Extraction of Cerebral Hemorrhage on CT Images Using Level Set Algorithm and Otsu Threshold

Extraction of cerebral hemorrhage on CT images has always been the focus of several research hotspots and is still challenging as it does not show clear boundary. In this paper, a novel segmentation framework is presented for extracting the cerebral hemorrhage in brain CT images with weak boundary. Firstly, we utilize the Otsu threshold algorithm to get the coarse outline approximate to the target boundary as the initial curve of level set algorithm. Then, the active contour model is employed using both edge information and global Gaussian distribution fitting energy of images to modify energy function of level set. The proposed approach is applied on real images which from Quzhou People’s Hospital. Compared to manual delineation, the proposed technique shows a higher JS value than the existing methods and requires less interaction which is listed in the literature.

Automatic quantification of brain lesion volume from post-trauma MR Images

ObjectivesThe determination of the volume of brain lesions after trauma is challenging. Manual delineation is observer-dependent and time-consuming which inhibits the practice in clinical routine. We propose and evaluate an automated atlas-based quantification procedure (AQP) based on the detection of abnormal mean diffusivity (MD) values computed from diffusion-weighted MR images.MethodsWe measured the performance of AQP versus manual delineation consensus by independent raters in two series of experiments: i) realistic trauma phantoms (n=5) where abnormal MD values were assigned to healthy brain images according to the intensity, form and location of lesion observed in real TBI cases; ii) severe TBI patients (n=12 patients) who underwent MR imaging within 10 days after injury.ResultsIn realistic trauma phantoms, no statistical difference in Dice similarity coefficient, precision and brain lesion volumes was found between AQP, the rater consensus and the ground truth lesion delineations. Similar findings were obtained when comparing AQP and manual annotations for TBI patients. The intra-class correlation coefficient between AQP and manual delineation was 0.70 in realistic phantoms and 0.92 in TBI patients. The volume of brain lesions detected in TBI patients was 59 ml (19-84 ml) (median; 25-75th centiles).Conclusionsour results indicate that an automatic quantification procedure could accurately determine with accuracy the volume of brain lesions after trauma. This presents an opportunity to support the individualized management of severe TBI patients.Key pointsThe management of patients with severe traumatic brain injury is complex, and access to objective quantitative information lesion volumes can support clinical decision-making.An automated delineation procedure was developed to determine the nature and volume of brain lesions post-trauma.This procedure was based on diffusion weighted MR-imaging to quantify the volume of vasogenic and cellular edema from realistic phantoms and patients with severe traumatic brain injury.Nature and quantification of the brain lesions volume compared favorably with manual delineation of brain lesions by a panel of experts.

Application of Satellite Sentinel-2 Images to Study Alternate Sandbars Movement at Lower Vistula River (Poland)

The lower Vistula River was regulated in the years 1856–1878, at a distance of 718–939 km. The regulation plan did not take into consideration the large transport of the bed load. The channel was shaped using simplified geometry—too wide for the low flow and overly straight for the stabilization of the sandbar movement. The hydraulic parameters of the lower Vistula River show high velocities of flow and high shear stress. The movement of the alternate sandbars can be traced on the optical satellite images of Sentinel-2. In this study, a method of sandbar detection through the remote sensing indices, Sentinel Water Mask (SWM) and Automated Water Extraction Index no shadow (AWEInsh), and the manual delineation with visual interpretation (MD) was used on satellite images of the lower Vistula River, recorded at the time of low flows (20 August 2015, 4 September 2016, 30 July 2017, 20 September 2018, and 29 August 2019). The comparison of 32 alternate sandbar areas obtained by SWM, AWEInsh, and MD manual delineation methods on the Sentinel-2 images, recorded on 20 August 2015, was performed by the statistical analysis of the interclass correlation coefficient (ICC). The distance of the shift in the analyzed time intervals between the image registration dates depends on the value of the mean discharge (MQ). The period from 30 July 2017 to 20 September 2018 was wet (MQ = 1140 m3 × s−1) and created conditions for the largest average distance of the alternate sandbar shift, from 509 to 548 m. The velocity of movement, calculated as an average shift for one day, was between 1.2 and 1.3 m × day−1. The smallest shift of alternate sandbars was characteristic of the low flow period from 20 August 2015 to 4 September 2016 (MQ = 306 m3 × s−1), from 279 to 310 m, with an average velocity from 0.7 to 0.8 m × day−1.

Validating Automated Segmentation Tools in the Assessment of Caudate Atrophy in Huntington’s Disease

Background: Neuroimaging shows considerable promise in generating sensitive and objective outcome measures for therapeutic trials across a range of neurodegenerative conditions. For volumetric measures the current gold standard is manual delineation, which is unfeasible for samples sizes required for large clinical trials.Methods: Using a cohort of early Huntington’s disease (HD) patients (n = 46) and controls (n = 35), we compared the performance of four automated segmentation tools (FIRST, FreeSurfer, STEPS, MALP-EM) with manual delineation for generating cross-sectional caudate volume, a region known to be vulnerable in HD. We then examined the effect of each of these baseline regions on the ability to detect change over 15 months using the established longitudinal Caudate Boundary Shift Integral (cBSI) method, an automated longitudinal pipeline requiring a baseline caudate region as an input.Results: All tools, except Freesurfer, generated significantly smaller caudate volumes than the manually derived regions. Jaccard indices showed poorer levels of overlap between each automated segmentation and manual delineation in the HD patients compared with controls. Nevertheless, each method was able to demonstrate significant group differences in volume (p < 0.001). STEPS performed best qualitatively as well as quantitively in the baseline analysis. Caudate atrophy measures generated by the cBSI using automated baseline regions were largely consistent with those derived from a manually segmented baseline, with STEPS providing the most robust cBSI values across both control and HD groups.Conclusions: Atrophy measures from the cBSI were relatively robust to differences in baseline segmentation technique, suggesting that fully automated pipelines could be used to generate outcome measures for clinical trials.

A Joint Model for Macular Edema Analysis in Optical Coherence Tomography Images Based on Image Enhancement and Segmentation

Optical coherence tomography (OCT) provides the visualization of macular edema which can assist ophthalmologists in the diagnosis of ocular diseases. Macular edema is a major cause of vision loss in patients with retinal vein occlusion (RVO). However, manual delineation of macular edema is a laborious and time-consuming task. This study proposes a joint model for automatic delineation of macular edema in OCT images. This model consists of two steps: image enhancement using a bioinspired algorithm and macular edema segmentation using a Gaussian-filtering regularized level set (SBGFRLS) algorithm. We then evaluated the delineation efficiency using the following parameters: accuracy, precision, sensitivity, specificity, Dice’s similarity coefficient, IOU, and kappa coefficient. Compared with the traditional level set algorithms, including C-V and GAC, the proposed model had higher efficiency in macular edema delineation as shown by reduced processing time and iteration times. Moreover, the accuracy, precision, sensitivity, specificity, Dice’s similarity coefficient, IOU, and kappa coefficient for macular edema delineation could reach 99.7%, 97.8%, 96.0%, 99.0%, 96.9%, 94.0%, and 96.8%, respectively. More importantly, the proposed model had comparable precision but shorter processing time compared with manual delineation. Collectively, this study provides a novel model for the delineation of macular edema in OCT images, which can assist the ophthalmologists for the screening and diagnosis of retinal diseases.

The Effect of Heterogenous Subregions in Glioblastomas on Survival Stratification: A Radiomics Analysis Using the Multimodality MRI

Intratumor heterogeneity is partly responsible for the poor prognosis of glioblastoma (GBM) patients. In this study, we aimed to assess the effect of different heterogeneous subregions of GBM on overall survival (OS) stratification. A total of 105 GBM patients were retrospectively enrolled and divided into long-term and short-term OS groups. Four MRI sequences, including contrast-enhanced T1-weighted imaging (T1C), T1, T2, and FLAIR, were collected for each patient. Then, 4 heterogeneous subregions, i.e. the region of entire abnormality (rEA), the regions of contrast-enhanced tumor (rCET), necrosis (rNec) and edema/non-contrast-enhanced tumor (rE/nCET), were manually drawn from the 4 MRI sequences. For each subregion, 50 radiomics features were extracted. The stratification performance of 4 heterogeneous subregions, as well as the performances of 4 MRI sequences, was evaluated both alone and in combination. Our results showed that rEA was superior in stratifying long-and short-term OS. For the 4 MRI sequences used in this study, the FLAIR sequence demonstrated the best performance of survival stratification based on the manual delineation of heterogeneous subregions. Our results suggest that heterogeneous subregions of GBMs contain different prognostic information, which should be considered when investigating survival stratification in patients with GBM.

Enchodroma Tumor Detection From MRI Images Using SVM Classifier

Magnetic resonance imaging is a standard modality used in medicine for bone diagnosis and treatment. It offers the advantage to be a non-invasive technique that enables the analysis of bone tissues. The early detection of tumor in the bone leads on saving the patients' life through proper care. The accurate detection of tumor in the MRI scans are very easy to perform. Furthermore, the tumor detection in an image is useful not only for medical experts, but also for other purposes like segmentation and 3D reconstruction. The manual delineation and visual inspection will be limited to avoid time consumption by medical doctors. The bone tumor tissue detection allows localizing a mass of abnormal cells in a slice of magnetic resonance (MR).

Automated lumen segmentation using multi-frame convolutional neural networks in intravascular ultrasound datasets

Aims Assessment of minimum lumen areas in intravascular ultrasound (IVUS) pullbacks is time-consuming and demands adequately trained personnel. In this work, we introduce a novel and fully automated pipeline to segment the lumen boundary in IVUS datasets. Methods and results First, an automated gating is applied to select end-diastolic frames and bypass saw-tooth artefacts. Second, within a machine learning (ML) environment, we automatically segment the lumen boundary using a multi-frame (MF) convolutional neural network (MFCNN). Finally, we use the theory of Gaussian processes (GPs) to regress the final lumen boundary. The dataset consisted of 85 IVUS pullbacks (52 patients). The dataset was partitioned at the pullback-level using 73 pullbacks for training (20 586 frames), 6 pullbacks for validation (1692 frames), and 6 for testing (1692 frames). The degree of overlapping, between the ground truth and ML contours, median (interquartile range, IQR) systematically increased from 0.896 (0.874–0.933) for MF1 to 0.925 (0.911–0.948) for MF11. The median (IQR) of the distance error was also reduced from 3.83 (2.94–4.98)% for MF1 to 3.02 (2.25–3.95)% for MF11-GP. The corresponding median (IQR) in the lumen area error remained between 5.49 (2.50–10.50)% for MF1 and 5.12 (2.15–9.00)% for MF11-GP. The dispersion in the relative distance and area errors consistently decreased as we increased the number of frames, and also when the GP regressor was coupled to the MFCNN output. Conclusion These results demonstrate that the proposed ML approach is suitable to effectively segment the lumen boundary in IVUS scans, reducing the burden of costly and time-consuming manual delineation.

Rock and snow differentiation from colour (RGB) images

We present a new method for differentiating snow and rock in colour imagery for application (including by remote sensing non-specialists) to multidisciplinary geospatial analyses in the Polar Regions (e.g. glaciology, geology, and biology). Existing methods for differentiating rock from snow and ice for land cover analysis in the Polar Regions rely on infrared or near-infrared imagery (e.g. the Normalised Difference Snow Index, NDSI). However, colour images are more abundant and higher resolution. To enable application of this resource, we present and review supervised and unsupervised methods for differentiating rock and snow from colour images. Whilst the unsupervised methods (fuzzy membership and a normalised difference index) are unable to accurately differentiate snow and rock from colour images, supervised classification (Maximum Likelihood Classification (MLC) and a new approach, Polynomial Thresholding (PT)) do achieve high classification accuracies (95 ± 2 % for PT and 94 ± 3 % for MLC, compared with manual delineation). The greater user control of PT achieves better accuracies than MLC in shaded areas (a challenge in high latitudes) and less extensive outcrops. We present the workflow for the new PT method, and provide a calibration tool for its implementation. This approach improves the possible resolution of Polar land cover analysis, and the increases the volume of data that can be utilised.