Biomedical Imaging Group Rotterdam

Rotterdam, Netherlands

Biomedical Imaging Group Rotterdam

Rotterdam, Netherlands
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Poot D.H.,Quantitative Group | Klein S.,Biomedical Imaging Group Rotterdam
Journal of Magnetic Resonance Imaging | Year: 2017

Purpose: To identify the optimal combination of pharmacokinetic model and arterial input function (AIF) for quantitative analysis of blood perfusion in the patellar bone using dynamic contrast-enhanced magnetic resonance imaging (DCE-MRI). Materials and Methods: This method design study used a random subset of five control subjects from an Institutional Review Board (IRB)-approved case-control study into patellofemoral pain, scanned on a 3T MR system with a contrast-enhanced time-resolved imaging of contrast kinetics (TRICKS) sequence. We systematically investigated the reproducibility of pharmacokinetic parameters for all combinations of Orton and Parker AIF models with Tofts, Extended Tofts (ETofts), and Brix pharmacokinetic models. Furthermore, we evaluated if the AIF should use literature parameters, be subject-specific, or group-specific. Model selection was based on the goodness-of-fit and the coefficient of variation of the pharmacokinetic parameters inside the patella. This extends previous studies that were not focused on the patella and did not evaluate as many combinations of arterial and pharmacokinetic models. Results: The vascular component in the ETofts model could not reliably be recovered (coefficient of variation [CV] of vp >50%) and the Brix model parameters showed high variability of up to 20% for kel across good AIF models. Compared to group-specific AIF, the subject-specific AIF's mostly had higher residual. The best reproducibility and goodness-of-fit were obtained by combining Tofts' pharmacokinetic model with the group-specific Parker AIF. Conclusion: We identified several good combinations of pharmacokinetic models and AIF for quantitative analysis of perfusion in the patellar bone. The recommended combination is Tofts pharmacokinetic model combined with a group-specific Parker AIF model. © 2017 International Society for Magnetic Resonance in Medicine.


Gunay G.,Biomedical Imaging Group Rotterdam | Luu M.H.,Biomedical Imaging Group Rotterdam | Moelker A.,Erasmus University Rotterdam | Van Walsum T.,Biomedical Imaging Group Rotterdam | Klein S.,Biomedical Imaging Group Rotterdam
Medical Physics | Year: 2017

Purpose: In CT-guided liver tumor ablation interventions, registration of a preoperative contrast-enhanced CT image to the intraoperative CT image is hypothesized to improve guidance. This is a highly challenging registration task due to differences in patient poses and large deformations, and therefore high registration errors are expected. In this study, our objective is to develop a method that enables users to locally improve the registration where the registration fails, with minimal user interaction. Methods: The method is based on a conventional nonrigid intensity-based registration framework, extended with a novel point-to-surface penalty. The point-to-surface penalty serves to improve the alignment of the liver boundary, while requiring minimal user interaction during the intervention: annotating some points on the liver surface at those regions where the conventional registration seems inaccurate. Results: The method is evaluated on 18 clinical datasets. It improves registration accuracy compared with the conventional nonrigid registration in terms of average surface distance (from 2.75 to 2.05 mm) and target registration error (from 6.92 to 5.8 mm). Conclusions: In this study, we introduce a semiautomated registration algorithm that improves the accuracy of image registration. © 2017 American Association of Physicists in Medicine.


Gangeh M.J.,University of Waterloo | Sorensen L.,Copenhagen University | Shaker S.B.,Gentofte University Hospital | Kamel M.S.,University of Waterloo | And 3 more authors.
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) | Year: 2010

In this paper, a texton-based classification system based on raw pixel representation along with a support vector machine with radial basis function kernel is proposed for the classification of emphysema in computed tomography images of the lung. The proposed approach is tested on 168 annotated regions of interest consisting of normal tissue, centrilobular emphysema, and paraseptal emphysema. The results show the superiority of the proposed approach to common techniques in the literature including moments of the histogram of filter responses based on Gaussian derivatives. The performance of the proposed system, with an accuracy of 96.43%, also slightly improves over a recently proposed approach based on local binary patterns. © 2010 Springer-Verlag.


Van Der Giessen A.G.,Massachusetts General Hospital | Van Der Giessen A.G.,Erasmus University Rotterdam | Toepker M.H.,Massachusetts General Hospital | Donelly P.M.,Massachusetts General Hospital | And 10 more authors.
Investigative Radiology | Year: 2010

Purpose: To determine the reproducibility, accuracy, and predictors of accuracy of computed tomography (CT) angiography to detect and characterize coronary atherosclerotic plaque as compared with intravascular ultrasound. Methods: Ten ex vivo human coronary arteries were imaged in a moving phantom by dual-source CT (collimation: 0.6 mm, reconstructed slice thickness: 0.4 mm) and intravascular ultrasound (IVUS). Coregistered cross-sections were assessed at 0.4 mm intervals for the presence and composition of atherosclerotic plaque (noncalcified, mixed, and calcified) on CT and IVUS by independent readers to determine reader agreement and diagnostic accuracy. Quantitative measurements of lumen and plaque area, plaque eccentricity, and intimal thickness on IVUS were used to determine predictors for the detection of noncalcified plaque by CT. Results: Within 1002 coregistered cross-sections, the interobserver agreement to detect plaque on CT was K = 0.48, K = 0.42, and K = 1.00 for noncalcified, mixed, and calcified plaque; respectively. The sensitivity and specificity of CT was 57% out of 84% for noncalcified, 32% of 92% for mixed, and 56% of 93% for calcified plaque when compared with IVUS; respectively. Misclassification occurred in 68% of mixed and 43% of noncalcified plaques. The odds of detecting noncalcified plaque in CT independently increased by 56% (95% CI: 47%-77%, P < 0.0001) with every 0.1 mm increase in maximum intimal thickness as measured by IVUS. Detection rate for noncalcified plaques was poor for plaques <1 mm (36%) but excellent for plaques >1 mm maximal intimal thickness (90%). Conclusion: Reader agreement and diagnostic accuracy for the detection of coronary atherosclerotic plaque vary with plaque composition. Intimal thickness independently predicts detection of noncalcified plaque by CT with excellent sensitivity for >1 mm thick plaques. Copyright © 2010 by Lippincott Williams and Wilkins.


PubMed | University of Verona, Technical University of Delft, Biomedical Imaging Group Rotterdam and Rotterdam University
Type: | Journal: Medical physics | Year: 2017

Myocardial blood flow (MBF) obtained by dynamic CT perfusion (CTP) has been recently introduced to assess hemodynamic significance of coronary stenosis in coronary artery disease. The diagnostic performance of dynamic CTP MBF is limited due to subjective interpretation of MBF maps and MBF variations caused by physiological, methodological and technical issues. In this paper we introduce a novel method to quantify the hypoperfused volume (HPV) in myocardial territories derived from CT angiography (CTA) in order to overcome the limitations of current dynamic CTP MBF analysis methods.The diagnostic performance of HPV in classifying significant stenoses was evaluated on 22 patients (57 vessels) that underwent CTA, CTP and invasive fractional flow reserve (FFR). FFR was used as the standard of reference to determine stenosis significance. The diagnostic performance was compared to that of the mean MBF computed in regions manually annotated by an expert (MA-MBF). HPV was derived by thresholding the MBF in myocardial territories constructed from CTA by locating the closest artery. Diagnostic performance was evaluated using leave-onecase out cross validation. Inter-observer reproducibility was assessed by performing annotations of coronary seeds (HPV) and manual regions (MA-MBF) with two users. Additionally, the influence of different parameter settings on the diagnostic performance of HPV was assessed.Leave-one-case out cross validation showed that HPV has an accuracy of 72%(58%-83%) with sensitivity of 72%(47%-90%) and specificity of 72%(58%-83%). The accuracy of MA-MBF was 70%(57%-82%) with a sensitivity of 50%(26%-74%) and a specificity of 79%(64%-91%). The Spearman correlation and the kappa statistic was (=0.94, =0.86) for HPV and ( =0.72, =0.82) for MA-MBF. The influence of parameter settings on HPV based diagnostic performance was not significant.The proposed HPV accurately classifies hemodynamically significant stenoses with a level of accuracy comparable to the mean MBF in regions annotated by an expert. HPV improves inter-observer reproducibility as compared to MA-MBF by providing a more objective criterion to associate the stenotic coronary with the supplied myocardial territory. This article is protected by copyright. All rights reserved.


Sun W.,Biomedical Imaging Group Rotterdam | Niessen W.J.,Biomedical Imaging Group Rotterdam | Niessen W.J.,Technical University of Delft | Van Stralen M.,University Utrecht | Klein S.,Biomedical Imaging Group Rotterdam
IEEE Transactions on Image Processing | Year: 2013

Multiresolution strategies are commonly used in the nonrigid registration to avoid local minima in the optimization space. Generally, a step-by-step hierarchical approach is adopted, in which the registration starts on a level with reduced complexity (downsampled images, global transformations), then continuing to levels with increased complexity, until the finest level is reached. In this paper, we propose two alternative multiresolution strategies for both the data and transformation models, in which different resolution levels are considered simultaneously instead of subsequently. Through combining the different strategies for data and transformation, we systematically define 3×3 multiresolution schemes, including both existing and novel methods. Experiments on 10 pairs of computed tomography lung data sets showed that the best performing strategy resulted in a reduction of the upper quartile of the mean target registration error from 2 to 1.5 mm, compared with the conventionally hierarchical multiresolution method, while achieving smoother deformations. Experiments with intersubject registration of 18 3D T1-weighted MRI brain scans confirmed that simultaneous multiresolution strategies produce more accurate registration results (median of mean overlap increased from 0.55 to 0.57) and smoother deformation fields than the traditionally hierarchical method. Evaluation of robustness indicated that the largest differences in accuracy between methods are observed for structures with a relatively large initial misalignment. © 1992-2012 IEEE.


PubMed | Biomedical Imaging Group Rotterdam, Erasmus University Rotterdam and Copenhagen University
Type: | Journal: Atherosclerosis | Year: 2016

Carotid artery plaques with vulnerable plaque components are related to a higher risk of cerebrovascular accidents. It is unknown which factors drive vulnerable plaque development. Shear stress, the frictional force of blood at the vessel wall, is known to influence plaque formation. We evaluated the association between shear stress and plaque components (intraplaque haemorrhage (IPH), lipid rich necrotic core (LRNC) and/or calcifications) in relatively small carotid artery plaques in asymptomatic persons.Participants (n=74) from the population-based Rotterdam Study, all with carotid atherosclerosis assessed on ultrasound, underwent carotid MRI. Multiple MRI sequences were used to evaluate the presence of IPH, LRNC and/or calcifications in plaques in the carotid arteries. Images were automatically segmented for lumen and outer wall to obtain a 3D reconstruction of the carotid bifurcation. These reconstructions were used to calculate minimum, mean and maximum shear stresses by applying computational fluid dynamics with subject-specific inflow conditions. Associations between shear stress measures and plaque composition were studied using generalized estimating equations analysis, adjusting for age, sex and carotid wall thickness.The study group consisted of 93 atherosclerotic carotid arteries of 74 participants. In plaques with higher maximum shear stresses, IPH was more often present (OR per unit increase in maximum shear stress (log transformed)=12.14; p=0.001). Higher maximum shear stress was also significantly associated with the presence of calcifications (OR=4.28; p=0.015).Higher maximum shear stress is associated with intraplaque haemorrhage and calcifications.


Smal I.,Biomedical Imaging Group Rotterdam | Grigoriev I.,Erasmus University Rotterdam | Akhmanova A.,Erasmus University Rotterdam | Niessen W.J.,Technical University of Delft | Meijering E.,Biomedical Imaging Group Rotterdam
IEEE Transactions on Image Processing | Year: 2010

Studying intracellular dynamics is of fundamental importance for understanding healthy life at the molecular level and for developing drugs to target disease processes. One of the key technologies to enable this research is the automated tracking and motion analysis of these objects in microscopy image sequences. To make better use of the spatiotemporal information than common frame-by-frame tracking methods, two alternative approaches have recently been proposed, based upon either Bayesian estimation or space-time segmentation. In this paper, we propose to combine the power of both approaches, and develop a new probabilistic method to segment the traces of the moving objects in kymograph representations of the image data. It is based on variable-rate particle filtering and uses multiscale trend analysis of the extracted traces to estimate the relevant kinematic parameters. Experiments on realistic synthetically generated images as well as on real biological image data demonstrate the improved potential of the new method for the analysis of microtubule dynamics in vitro. © 2006 IEEE.


Manniesing R.,Biomedical Imaging Group Rotterdam | Schaap M.,Biomedical Imaging Group Rotterdam | Rozie S.,Rotterdam University | Hameeteman R.,Biomedical Imaging Group Rotterdam | And 4 more authors.
Medical Image Analysis | Year: 2010

We propose and validate a semi-automatic method for lumen segmentation of the carotid bifurcation in computed tomography angiography (CTA). First, the central vessel axis is obtained using path tracking between three user-defined points. Second, starting from this path, the segmentation is automatically obtained using a level set. The cost and speed functions for path tracking and segmentation make use of intensity and homogeneity slice-based image features. The method is validated on a large data set of 234 carotid bifurcations of 129 ischemic stroke patients with atherosclerotic disease. The results are compared to manually obtained lumen segmentations. Parameter optimization is carried out on a subset of 30 representative carotid bifurcations. With the optimized parameter settings the method successfully tracked the central vessel paths in 201 of the remaining 204 bifurcations (99%) which were not part of the training set. Comparison with manually drawn segmentations shows that the average overlap between the method and observers is similar (for the inter-observer set the results were 92% vs. 87% and for the intra-observer set 94% vs. 94%). Therefore the method has potential to replace the manual procedure of lumen segmentation of the atherosclerotic bifurcation in CTA. © 2010 Elsevier B.V.


Luu H.M.,Biomedical Imaging Group Rotterdam | Niessen W.,Biomedical Imaging Group Rotterdam | Van Walsum T.,Biomedical Imaging Group Rotterdam | Klink C.,Erasmus University Rotterdam | Moelker A.,Erasmus University Rotterdam
Medical Physics | Year: 2015

Purpose: In image-guided radio frequency ablation for liver cancer treatment, pre- and post-interventional CT images are typically used to verify the treatment success of the therapy. In current clinical practice, the tumor zone in the diagnostic, preinterventional images is mentally or manually mapped to the ablation zone in the post-interventional images to decide success of the treatment. However, liver deformation and differences in image quality as well as in texture of the ablation zone and the tumor area make the mental or manual registration a challenging task. Purpose of this paper is to develop an automatic framework to register the pre-interventional image to the post-interventional image. Methods: The authors propose a registration approach enabling a nonrigid deformation of the tumor to the ablation zone, while keeping locally rigid deformation of the tumor area. The method was evaluated on CT images of 38 patient datasets from Erasmus MC. The evaluation is based on Dice coefficients of the liver segmentation on both the pre-interventional and post-interventional images, and mean distances between the liver segmentations. Additionally, residual distances after registration between corresponding landmarks and local mean surface distance in the images were computed. Results: The results show that rigid registration gives a Dice coefficient of 87.9%, a mean distance of the liver surfaces of 5.53 mm, and a landmark error of 5.38 mm, while non-rigid registration with local rigid deformation has a Dice coefficient of 92.2%, a mean distance between the liver segmentation boundaries near the tumor area of 3.83 mm, and a landmark error of 2.91 mm, where a part of this error can be attributed to the slice spacing in the authors' CT images. Conclusions: This method is thus a promising tool to assess the success of RFA liver cancer treatment. © 2015 American Association of Physicists in Medicine.

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