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Mono-Modalizing Extremely Heterogeneous Multi-Modal Medical Image Registration

Kyobin Choo, Hyunkyung Han, Jinyeong Kim, Chanyong Yoon, Seong Jae Hwang

arxiv logopreprintJun 18 2025
In clinical practice, imaging modalities with functional characteristics, such as positron emission tomography (PET) and fractional anisotropy (FA), are often aligned with a structural reference (e.g., MRI, CT) for accurate interpretation or group analysis, necessitating multi-modal deformable image registration (DIR). However, due to the extreme heterogeneity of these modalities compared to standard structural scans, conventional unsupervised DIR methods struggle to learn reliable spatial mappings and often distort images. We find that the similarity metrics guiding these models fail to capture alignment between highly disparate modalities. To address this, we propose M2M-Reg (Multi-to-Mono Registration), a novel framework that trains multi-modal DIR models using only mono-modal similarity while preserving the established architectural paradigm for seamless integration into existing models. We also introduce GradCyCon, a regularizer that leverages M2M-Reg's cyclic training scheme to promote diffeomorphism. Furthermore, our framework naturally extends to a semi-supervised setting, integrating pre-aligned and unaligned pairs only, without requiring ground-truth transformations or segmentation masks. Experiments on the Alzheimer's Disease Neuroimaging Initiative (ADNI) dataset demonstrate that M2M-Reg achieves up to 2x higher DSC than prior methods for PET-MRI and FA-MRI registration, highlighting its effectiveness in handling highly heterogeneous multi-modal DIR. Our code is available at https://github.com/MICV-yonsei/M2M-Reg.

Artificial Intelligence in Breast US Diagnosis and Report Generation.

Wang J, Tian H, Yang X, Wu H, Zhu X, Chen R, Chang A, Chen Y, Dou H, Huang R, Cheng J, Zhou Y, Gao R, Yang K, Li G, Chen J, Ni D, Dong F, Xu J, Gu N

pubmed logopapersJun 18 2025
<i>"Just Accepted" papers have undergone full peer review and have been accepted for publication in <i>Radiology: Artificial Intelligence</i>. This article will undergo copyediting, layout, and proof review before it is published in its final version. Please note that during production of the final copyedited article, errors may be discovered which could affect the content.</i> Purpose To develop and evaluate an artificial intelligence (AI) system for generating breast ultrasound (BUS) reports. Materials and Methods This retrospective study included 104,364 cases from three hospitals (January 2020-December 2022). The AI system was trained on 82,896 cases, validated on 10,385 cases, and tested on an internal set (10,383 cases) and two external sets (300 and 400 cases). Under blind review, three senior radiologists (> 10 years of experience) evaluated AI-generated reports and those written by one midlevel radiologist (7 years of experience), as well as reports from three junior radiologists (2-3 years of experience) with and without AI assistance. The primary outcomes included the acceptance rates of Breast Imaging Reporting and Data System (BI-RADS) categories and lesion characteristics. Statistical analysis included one-sided and two-sided McNemar tests for non-inferiority and significance testing. Results In external test set 1 (300 cases), the midlevel radiologist and AI system achieved BI-RADS acceptance rates of 95.00% [285/300] versus 92.33% [277/300] (<i>P</i> < .001; non-inferiority test with a prespecified margin of 10%). In external test set 2 (400 cases), three junior radiologists had BI-RADS acceptance rates of 87.00% [348/400] versus 90.75% [363/400] (<i>P</i> = .06), 86.50% [346/400] versus 92.00% [368/400] ( <i>P</i> = .007), and 84.75% [339/400] versus 90.25% [361/400] (<i>P</i> = .02) with and without AI assistance, respectively. Conclusion The AI system performed comparably to a midlevel radiologist and aided junior radiologists in BI-RADS classification. ©RSNA, 2025.

Federated Learning for MRI-based BrainAGE: a multicenter study on post-stroke functional outcome prediction

Vincent Roca, Marc Tommasi, Paul Andrey, Aurélien Bellet, Markus D. Schirmer, Hilde Henon, Laurent Puy, Julien Ramon, Grégory Kuchcinski, Martin Bretzner, Renaud Lopes

arxiv logopreprintJun 18 2025
$\textbf{Objective:}$ Brain-predicted age difference (BrainAGE) is a neuroimaging biomarker reflecting brain health. However, training robust BrainAGE models requires large datasets, often restricted by privacy concerns. This study evaluates the performance of federated learning (FL) for BrainAGE estimation in ischemic stroke patients treated with mechanical thrombectomy, and investigates its association with clinical phenotypes and functional outcomes. $\textbf{Methods:}$ We used FLAIR brain images from 1674 stroke patients across 16 hospital centers. We implemented standard machine learning and deep learning models for BrainAGE estimates under three data management strategies: centralized learning (pooled data), FL (local training at each site), and single-site learning. We reported prediction errors and examined associations between BrainAGE and vascular risk factors (e.g., diabetes mellitus, hypertension, smoking), as well as functional outcomes at three months post-stroke. Logistic regression evaluated BrainAGE's predictive value for these outcomes, adjusting for age, sex, vascular risk factors, stroke severity, time between MRI and arterial puncture, prior intravenous thrombolysis, and recanalisation outcome. $\textbf{Results:}$ While centralized learning yielded the most accurate predictions, FL consistently outperformed single-site models. BrainAGE was significantly higher in patients with diabetes mellitus across all models. Comparisons between patients with good and poor functional outcomes, and multivariate predictions of these outcomes showed the significance of the association between BrainAGE and post-stroke recovery. $\textbf{Conclusion:}$ FL enables accurate age predictions without data centralization. The strong association between BrainAGE, vascular risk factors, and post-stroke recovery highlights its potential for prognostic modeling in stroke care.

Automated MRI Tumor Segmentation using hybrid U-Net with Transformer and Efficient Attention

Syed Haider Ali, Asrar Ahmad, Muhammad Ali, Asifullah Khan, Muhammad Shahban, Nadeem Shaukat

arxiv logopreprintJun 18 2025
Cancer is an abnormal growth with potential to invade locally and metastasize to distant organs. Accurate auto-segmentation of the tumor and surrounding normal tissues is required for radiotherapy treatment plan optimization. Recent AI-based segmentation models are generally trained on large public datasets, which lack the heterogeneity of local patient populations. While these studies advance AI-based medical image segmentation, research on local datasets is necessary to develop and integrate AI tumor segmentation models directly into hospital software for efficient and accurate oncology treatment planning and execution. This study enhances tumor segmentation using computationally efficient hybrid UNet-Transformer models on magnetic resonance imaging (MRI) datasets acquired from a local hospital under strict privacy protection. We developed a robust data pipeline for seamless DICOM extraction and preprocessing, followed by extensive image augmentation to ensure model generalization across diverse clinical settings, resulting in a total dataset of 6080 images for training. Our novel architecture integrates UNet-based convolutional neural networks with a transformer bottleneck and complementary attention modules, including efficient attention, Squeeze-and-Excitation (SE) blocks, Convolutional Block Attention Module (CBAM), and ResNeXt blocks. To accelerate convergence and reduce computational demands, we used a maximum batch size of 8 and initialized the encoder with pretrained ImageNet weights, training the model on dual NVIDIA T4 GPUs via checkpointing to overcome Kaggle's runtime limits. Quantitative evaluation on the local MRI dataset yielded a Dice similarity coefficient of 0.764 and an Intersection over Union (IoU) of 0.736, demonstrating competitive performance despite limited data and underscoring the importance of site-specific model development for clinical deployment.

RECIST<sup>Surv</sup>: Hybrid Multi-task Transformer for Hepatocellular Carcinoma Response and Survival Evaluation.

Jiao R, Liu Q, Zhang Y, Pu B, Xue B, Cheng Y, Yang K, Liu X, Qu J, Jin C, Zhang Y, Wang Y, Zhang YD

pubmed logopapersJun 18 2025
Transarterial Chemoembolization (TACE) is a widely applied alternative treatment for patients with hepatocellular carcinoma who are not eligible for liver resection or transplantation. However, the clinical outcomes after TACE are highly heterogeneous. There remains an urgent need for effective and efficient strategies to accurately assess tumor response and predict long-term outcomes using longitudinal and multi-center datasets. To address this challenge, we here introduce RECIST<sup>Surv</sup>, a novel response-driven Transformer model that integrates multi-task learning with a response-driven co-attention mechanism to simultaneously perform liver and tumor segmentation, predict tumor response to TACE, and estimate overall survival based on longitudinal Computed Tomography (CT) imaging. The proposed Response-driven Co-attention layer models the interactions between pre-TACE and post-TACE features guided by the treatment response embedding. This design enables the model to capture complex relationships between imaging features, treatment response, and survival outcomes, thereby enhancing both prediction accuracy and interpretability. In a multi-center validation study, RECIST<sup>Surv</sup>-predicted prognosis has demonstrated superior precision than state-of-the-art methods with C-indexes ranging from 0.595 to 0.780. Furthermore, when integrated with multi-modal data, RECIST<sup>Surv</sup> has emerged as an independent prognostic factor in all three validation cohorts, with hazard ratio (HR) ranging from 1.693 to 20.7 (P = 0.001-0.042). Our results highlight the potential of RECIST<sup>Surv</sup> as a powerful tool for personalized treatment planning and outcome prediction in hepatocellular carcinoma patients undergoing TACE. The experimental code is made publicly available at https://github.com/rushier/RECISTSurv.

Deep Learning-Based Adrenal Gland Volumetry for the Prediction of Diabetes.

Ku EJ, Yoon SH, Park SS, Yoon JW, Kim JH

pubmed logopapersJun 18 2025
The long-term association between adrenal gland volume (AGV) and type 2 diabetes (T2D) remains unclear. We aimed to determine the association between deep learning-based AGV and current glycemic status and incident T2D. In this observational study, adults who underwent abdominopelvic computed tomography (CT) for health checkups (2011-2012), but had no adrenal nodules, were included. AGV was measured from CT images using a three-dimensional nnU-Net deep learning algorithm. We assessed the association between AGV and T2D using a cross-sectional and longitudinal design. We used 500 CT scans (median age, 52.3 years; 253 men) for model development and a Multi-Atlas Labeling Beyond the Cranial Vault dataset for external testing. A clinical cohort included a total of 9708 adults (median age, 52.0 years; 5,769 men). The deep learning model demonstrated a dice coefficient of 0.71±0.11 for adrenal segmentation and a mean volume difference of 0.6± 0.9 mL in the external dataset. Participants with T2D at baseline had a larger AGV than those without (7.3 cm3 vs. 6.7 cm3 and 6.3 cm3 vs. 5.5 cm3 for men and women, respectively, all P<0.05). The optimal AGV cutoff values for predicting T2D were 7.2 cm3 in men and 5.5 cm3 in women. Over a median 7.0-year follow-up, T2D developed in 938 participants. Cumulative T2D risk was accentuated with high AGV compared with low AGV (adjusted hazard ratio, 1.27; 95% confidence interval, 1.11 to 1.46). AGV, measured using deep learning algorithms, is associated with current glycemic status and can significantly predict the development of T2D.

Quality control system for patient positioning and filling in meta-information for chest X-ray examinations.

Borisov AA, Semenov SS, Kirpichev YS, Arzamasov KM, Omelyanskaya OV, Vladzymyrskyy AV, Vasilev YA

pubmed logopapersJun 18 2025
During radiography, irregularities occur, leading to decrease in the diagnostic value of the images obtained. The purpose of this work was to develop a system for automated quality assurance of patient positioning in chest radiographs, with detection of suboptimal contrast, brightness, and metadata errors. The quality assurance system was trained and tested using more than 69,000 X-rays of the chest and other anatomical areas from the Unified Radiological Information Service (URIS) and several open datasets. Our dataset included studies regardless of a patient's gender and race, while the sole exclusion criterion being age below 18 years. A training dataset of radiographs labeled by expert radiologists was used to train an ensemble of modified deep convolutional neural networks architectures ResNet152V2 and VGG19 to identify various quality deficiencies. Model performance was accessed using area under the receiver operating characteristic curve (ROC-AUC), precision, recall, F1-score, and accuracy metrics. Seven neural network models were trained to classify radiographs by the following quality deficiencies: failure to capture the target anatomic region, chest rotation, suboptimal brightness, incorrect anatomical area, projection errors, and improper photometric interpretation. All metrics for each model exceed 95%, indicating high predictive value. All models were combined into a unified system for evaluating radiograph quality. The processing time per image is approximately 3 s. The system supports multiple use cases: integration into an automated radiographic workstations, external quality assurance system for radiology departments, acquisition quality audits for municipal health systems, and routing of studies to diagnostic AI models.

Identification, characterisation and outcomes of pre-atrial fibrillation in heart failure with reduced ejection fraction.

Helbitz A, Nadarajah R, Mu L, Larvin H, Ismail H, Wahab A, Thompson P, Harrison P, Harris M, Joseph T, Plein S, Petrie M, Metra M, Wu J, Swoboda P, Gale CP

pubmed logopapersJun 18 2025
Atrial fibrillation (AF) in heart failure with reduced ejection fraction (HFrEF) has prognostic implications. Using a machine learning algorithm (FIND-AF), we aimed to explore clinical events and the cardiac magnetic resonance (CMR) characteristics of the pre-AF phenotype in HFrEF. A cohort of individuals aged ≥18 years with HFrEF without AF from the MATCH 1 and MATCH 2 studies (2018-2024) stratified by FIND-AF score. All received cardiac magnetic resonance using Cvi42 software for volumetric and T1/T2. The primary outcome was time to a composite of MACE inclusive of heart failure hospitalisation, myocardial infarction, stroke and all-cause mortality. Secondary outcomes included the association between CMR findings and FIND-AF score. Of 385 patients [mean age 61.7 (12.6) years, 39.0% women] with a median 2.5 years follow-up, the primary outcome occurred in 58 (30.2%) patients in the high FIND-AF risk group and 23 (11.9%) in the low FIND-AF risk group (hazard ratio 3.25, 95% CI 2.00-5.28, P < 0.001). Higher FIND-AF score was associated with higher indexed left ventricular mass (β = 4.7, 95% CI 0.5-8.9), indexed left atrial volume (β = 5.9, 95% CI 2.2-9.6), higher indexed left ventricular end-diastolic volume (β = 9.55, 95% CI 1.37-17.74, P = 0.022), native T1 signal (β = 18.0, 95% CI 7.0-29.1) and extracellular volume (β = 1.6, 95% CI 0.6-2.5). A pre-AF HFrEF subgroup with distinct CMR characteristics and poor prognosis may be identified, potentially guiding interventions to reduce clinical events.

Can CTA-based Machine Learning Identify Patients for Whom Successful Endovascular Stroke Therapy is Insufficient?

Jeevarajan JA, Dong Y, Ballekere A, Marioni SS, Niktabe A, Abdelkhaleq R, Sheth SA, Giancardo L

pubmed logopapersJun 18 2025
Despite advances in endovascular stroke therapy (EST) devices and techniques, many patients are left with substantial disability, even if the final infarct volumes (FIVs) remain small. Here, we evaluate the performance of a machine learning (ML) approach using pre-treatment CT angiography (CTA) to identify this cohort of patients that may benefit from additional interventions. We identified consecutive large vessel occlusion (LVO) acute ischemic stroke (AIS) subjects who underwent EST with successful reperfusion in a multicenter prospective registry cohort. We included only subjects with FIV<30mL and recorded 90-day outcome (modified Rankin scale, mRS). A deep learning model was pre-trained and then fine-tuned to predict 90-day mRS 0-2 using pre-treatment CTA images (DSN-CTA model). The primary outcome was the predictive performance of the DSNCTA model compared to a logistic regression model with clinical variables, measured by the area under the receiver operating characteristic curve (AUROC). The DSN-CTA model was pre-trained on 1,542 subjects and then fine-tuned and cross-validated with 48 subjects, all of whom underwent EST with TICI 2b-3 reperfusion. Of this cohort, 56.2% of subjects had 90-day mRS 3-6 despite successful EST and FIV<30mL. The DSN-CTA model showed significantly better performance than a model with clinical variables alone when predicting good 90-day mRS (AUROC 0.81 vs 0.492, p=0.006). The CTA-based machine learning model was able to more reliably predict unexpected poor functional outcome after successful EST and small FIV for patients with LVO AIS compared to standard clinical variables. ML models may identify <i>a priori</i> patients in whom EST-based LVO reperfusion alone is insufficient to improve clinical outcomes. AIS= acute ischemic stroke; AUROC= area under the receiver operating characteristic curve; DSN-CTA= DeepSymNet-v3 model; EST= endovascular stroke therapy; FIV= final infarct volume; LVO= large vessel occlusion; ML= machine learning.

Comparative analysis of transformer-based deep learning models for glioma and meningioma classification.

Nalentzi K, Gerogiannis K, Bougias H, Stogiannos N, Papavasileiou P

pubmed logopapersJun 18 2025
This study compares the classification accuracy of novel transformer-based deep learning models (ViT and BEiT) on brain MRIs of gliomas and meningiomas through a feature-driven approach. Meta's Segment Anything Model was used for semi-automatic segmentation, therefore proposing a total neural network-based workflow for this classification task. ViT and BEiT models were finetuned to a publicly available brain MRI dataset. Gliomas/meningiomas cases (625/507) were used for training and 520 cases (260/260; gliomas/meningiomas) for testing. The extracted deep radiomic features from ViT and BEiT underwent normalization, dimensionality reduction based on the Pearson correlation coefficient (PCC), and feature selection using analysis of variance (ANOVA). A multi-layer perceptron (MLP) with 1 hidden layer, 100 units, rectified linear unit activation, and Adam optimizer was utilized. Hyperparameter tuning was performed via 5-fold cross-validation. The ViT model achieved the highest AUC on the validation dataset using 7 features, yielding an AUC of 0.985 and accuracy of 0.952. On the independent testing dataset, the model exhibited an AUC of 0.962 and an accuracy of 0.904. The BEiT model yielded an AUC of 0.939 and an accuracy of 0.871 on the testing dataset. This study demonstrates the effectiveness of transformer-based models, especially ViT, for glioma and meningioma classification, achieving high AUC scores and accuracy. However, the study is limited by the use of a single dataset, which may affect generalizability. Future work should focus on expanding datasets and further optimizing models to improve performance and applicability across different institutions. This study introduces a feature-driven methodology for glioma and meningioma classification, showcasing advancements in the accuracy and model robustness of transformer-based models.
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