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Towards Classifying Histopathological Microscope Images as Time Series Data

Sungrae Hong, Hyeongmin Park, Youngsin Ko, Sol Lee, Bryan Wong, Mun Yong Yi

arxiv logopreprintJun 19 2025
As the frontline data for cancer diagnosis, microscopic pathology images are fundamental for providing patients with rapid and accurate treatment. However, despite their practical value, the deep learning community has largely overlooked their usage. This paper proposes a novel approach to classifying microscopy images as time series data, addressing the unique challenges posed by their manual acquisition and weakly labeled nature. The proposed method fits image sequences of varying lengths to a fixed-length target by leveraging Dynamic Time-series Warping (DTW). Attention-based pooling is employed to predict the class of the case simultaneously. We demonstrate the effectiveness of our approach by comparing performance with various baselines and showcasing the benefits of using various inference strategies in achieving stable and reliable results. Ablation studies further validate the contribution of each component. Our approach contributes to medical image analysis by not only embracing microscopic images but also lifting them to a trustworthy level of performance.

AGE-US: automated gestational age estimation based on fetal ultrasound images

César Díaz-Parga, Marta Nuñez-Garcia, Maria J. Carreira, Gabriel Bernardino, Nicolás Vila-Blanco

arxiv logopreprintJun 19 2025
Being born small carries significant health risks, including increased neonatal mortality and a higher likelihood of future cardiac diseases. Accurate estimation of gestational age is critical for monitoring fetal growth, but traditional methods, such as estimation based on the last menstrual period, are in some situations difficult to obtain. While ultrasound-based approaches offer greater reliability, they rely on manual measurements that introduce variability. This study presents an interpretable deep learning-based method for automated gestational age calculation, leveraging a novel segmentation architecture and distance maps to overcome dataset limitations and the scarcity of segmentation masks. Our approach achieves performance comparable to state-of-the-art models while reducing complexity, making it particularly suitable for resource-constrained settings and with limited annotated data. Furthermore, our results demonstrate that the use of distance maps is particularly suitable for estimating femur endpoints.

The Clinical Significance of Femoral and Tibial Anatomy for Anterior Cruciate Ligament Injury and Reconstruction.

Liew FF, Liang J

pubmed logopapersJun 19 2025
The anterior cruciate ligament (ACL) is a crucial stabilizer of the knee joint, and its injury risk and surgical outcomes are closely linked to femoral and tibial anatomy. This review focuses on current evidence on how skeletal parameters, such as femoral intercondylar notch morphology, tibial slope, and insertion site variations-influence ACL biomechanics. A narrowed or concave femoral notch raises the risk of impingement, while a higher posterior tibial slope makes anterior tibial translation worse, which increases ACL strain. Gender disparities exist, with females exhibiting smaller notch dimensions, and hormonal fluctuations may contribute to ligament laxity. Anatomical changes that come with getting older make clinical management even harder. Adolescent patients have problems with epiphyseal growth, and older patients have to deal with degenerative notch narrowing and lower bone density. Preoperative imaging (MRI, CT, and 3D reconstruction) enables precise assessment of anatomical variations, guiding individualized surgical strategies. Optimal femoral and tibial tunnel placement during reconstruction is vital to replicate native ACL biomechanics and avoid graft failure. Emerging technologies, including AI-driven segmentation and deep learning models, enhance risk prediction and intraoperative precision. Furthermore, synergistic factors, such as meniscal integrity and posterior oblique ligament anatomy, need to be integrated into comprehensive evaluations. Future directions emphasize personalized approaches, combining advanced imaging, neuromuscular training, and artificial intelligence to optimize prevention, diagnosis, and rehabilitation. Addressing age-specific challenges, such as growth plate preservation in pediatric cases and osteoarthritis management in the elderly, will improve long-term outcomes. Ultimately, a nuanced understanding of skeletal anatomy and technological integration holds promise for reducing ACL reinjury rates and enhancing patient recovery.

Segmentation of Pulp and Pulp Stones with Automatic Deep Learning in Panoramic Radiographs: An Artificial Intelligence Study.

Firincioglulari M, Boztuna M, Mirzaei O, Karanfiller T, Akkaya N, Orhan K

pubmed logopapersJun 19 2025
<b>Background/Objectives</b>: Different sized calcified masses called pulp stones are often detected in dental pulp and can impact dental procedures. The current research was conducted with the aim of measuring the ability of artificial intelligence algorithms to accurately diagnose pulp and pulp stone calcifications on panoramic radiographs. <b>Methods</b>: We used 713 panoramic radiographs, on which a minimum of one pulp stone was detected, identified retrospectively, and included in the study-4675 pulp stones and 5085 pulps were marked on these radiographs using CVAT v1.7.0 labeling software. <b>Results</b>: In the test dataset, the AI model segmented 462 panoramic radiographs for pulp stone and 220 panoramic radiographs for pulp. The dice coefficient and Intersection over Union (IoU) recorded for the Pulp Segmentation model were 0.84 and 0.758, respectively. Precision and recall were computed to be 0.858 and 0.827, respectively. The Pulp Stone Segmentation model achieved a dice coefficient of 0.759 and an IoU of 0.686, with precision and recall of 0.792 and 0.773, respectively. <b>Conclusions</b>: Pulp and pulp stones can successfully be identified using artificial intelligence algorithms. This study provides evidence that artificial intelligence software using deep learning algorithms can be valuable adjunct tools in aiding clinicians in radiographic diagnosis. Further research in which larger datasets are examined are needed to enhance the capability of artificial intelligence models to make accurate diagnoses.

Comparison of publicly available artificial intelligence models for pancreatic segmentation on T1-weighted Dixon images.

Sonoda Y, Fujisawa S, Kurokawa M, Gonoi W, Hanaoka S, Yoshikawa T, Abe O

pubmed logopapersJun 18 2025
This study aimed to compare three publicly available deep learning models (TotalSegmentator, TotalVibeSegmentator, and PanSegNet) for automated pancreatic segmentation on magnetic resonance images and to evaluate their performance against human annotations in terms of segmentation accuracy, volumetric measurement, and intrapancreatic fat fraction (IPFF) assessment. Twenty upper abdominal T1-weighted magnetic resonance series acquired using the two-point Dixon method were randomly selected. Three radiologists manually segmented the pancreas, and a ground-truth mask was constructed through a majority vote per voxel. Pancreatic segmentation was also performed using the three artificial intelligence models. Performance was evaluated using the Dice similarity coefficient (DSC), 95th-percentile Hausdorff distance, average symmetric surface distance, positive predictive value, sensitivity, Bland-Altman plots, and concordance correlation coefficient (CCC) for pancreatic volume and IPFF. PanSegNet achieved the highest DSC (mean ± standard deviation, 0.883 ± 0.095) and showed no statistically significant difference from the human interobserver DSC (0.896 ± 0.068; p = 0.24). In contrast, TotalVibeSegmentator (0.731 ± 0.105) and TotalSegmentator (0.707 ± 0.142) had significantly lower DSC values compared with the human interobserver average (p < 0.001). For pancreatic volume and IPFF, PanSegNet demonstrated the best agreement with the ground truth (CCC values of 0.958 and 0.993, respectively), followed by TotalSegmentator (0.834 and 0.980) and TotalVibeSegmentator (0.720 and 0.672). PanSegNet demonstrated the highest segmentation accuracy and the best agreement with human measurements for both pancreatic volume and IPFF on T1-weighted Dixon images. This model appears to be the most suitable for large-scale studies requiring automated pancreatic segmentation and intrapancreatic fat evaluation.

Artificial Intelligence-Assisted Segmentation of Prostate Tumors and Neurovascular Bundles: Applications in Precision Surgery for Prostate Cancer.

Mei H, Yang R, Huang J, Jiao P, Liu X, Chen Z, Chen H, Zheng Q

pubmed logopapersJun 18 2025
The aim of this study was to guide prostatectomy by employing artificial intelligence for the segmentation of tumor gross tumor volume (GTV) and neurovascular bundles (NVB). The preservation and dissection of NVB differ between intrafascial and extrafascial robot-assisted radical prostatectomy (RARP), impacting postoperative urinary control. We trained the nnU-Net v2 neural network using data from 220 patients in the PI-CAI cohort for the segmentation of prostate GTV and NVB in biparametric magnetic resonance imaging (bpMRI). The model was then validated in an external cohort of 209 patients from Renmin Hospital of Wuhan University (RHWU). Utilizing three-dimensional reconstruction and point cloud analysis, we explored the spatial distribution of GTV and NVB in relation to intrafascial and extrafascial approaches. We also prospectively included 40 patients undergoing intrafascial and extrafascial RARP, applying the aforementioned procedure to classify the surgical approach. Additionally, 3D printing was employed to guide surgery, and follow-ups on short- and long-term urinary function in patients were conducted. The nnU-Net v2 neural network demonstrated precise segmentation of GTV, NVB, and prostate, achieving Dice scores of 0.5573 ± 0.0428, 0.7679 ± 0.0178, and 0.7483 ± 0.0290, respectively. By establishing the distance from GTV to NVB, we successfully predicted the surgical approach. Urinary control analysis revealed that the extrafascial approach yielded better postoperative urinary function, facilitating more refined management of patients with prostate cancer and personalized medical care. Artificial intelligence technology can accurately identify GTV and NVB in preoperative bpMRI of patients with prostate cancer and guide the choice between intrafascial and extrafascial RARP. Patients undergoing intrafascial RARP with preserved NVB demonstrate improved postoperative urinary control.

EchoFM: Foundation Model for Generalizable Echocardiogram Analysis.

Kim S, Jin P, Song S, Chen C, Li Y, Ren H, Li X, Liu T, Li Q

pubmed logopapersJun 18 2025
Echocardiography is the first-line noninvasive cardiac imaging modality, providing rich spatio-temporal information on cardiac anatomy and physiology. Recently, foundation model trained on extensive and diverse datasets has shown strong performance in various downstream tasks. However, translating foundation models into the medical imaging domain remains challenging due to domain differences between medical and natural images, the lack of diverse patient and disease datasets. In this paper, we introduce EchoFM, a general-purpose vision foundation model for echocardiography trained on a large-scale dataset of over 20 million echocardiographic images from 6,500 patients. To enable effective learning of rich spatio-temporal representations from periodic videos, we propose a novel self-supervised learning framework based on a masked autoencoder with a spatio-temporal consistent masking strategy and periodic-driven contrastive learning. The learned cardiac representations can be readily adapted and fine-tuned for a wide range of downstream tasks, serving as a strong and flexible backbone model. We validate EchoFM through experiments across key downstream tasks in the clinical echocardiography workflow, leveraging public and multi-center internal datasets. EchoFM consistently outperforms SOTA methods, demonstrating superior generalization capabilities and flexibility. The code and checkpoints are available at: https://github.com/SekeunKim/EchoFM.git.

RadioRAG: Online Retrieval-augmented Generation for Radiology Question Answering.

Tayebi Arasteh S, Lotfinia M, Bressem K, Siepmann R, Adams L, Ferber D, Kuhl C, Kather JN, Nebelung S, Truhn D

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 evaluate diagnostic accuracy of various large language models (LLMs) when answering radiology-specific questions with and without access to additional online, up-to-date information via retrieval-augmented generation (RAG). Materials and Methods The authors developed Radiology RAG (RadioRAG), an end-to-end framework that retrieves data from authoritative radiologic online sources in real-time. RAG incorporates information retrieval from external sources to supplement the initial prompt, grounding the model's response in relevant information. Using 80 questions from the RSNA Case Collection across radiologic subspecialties and 24 additional expert-curated questions with reference standard answers, LLMs (GPT-3.5-turbo, GPT-4, Mistral-7B, Mixtral-8 × 7B, and Llama3 [8B and 70B]) were prompted with and without RadioRAG in a zero-shot inference scenario (temperature ≤ 0.1, top- <i>P</i> = 1). RadioRAG retrieved context-specific information from www.radiopaedia.org. Accuracy of LLMs with and without RadioRAG in answering questions from each dataset was assessed. Statistical analyses were performed using bootstrapping while preserving pairing. Additional assessments included comparison of model with human performance and comparison of time required for conventional versus RadioRAG-powered question answering. Results RadioRAG improved accuracy for some LLMs, including GPT-3.5-turbo [74% (59/80) versus 66% (53/80), FDR = 0.03] and Mixtral-8 × 7B [76% (61/80) versus 65% (52/80), FDR = 0.02] on the RSNA-RadioQA dataset, with similar trends in the ExtendedQA dataset. Accuracy exceeded (FDR ≤ 0.007) that of a human expert (63%, (50/80)) for these LLMs, while not for Mistral-7B-instruct-v0.2, Llama3-8B, and Llama3-70B (FDR ≥ 0.21). RadioRAG reduced hallucinations for all LLMs (rates from 6-25%). RadioRAG increased estimated response time fourfold. Conclusion RadioRAG shows potential to improve LLM accuracy and factuality in radiology question answering by integrating real-time domain-specific data. ©RSNA, 2025.

Dual-scan self-learning denoising for application in ultralow-field MRI.

Zhang Y, He W, Wu J, Xu Z

pubmed logopapersJun 18 2025
This study develops a self-learning method to denoise MR images for use in ultralow field (ULF) applications. We propose use of a self-learning neural network for denoising 3D MRI obtained from two acquisitions (dual scan), which are utilized as training pairs. Based on the self-learning method Noise2Noise, an effective data augmentation method and integrated learning strategy for enhancing model performance are proposed. Experimental results demonstrate that (1) the proposed model can produce exceptional denoising results and outperform the traditional Noise2Noise method subjectively and objectively; (2) magnitude images can be effectively denoised comparing with several state-of-the-art methods on synthetic and real ULF data; and (3) the proposed method can yield better results on phase images and quantitative imaging applications than other denoisers due to the self-learning framework. Theoretical and experimental implementations show that the proposed self-learning model achieves improved performance on magnitude image denoising with synthetic and real-world data at ULF. Additionally, we test our method on calculated phase and quantification images, demonstrating its superior performance over several contrastive methods.

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.
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