Search Results (89)

Background: Prostate cancer (PCa) is the most frequent neoplasia in the male population. According to the International Society of Urological Pathology (ISUP), PCa can be divided into two major groups, based on their prognosis and treatment options. Multiparametric magnetic resonance imaging (mpMRI) holds a central role in PCa assessment; however, it does not have a one-to-one correspondence with the histopathological grading of tumors. Recently, artificial intelligence (AI)-based algorithms and textural analysis, a subdivision of radiomics, have shown potential in bridging this gap. Objectives: We aimed to develop a machine-learning algorithm that predicts the ISUP grade of manually contoured prostate nodules on T2-weighted images and classifies them into clinically significant and indolent ones. Materials and Methods: We included 55 patients with 76 lesions. All patients were examined on the same 1.5 Tesla mpMRI scanner. Each nodule was manually segmented using the open-source 3D Slicer platform, and textural features were extracted using the PyRadiomics (version 3.0.1) library. The software was based on machine-learning classifiers. The accuracy was calculated based on precision, recall, and F1 scores. Results: The median age of the study group was 64 years (IQR 61–68), and the mean PSA value was 11.14 ng/mL. A total of 85.52% of the nodules were graded PI-RADS 4 or higher. Overall, the algorithm classified indolent and clinically significant PCas with an accuracy of 87.2%. Further, when trained to differentiate each ISUP group, the accuracy was 80.3%. Conclusions: We developed an AI-based decision-support system that accurately differentiates between the two PCa prognostic groups using only T2 MRI acquisitions by employing radiomics with a robust machine-learning architecture. Full article

Purpose: To evaluate the diagnostic value of ultrasound radiomics in distinguishing between benign and malignant breast nodules in women who have undergone silicone breast augmentation. Methods: A retrospective study was conducted of 99 breast nodules detected by ultrasound in 93 women who had undergone silicone breast augmentation. The ultrasound data were collected between 1 January 2006 and 1 September 2023. The nodules were allocated into a training set (n = 69) and a validation set (n = 30). Regions of interest (ROIs) were manually delineated using 3D Slicer software, and radiomic features were extracted and selected using Python programming. Eight machine learning algorithms were applied to build predictive models, and their performance was assessed using sensitivity, specificity, area under the ROC curve (AUC), accuracy, Brier score, and log loss. Model performance was further evaluated using ROC curves and calibration curves, while clinical utility was assessed via decision curve analysis (DCA). Results: The random forest model exhibited superior performance in differentiating benign from malignant nodules in the validation set, achieving sensitivity of 0.765, specificity of 0.838, and an AUC of 0.787 (95% CI: 0.561–0.960). The model’s accuracy, Brier score, and log loss were 0.796, 0.197, and 0.599, respectively. DCA suggested potential clinical utility of the model. Conclusion: Ultrasound radiomics demonstrates promising diagnostic accuracy in differentiating benign from malignant breast nodules in women with silicone breast prostheses. This approach has the potential to serve as an additional diagnostic tool for patients following silicone breast augmentation. Full article

Respiratory disease is common in rabbits, but subclinical conditions can be challenging to diagnose and may cause respiratory problems during anesthesia. CT is the preferred method for diagnosing lung diseases, but anesthesia can alter lung volume and cause lung lobe collapse. In this study, seventeen healthy 5-month-old male New Zealand white rabbits underwent thoracic CT scans under different conditions. Rabbits were sedated with midazolam and butorphanol and scanned in a sphinx position; they were then anesthetized with dexmedetomidine and ketamine and scanned again in sternal recumbency during spontaneous breathing. Lastly, apnea was induced using intermittent positive pressure ventilation (IPPV) for a final scan. Lung volume and density were measured using the 3D Slicer version 5.6.2 software, with thresholds set between −1050 and −100 Hounsfield Units (HU). Sedated animals had significantly higher total lung volume (69.39 ± 10.04 cm³) than anesthetized (47.10 ± 9.28 cm³) and anesthetized apnea rabbits (48.60 ± 7.40 cm³). Mean lung attenuation during sedation was −611.26 HU (right) and −636.00 HU (left). After anesthesia induction, values increased to −552.75 HU (right) and −561.90 HU (left). Following apnea induction, attenuation slightly decreased to −569.40 HU (right) and −579.94 HU (left). The results indicate that sedation may be preferable for rabbit lung CT to minimize anesthesia-related changes. Full article

Traditional tools, such as 3D Slicer, Fiji, and MATLAB^®, often encounter limitations in rendering performance and data management as the dataset sizes increase. This work presents a GPU-enabled volume renderer with a MATLAB^® interface that addresses these issues. The proposed renderer uses flexible memory management and leverages the GPU texture-mapping features of NVIDIA devices. It transfers data between the CPU and the GPU only in the case of a data change between renderings, and uses texture memory to make use of specific hardware benefits of the GPU and improve the quality. A case study using the ViBE-Z zebrafish larval dataset demonstrated the renderer’s ability to produce visualizations while managing extensive data effectively within the MATLAB^® environment. The renderer is available as open-source software. Full article

In 3D printing, the layered structure often results in artifacts. This effect becomes stronger for surfaces with a lower ramp angle. This effect can be mitigated by manufacturing parts with non-planar layers that fit the parts’ surface geometry. Using the open-source slicing software PrusaSlicer. an algorithm was developed to modify the slicer’s input and output data in a way that fits parts with low ramp angle surfaces. To achieve consistent part quality, all layers were modified to be printed in a non-planar way. The test results indicate that the proposed methods can significantly reduce surface roughness. Although the algorithm works well for parts with a flat base and vertical walls, it would need to be highly adapted to work for different part geometries. Additionally, compared to other algorithms used in Curved-Layer Fused Deposition Modeling (CLFDM), the changed layer structure introduces a changed visual appearance of parts. Full article

Background/Objectives: Adenoid Cystic Carcinoma (AdCC) is a rare malignant salivary gland tumor, with high rates of recurrence and distant metastasis. This study aims to stratify patients Relapse-Free Survival (RFS) using a combined model of clinical and radiomic features from preoperative MRI. Methods: This retrospective study included patients with primary AdCC who underwent surgery and adjuvant radiotherapy. Segmentations were manually performed by two head and neck radiologists. Radiomic features were extracted using the 3D Slicer software. Descriptive statistics was performed. A Survival Random Forest model was employed to select which radiological feature predict RFS. Cox proportional hazards models were constructed using clinical, radiological variables or both. Synthetic data augmentation was applied to address the small sample size and improve model robustness. Models were validated on real data and compared using the C-index and Prediction Error Curves (PEC). Results: Three Cox models were developed: one with clinical features (C-index = 0.67), one with radiomic features (C-index = 0.68), and one combining both (C-index = 0.77). The combined clinical-radiomic model had the highest predictive accuracy and outperformed models based on clinical or radiomic features. The combined model also exhibited the lowest mean Brier score in PEC analysis, indicating better predictive performance. Conclusions: This study demonstrate that a combined radiomic-clinical model can predict RFS in AdCC patients. This model may provide clinicians a valuable tool in patient’s management and may aid in personalized treatment planning. Full article

Background/Objectives: Obstructive hydrocephalus associated with vestibular schwannoma (VS) is the most common in giant VS. Despite tumor removal, some patients may require ongoing ventriculo-peritoneal (VP) surgery. This investigation explores the factors contributing to the requirement for VP surgery following VS surgery in instances of persistent hydrocephalus (HCP). Methods: Volumetric MRI analyses of pre- and postoperative tumor volumes, cerebellum, cerebrum, ventricle system, fourth ventricle, brainstem, and peritumoral edema were conducted using Brainlab Smartbrush and 3D Slicer. The total brain volume was defined as the sum of the cerebrum, cerebellum, and brainstem. ROC analyses were performed to identify the optimum cut-off values of the volumetric data. Results: Permanent cerebrospinal fluid (CSF) diversion after surgery was indicated in 12 patients (12/71; 16.9%). The ratio of baseline volume fraction of brain ventricles to total brain ventricle volume (VTB ratio) was found to predict postoperative VP shunt dependency. The AUC was 0.71 (95% CI: 0.51–0.91), and the optimum threshold value (</≥0.449) yielded a sensitivity and specificity of 67% and 81%, respectively. Multivariable logistic regression analyses of imaging data (pre- and postoperative VS volume, VTB ratio, and extent of resection (%) (EoR)) and patient-specific factors revealed that an increased VTB ratio (≥0.049, OR: 6.2, 95% CI: 1.0–38.0, p = 0.047) and an EoR < 96.4% (OR: 9.1, 95% CI: 1.2–69.3, p = 0.032) were independently associated with postoperative VP shunt dependency. Conclusions: Primary tumor removal remains the best treatment to reduce the risk of postoperative persistent hydrocephalus. However, patients with an increased preoperative VTB ratio are prone to needing postoperative VP shunt surgery and may benefit from perioperative EVD placement. Full article

This study aims to develop three-dimensional printing models of the bony nasal cavity and paranasal sinuses of big and domestic cats using reconstructed computed tomographic images. This work included an exhaustive study of the osseous nasal anatomy of the domestic cat carried out through dissections, bone trepanations and sectional anatomy. With the use of OsiriX viewer, the DICOM images were postprocessed to obtaining maximum-intensity projection and volume-rendering reconstructions, which allowed for the visualization of the nasal cavity structures and the paranasal sinuses, providing an improvement in the future anatomical studies and diagnosis of pathologies. DICOM images were also processed with AMIRA software to obtain three-dimensional images using semiautomatic segmentation application. These images were then exported using 3D Slicer software for three-dimensional printing. Molds were printed with the Stratasys 3D printer. In human medicine, three-dimensional printing is already of great importance in the clinical field; however, it has not yet been implemented in veterinary medicine and is a technique that will, in the future, in addition to facilitating the anatomical study and diagnosis of diseases, allow for the development of implants that will improve the treatment of pathologies and the survival of big felids. Full article

Background. This study aimed to qualitatively and quantitatively evaluate T1-TSE, T2-TSE and 3D FLAIR sequences obtained with and without Compressed-SENSE technique by assessing the contrast (C), the contrast-to-noise ratio (CNR) and the signal-to-noise ratio (SNR). Methods. A total of 142 MRI images were acquired: 69 with Compressed-SENSE and 73 without Compressed-SENSE. All the MRI images were contoured, spatially aligned and co-registered using 3D Slicer Software. Two radiologists manually drew 12 regions of interests on three different structures of CNS: white matter (WM), grey matter (GM) and cerebrospinal fluid (CSF). Results. C values were significantly higher in Compressed-SENSE T1-TSE compared to No Compressed-SENSE T1-TSE for three different structures of the CNS. C values were also significantly lower for Compressed-SENSE 3D FLAIR and Compressed-SENSE T2-TSE compared to the corresponding No Compressed-SENSE scans. While CNR values did not significantly differ in GM-WM between Compressed-SENSE and No Compressed-SENSE for the 3D FLAIR and T1-TSE sequences, the differences in GM-CSF and WM-CSF were always statistically significant. Conclusion. Compressed-SENSE for 3D T2 FLAIR, T1w and T2w sequences enables faster MRI acquisition, reducing scan time and maintaining equivalent image quality. Compressed-SENSE is very useful in specific medical conditions where lower SAR levels are required without sacrificing the acquisition of helpful diagnostic sequences. Full article

The purpose of the article is to provide a practical guide for manual and semi-automated image segmentation of common neurosurgical cranial lesions, namely meningioma, glioblastoma multiforme (GBM) and subarachnoid haemorrhage (SAH), for neurosurgical trainees and researchers. Materials and Methods: The medical images used were sourced from the Medical Image Computing and Computer Assisted Interventions Society (MICCAI) Multimodal Brain Tumour Segmentation Challenge (BRATS) image database and from the local Picture Archival and Communication System (PACS) record with consent. Image pre-processing was carried out using MRIcron software (v1.0.20190902). ITK-SNAP (v3.8.0) was used in this guideline due to its availability and powerful built-in segmentation tools, although others (Seg3D, Freesurfer and 3D Slicer) are available. Quality control was achieved by employing expert segmenters to review. Results: A pipeline was developed to demonstrate the pre-processing and manual and semi-automated segmentation of patient images for each cranial lesion, accompanied by image guidance and video recordings. Three sample segmentations were generated to illustrate potential challenges. Advice and solutions were provided within both text and video. Conclusions: Semi-automated segmentation methods enhance efficiency, increase reproducibility, and are suitable to be incorporated into future clinical practise. However, manual segmentation remains a highly effective technique in specific circumstances and provides initial training sets for the development of more advanced semi- and fully automated segmentation algorithms. Full article

PURPOSE: We aim to compare the performance of three different radiomics models (logistic regression (LR), random forest (RF), and support vector machine (SVM)) and clinical nomograms (Briganti, MSKCC, Yale, and Roach) for predicting lymph node involvement (LNI) in prostate cancer (PCa) patients. MATERIALS AND METHODS: The retrospective study includes 95 patients who underwent mp-MRI and radical prostatectomy for PCa with pelvic lymphadenectomy. Imaging data (intensity in T2, DWI, ADC, and PIRADS), clinical data (age and pre-MRI PSA), histological data (Gleason score, TNM staging, histological type, capsule invasion, seminal vesicle invasion, and neurovascular bundle involvement), and clinical nomograms (Yale, Roach, MSKCC, and Briganti) were collected for each patient. Manual segmentation of the index lesions was performed for each patient using an open-source program (3D SLICER). Radiomic features were extracted for each segmentation using the Pyradiomics library for each sequence (T2, DWI, and ADC). The features were then selected and used to train and test three different radiomics models (LR, RF, and SVM) independently using ChatGPT software (v 4o). The coefficient value of each feature was calculated (significant value for coefficient ≥ ±0.5). The predictive performance of the radiomics models and clinical nomograms was assessed using accuracy and area under the curve (AUC) (significant value for p ≤ 0.05). Thus, the diagnostic accuracy between the radiomics and clinical models were compared. RESULTS: This study identified 343 features per patient (330 radiomics features and 13 clinical features). The most significant features were T2_nodulofirstordervariance and T2_nodulofirstorderkurtosis. The highest predictive performance was achieved by the RF model with DWI (accuracy 86%, AUC 0.89) and ADC (accuracy 89%, AUC 0.67). Clinical nomograms demonstrated satisfactory but lower predictive performance compared to the RF model in the DWI sequences. CONCLUSIONS: Among the prediction models developed using integrated data (radiomics and semantics), RF shows slightly higher diagnostic accuracy in terms of AUC compared to clinical nomograms in PCa lymph node involvement prediction. Full article

Objectives: The purpose of this study is to evaluate the performance of our deep learning algorithm in calculating cardiothoracic ratio (CTR) and thus in the assessment of cardiomegaly or pericardial effusion occurrences on chest radiography (CXR). Methods: From a database of 8000 CXRs, 13 folders with a comparable number of images were created. Then, 1020 images were chosen randomly, in proportion to the number of images in each folder. Afterward, CTR was calculated using RadiAnt Digital Imaging and Communications in Medicine (DICOM) Viewer software (2023.1). Next, heart and lung anatomical areas were marked in 3D Slicer. From these data, we trained an AI model which segmented heart and lung anatomy and determined the CTR value. Results: Our model achieved an Intersection over Union metric of 88.28% for the augmented training subset and 83.06% for the validation subset. F1-score for subsets were accordingly 90.22% and 90.67%. In the comparative analysis of artificial intelligence (AI) vs. humans, significantly lower transverse thoracic diameter (TTD) (p < 0.001), transverse cardiac diameter (TCD) (p < 0.001), and CTR (p < 0.001) values obtained using the neural network were observed. Conclusions: Results confirm that there is a significant correlation between the measurements made by human observers and the neural network. After validation in clinical conditions, our method may be used as a screening test or advisory tool when a specialist is not available, especially on Intensive Care Units (ICUs) or Emergency Departments (ERs) where time plays a key role. Full article

The venous anatomy of the two-toed sloth (Choloepus didactylus) remains poorly understood, particularly in living specimens due to the limitations of traditional cadaveric studies. This study aims to describe the unique venous structures of Choloepus didactylus using computed tomography, enhancing our understanding of this species in a live setting. Three living Choloepus didactylus underwent CT scans as part of routine clinical assessments. The images were reconstructed using 3D Slicer software (version 5.6.2), focusing on the caudal vena cava anatomy. The reconstructions confirmed the presence of a significant intravertebral vein, showing complex venous connections through the ventral sacral foramen and vertebral foramina. These findings highlight notable anatomical variations and challenge existing literature on the species’ venous architecture. By employing modern imaging technologies, this research provides new insights into the venous anatomy of Choloepus didactylus, demonstrating the value of non-invasive techniques in studying the anatomical features of live animals, thereby offering a foundation for further comparative and evolutionary studies. Full article

Auditory impairment stands as a pervasive global issue, exerting significant effects on individuals’ daily functioning and interpersonal engagements. Cochlear implants (CIs) have risen as a cutting-edge solution for severe to profound hearing loss, directly stimulating the auditory nerve with electrical signals. The success of CI procedures hinges on precise pre-operative planning and post-operative evaluation, highlighting the significance of advanced three-dimensional (3D) inner ear reconstruction software. Accurate pre-operative imaging is vital for identifying anatomical landmarks and assessing cochlear deformities. Tools like 3D Slicer, Amira and OTOPLAN provide detailed depictions of cochlear anatomy, aiding surgeons in simulating implantation scenarios and refining surgical approaches. Post-operative scans play a crucial role in detecting complications and ensuring CI longevity. Despite technological advancements, challenges such as standardization and optimization persist. This review explores the role of 3D inner ear reconstruction software in patient selection, surgical planning, and post-operative assessment, tracing its evolution and emphasizing features like image segmentation and virtual simulation. It addresses software limitations and proposes solutions, advocating for their integration into clinical practice. Ultimately, this review underscores the impact of 3D inner ear reconstruction software on cochlear implantation, connecting innovation with precision medicine. Full article

In this study, we sought to evaluate the capabilities of radiomics and machine learning in predicting seropositivity in patients with suspected autoimmune encephalitis (AE) from MR images obtained at symptom onset. In 83 patients diagnosed with AE between 2011 and 2022, manual bilateral segmentation of the amygdala was performed on pre-contrast T2 images using 3D Slicer open-source software. Our sample of 83 patients contained 43 seropositive and 40 seronegative AE cases. Images were obtained at our tertiary care center and at various secondary care centers in North Rhine-Westphalia, Germany. The sample was randomly split into training data and independent test data. A total of 107 radiomic features were extracted from bilateral regions of interest (ROIs). Automated machine learning (AutoML) was used to identify the most promising machine learning algorithms. Feature selection was performed using recursive feature elimination (RFE) and based on the determination of the most important features. Selected features were used to train various machine learning algorithms on 100 different data partitions. Performance was subsequently evaluated on independent test data. Our radiomics approach was able to predict the presence of autoantibodies in the independent test samples with a mean AUC of 0.90, a mean accuracy of 0.83, a mean sensitivity of 0.84 and a mean specificity of 0.82, with Lasso regression models yielding the most promising results. These results indicate that radiomics-based machine learning could be a promising tool in predicting the presence of autoantibodies in suspected AE patients. Given the implications of seropositivity for definitive diagnosis of suspected AE cases, this may expedite diagnostic workup even before results from specialized laboratory testing can be obtained. Furthermore, in conjunction with recent publications, our results indicate that characterization of AE subtypes by use of radiomics may become possible in the future, potentially allowing physicians to tailor treatment in the spirit of personalized medicine even before laboratory workup is completed. Full article