained from different random seeds). In fMRI, the ground truth is a visual area and the models are the same and other areas measured in different subjects. Results show that topology-sensitive characterizations of population codes are robust to noise and interindividual variability and maintain excellent sensitivity to the unique representational signatures of different neural network layers and brain regions.

  • 2 authors
·
Sep 19, 2023

FourierHandFlow: Neural 4D Hand Representation Using Fourier Query Flow

Recent 4D shape representations model continuous temporal evolution of implicit shapes by (1) learning query flows without leveraging shape and articulation priors or (2) decoding shape occupancies separately for each time value. Thus, they do not effectively capture implicit correspondences between articulated shapes or regularize jittery temporal deformations. In this work, we present FourierHandFlow, which is a spatio-temporally continuous representation for human hands that combines a 3D occupancy field with articulation-aware query flows represented as Fourier series. Given an input RGB sequence, we aim to learn a fixed number of Fourier coefficients for each query flow to guarantee smooth and continuous temporal shape dynamics. To effectively model spatio-temporal deformations of articulated hands, we compose our 4D representation based on two types of Fourier query flow: (1) pose flow that models query dynamics influenced by hand articulation changes via implicit linear blend skinning and (2) shape flow that models query-wise displacement flow. In the experiments, our method achieves state-of-the-art results on video-based 4D reconstruction while being computationally more efficient than the existing 3D/4D implicit shape representations. We additionally show our results on motion inter- and extrapolation and texture transfer using the learned correspondences of implicit shapes. To the best of our knowledge, FourierHandFlow is the first neural 4D continuous hand representation learned from RGB videos. The code will be publicly accessible.

  • 5 authors
·
Jul 15, 2023

CLUTCH: Contextualized Language model for Unlocking Text-Conditioned Hand motion modelling in the wild

Hands play a central role in daily life, yet modeling natural hand motions remains underexplored. Existing methods that tackle text-to-hand-motion generation or hand animation captioning rely on studio-captured datasets with limited actions and contexts, making them costly to scale to "in-the-wild" settings. Further, contemporary models and their training schemes struggle to capture animation fidelity with text-motion alignment. To address this, we (1) introduce '3D Hands in the Wild' (3D-HIW), a dataset of 32K 3D hand-motion sequences and aligned text, and (2) propose CLUTCH, an LLM-based hand animation system with two critical innovations: (a) SHIFT, a novel VQ-VAE architecture to tokenize hand motion, and (b) a geometric refinement stage to finetune the LLM. To build 3D-HIW, we propose a data annotation pipeline that combines vision-language models (VLMs) and state-of-the-art 3D hand trackers, and apply it to a large corpus of egocentric action videos covering a wide range of scenarios. To fully capture motion in-the-wild, CLUTCH employs SHIFT, a part-modality decomposed VQ-VAE, which improves generalization and reconstruction fidelity. Finally, to improve animation quality, we introduce a geometric refinement stage, where CLUTCH is co-supervised with a reconstruction loss applied directly to decoded hand motion parameters. Experiments demonstrate state-of-the-art performance on text-to-motion and motion-to-text tasks, establishing the first benchmark for scalable in-the-wild hand motion modelling. Code, data and models will be released.

  • 6 authors
·
Feb 18

Mosaic-SDF for 3D Generative Models

Current diffusion or flow-based generative models for 3D shapes divide to two: distilling pre-trained 2D image diffusion models, and training directly on 3D shapes. When training a diffusion or flow models on 3D shapes a crucial design choice is the shape representation. An effective shape representation needs to adhere three design principles: it should allow an efficient conversion of large 3D datasets to the representation form; it should provide a good tradeoff of approximation power versus number of parameters; and it should have a simple tensorial form that is compatible with existing powerful neural architectures. While standard 3D shape representations such as volumetric grids and point clouds do not adhere to all these principles simultaneously, we advocate in this paper a new representation that does. We introduce Mosaic-SDF (M-SDF): a simple 3D shape representation that approximates the Signed Distance Function (SDF) of a given shape by using a set of local grids spread near the shape's boundary. The M-SDF representation is fast to compute for each shape individually making it readily parallelizable; it is parameter efficient as it only covers the space around the shape's boundary; and it has a simple matrix form, compatible with Transformer-based architectures. We demonstrate the efficacy of the M-SDF representation by using it to train a 3D generative flow model including class-conditioned generation with the 3D Warehouse dataset, and text-to-3D generation using a dataset of about 600k caption-shape pairs.

  • 5 authors
·
Dec 14, 2023 4

Generative Action Description Prompts for Skeleton-based Action Recognition

Skeleton-based action recognition has recently received considerable attention. Current approaches to skeleton-based action recognition are typically formulated as one-hot classification tasks and do not fully exploit the semantic relations between actions. For example, "make victory sign" and "thumb up" are two actions of hand gestures, whose major difference lies in the movement of hands. This information is agnostic from the categorical one-hot encoding of action classes but could be unveiled from the action description. Therefore, utilizing action description in training could potentially benefit representation learning. In this work, we propose a Generative Action-description Prompts (GAP) approach for skeleton-based action recognition. More specifically, we employ a pre-trained large-scale language model as the knowledge engine to automatically generate text descriptions for body parts movements of actions, and propose a multi-modal training scheme by utilizing the text encoder to generate feature vectors for different body parts and supervise the skeleton encoder for action representation learning. Experiments show that our proposed GAP method achieves noticeable improvements over various baseline models without extra computation cost at inference. GAP achieves new state-of-the-arts on popular skeleton-based action recognition benchmarks, including NTU RGB+D, NTU RGB+D 120 and NW-UCLA. The source code is available at https://github.com/MartinXM/GAP.

  • 5 authors
·
Aug 10, 2022

Emergent Properties of Foveated Perceptual Systems

The goal of this work is to characterize the representational impact that foveation operations have for machine vision systems, inspired by the foveated human visual system, which has higher acuity at the center of gaze and texture-like encoding in the periphery. To do so, we introduce models consisting of a first-stage fixed image transform followed by a second-stage learnable convolutional neural network, and we varied the first stage component. The primary model has a foveated-textural input stage, which we compare to a model with foveated-blurred input and a model with spatially-uniform blurred input (both matched for perceptual compression), and a final reference model with minimal input-based compression. We find that: 1) the foveated-texture model shows similar scene classification accuracy as the reference model despite its compressed input, with greater i.i.d. generalization than the other models; 2) the foveated-texture model has greater sensitivity to high-spatial frequency information and greater robustness to occlusion, w.r.t the comparison models; 3) both the foveated systems, show a stronger center image-bias relative to the spatially-uniform systems even with a weight sharing constraint. Critically, these results are preserved over different classical CNN architectures throughout their learning dynamics. Altogether, this suggests that foveation with peripheral texture-based computations yields an efficient, distinct, and robust representational format of scene information, and provides symbiotic computational insight into the representational consequences that texture-based peripheral encoding may have for processing in the human visual system, while also potentially inspiring the next generation of computer vision models via spatially-adaptive computation. Code + Data available here: https://github.com/ArturoDeza/EmergentProperties

  • 2 authors
·
Jun 14, 2020

OBoW: Online Bag-of-Visual-Words Generation for Self-Supervised Learning

Learning image representations without human supervision is an important and active research field. Several recent approaches have successfully leveraged the idea of making such a representation invariant under different types of perturbations, especially via contrastive-based instance discrimination training. Although effective visual representations should indeed exhibit such invariances, there are other important characteristics, such as encoding contextual reasoning skills, for which alternative reconstruction-based approaches might be better suited. With this in mind, we propose a teacher-student scheme to learn representations by training a convolutional net to reconstruct a bag-of-visual-words (BoW) representation of an image, given as input a perturbed version of that same image. Our strategy performs an online training of both the teacher network (whose role is to generate the BoW targets) and the student network (whose role is to learn representations), along with an online update of the visual-words vocabulary (used for the BoW targets). This idea effectively enables fully online BoW-guided unsupervised learning. Extensive experiments demonstrate the interest of our BoW-based strategy which surpasses previous state-of-the-art methods (including contrastive-based ones) in several applications. For instance, in downstream tasks such Pascal object detection, Pascal classification and Places205 classification, our method improves over all prior unsupervised approaches, thus establishing new state-of-the-art results that are also significantly better even than those of supervised pre-training. We provide the implementation code at https://github.com/valeoai/obow.

  • 6 authors
·
Dec 21, 2020

Beyond Color and Lines: Zero-Shot Style-Specific Image Variations with Coordinated Semantics

Traditionally, style has been primarily considered in terms of artistic elements such as colors, brushstrokes, and lighting. However, identical semantic subjects, like people, boats, and houses, can vary significantly across different artistic traditions, indicating that style also encompasses the underlying semantics. Therefore, in this study, we propose a zero-shot scheme for image variation with coordinated semantics. Specifically, our scheme transforms the image-to-image problem into an image-to-text-to-image problem. The image-to-text operation employs vision-language models e.g., BLIP) to generate text describing the content of the input image, including the objects and their positions. Subsequently, the input style keyword is elaborated into a detailed description of this style and then merged with the content text using the reasoning capabilities of ChatGPT. Finally, the text-to-image operation utilizes a Diffusion model to generate images based on the text prompt. To enable the Diffusion model to accommodate more styles, we propose a fine-tuning strategy that injects text and style constraints into cross-attention. This ensures that the output image exhibits similar semantics in the desired style. To validate the performance of the proposed scheme, we constructed a benchmark comprising images of various styles and scenes and introduced two novel metrics. Despite its simplicity, our scheme yields highly plausible results in a zero-shot manner, particularly for generating stylized images with high-fidelity semantics.

  • 8 authors
·
Oct 24, 2024

PCHands: PCA-based Hand Pose Synergy Representation on Manipulators with N-DoF

We consider the problem of learning a common representation for dexterous manipulation across manipulators of different morphologies. To this end, we propose PCHands, a novel approach for extracting hand postural synergies from a large set of manipulators. We define a simplified and unified description format based on anchor positions for manipulators ranging from 2-finger grippers to 5-finger anthropomorphic hands. This enables learning a variable-length latent representation of the manipulator configuration and the alignment of the end-effector frame of all manipulators. We show that it is possible to extract principal components from this latent representation that is universal across manipulators of different structures and degrees of freedom. To evaluate PCHands, we use this compact representation to encode observation and action spaces of control policies for dexterous manipulation tasks learned with RL. In terms of learning efficiency and consistency, the proposed representation outperforms a baseline that learns the same tasks in joint space. We additionally show that PCHands performs robustly in RL from demonstration, when demonstrations are provided from a different manipulator. We further support our results with real-world experiments that involve a 2-finger gripper and a 4-finger anthropomorphic hand. Code and additional material are available at https://hsp-iit.github.io/PCHands/.