Misael Rosales, Petia Radeva, Oriol Rodriguez-Leon, & Debora Gil. (2009). Modelling of image-catheter motion for 3-D IVUS. MIA - Medical image analysis, 13(1), 91–104.
Abstract: Three-dimensional intravascular ultrasound (IVUS) allows to visualize and obtain volumetric measurements of coronary lesions through an exploration of the cross sections and longitudinal views of arteries. However, the visualization and subsequent morpho-geometric measurements in IVUS longitudinal cuts are subject to distortion caused by periodic image/vessel motion around the IVUS catheter. Usually, to overcome the image motion artifact ECG-gating and image-gated approaches are proposed, leading to slowing the pullback acquisition or disregarding part of IVUS data. In this paper, we argue that the image motion is due to 3-D vessel geometry as well as cardiac dynamics, and propose a dynamic model based on the tracking of an elliptical vessel approximation to recover the rigid transformation and align IVUS images without loosing any IVUS data. We report an extensive validation with synthetic simulated data and in vivo IVUS sequences of 30 patients achieving an average reduction of the image artifact of 97% in synthetic data and 79% in real-data. Our study shows that IVUS alignment improves longitudinal analysis of the IVUS data and is a necessary step towards accurate reconstruction and volumetric measurements of 3-D IVUS.
Keywords: Intravascular ultrasound (IVUS); Motion estimation; Motion decomposition; Fourier
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Francesco Ciompi, Oriol Pujol, Carlo Gatta, Marina Alberti, Simone Balocco, Xavier Carrillo, et al. (2012). HoliMab: A Holistic Approach for Media-Adventitia Border Detection in Intravascular Ultrasound. MIA - Medical Image Analysis, 16(6), 1085–1100.
Abstract: We present a fully automatic methodology for the detection of the Media-Adventitia border (MAb) in human coronary artery in Intravascular Ultrasound (IVUS) images. A robust border detection is achieved by means of a holistic interpretation of the detection problem where the target object, i.e. the media layer, is considered as part of the whole vessel in the image and all the relationships between tissues are learnt. A fairly general framework exploiting multi-class tissue characterization as well as contextual information on the morphology and the appearance of the tissues is presented. The methodology is (i) validated through an exhaustive comparison with both Inter-observer variability on two challenging databases and (ii) compared with state-of-the-art methods for the detection of the MAb in IVUS. The obtained averaged values for the mean radial distance and the percentage of area difference are 0.211 mm and 10.1%, respectively. The applicability of the proposed methodology to clinical practice is also discussed.
Keywords: Media–Adventitia border detection; Intravascular ultrasound; Multi-Scale Stacked Sequential Learning; Error-correcting output codes; Holistic segmentation
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Debora Gil, Sergio Vera, Agnes Borras, Albert Andaluz, & Miguel Angel Gonzalez Ballester. (2017). Anatomical Medial Surfaces with Efficient Resolution of Branches Singularities. MIA - Medical Image Analysis, 35, 390–402.
Abstract: Medial surfaces are powerful tools for shape description, but their use has been limited due to the sensibility existing methods to branching artifacts. Medial branching artifacts are associated to perturbations of the object boundary rather than to geometric features. Such instability is a main obstacle for a con dent application in shape recognition and description. Medial branches correspond to singularities of the medial surface and, thus, they are problematic for existing morphological and energy-based algorithms. In this paper, we use algebraic geometry concepts in an energy-based approach to compute a medial surface presenting a stable branching topology. We also present an ecient GPU-CPU implementation using standard image processing tools. We show the method computational eciency and quality on a custom made synthetic database. Finally, we present some results on a medical imaging application for localization of abdominal pathologies.
Keywords: Medial Representations; Shape Recognition; Medial Branching Stability ; Singular Points
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Reuben Dorent, Aaron Kujawa, Marina Ivory, Spyridon Bakas, Nikola Rieke, Samuel Joutard, et al. (2023). CrossMoDA 2021 challenge: Benchmark of Cross-Modality Domain Adaptation techniques for Vestibular Schwannoma and Cochlea Segmentation. MIA - Medical Image Analysis, 83, 102628.
Abstract: Domain Adaptation (DA) has recently raised strong interests in the medical imaging community. While a large variety of DA techniques has been proposed for image segmentation, most of these techniques have been validated either on private datasets or on small publicly available datasets. Moreover, these datasets mostly addressed single-class problems. To tackle these limitations, the Cross-Modality Domain Adaptation (crossMoDA) challenge was organised in conjunction with the 24th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2021). CrossMoDA is the first large and multi-class benchmark for unsupervised cross-modality DA. The challenge's goal is to segment two key brain structures involved in the follow-up and treatment planning of vestibular schwannoma (VS): the VS and the cochleas. Currently, the diagnosis and surveillance in patients with VS are performed using contrast-enhanced T1 (ceT1) MRI. However, there is growing interest in using non-contrast sequences such as high-resolution T2 (hrT2) MRI. Therefore, we created an unsupervised cross-modality segmentation benchmark. The training set provides annotated ceT1 (N=105) and unpaired non-annotated hrT2 (N=105). The aim was to automatically perform unilateral VS and bilateral cochlea segmentation on hrT2 as provided in the testing set (N=137). A total of 16 teams submitted their algorithm for the evaluation phase. The level of performance reached by the top-performing teams is strikingly high (best median Dice – VS:88.4%; Cochleas:85.7%) and close to full supervision (median Dice – VS:92.5%; Cochleas:87.7%). All top-performing methods made use of an image-to-image translation approach to transform the source-domain images into pseudo-target-domain images. A segmentation network was then trained using these generated images and the manual annotations provided for the source image.
Keywords: Domain Adaptation; Segmen tation; Vestibular Schwnannoma
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Lei Li, Fuping Wu, Sihan Wang, Xinzhe Luo, Carlos Martin Isla, Shuwei Zhai, et al. (2023). MyoPS: A benchmark of myocardial pathology segmentation combining three-sequence cardiac magnetic resonance images. MIA - Medical Image Analysis, 87, 102808.
Abstract: Assessment of myocardial viability is essential in diagnosis and treatment management of patients suffering from myocardial infarction, and classification of pathology on the myocardium is the key to this assessment. This work defines a new task of medical image analysis, i.e., to perform myocardial pathology segmentation (MyoPS) combining three-sequence cardiac magnetic resonance (CMR) images, which was first proposed in the MyoPS challenge, in conjunction with MICCAI 2020. Note that MyoPS refers to both myocardial pathology segmentation and the challenge in this paper. The challenge provided 45 paired and pre-aligned CMR images, allowing algorithms to combine the complementary information from the three CMR sequences for pathology segmentation. In this article, we provide details of the challenge, survey the works from fifteen participants and interpret their methods according to five aspects, i.e., preprocessing, data augmentation, learning strategy, model architecture and post-processing. In addition, we analyze the results with respect to different factors, in order to examine the key obstacles and explore the potential of solutions, as well as to provide a benchmark for future research. The average Dice scores of submitted algorithms were and for myocardial scars and edema, respectively. We conclude that while promising results have been reported, the research is still in the early stage, and more in-depth exploration is needed before a successful application to the clinics. MyoPS data and evaluation tool continue to be publicly available upon registration via its homepage (www.sdspeople.fudan.edu.cn/zhuangxiahai/0/myops20/).
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Xose M. Pardo, Petia Radeva, & D. Cabello. (2003). Discriminant Snakes for 3D Reconstruction of Anatomical Organs. Medical Image Analysis, 7(3): 293–310 (IF: 4.442).
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Francesco Ciompi, Oriol Pujol, E Fernandez-Nofrerias, J. Mauri, & Petia Radeva. (2010). Conditional Random Fields for image segmentation in Intravascular Ultrasound. In Medical Image Computing in Catalunya: Graduate Student Workshop (13–14).
Abstract: We present a Conditional Random Fields based approach for segmenting Intravascular Ultrasond (IVUS) images. The presented method uses a contextual discriminative graphical model to deal with the presence of distorsions and artifacts in IVUS images, that turns the segmentation of interesting regions into a difficult task. An accurate lumen segmentation on IVUS longitudinal images is achieved.
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Pierluigi Casale, Oriol Pujol, & Petia Radeva. (2010). Classyfing Agitation in Sedated ICU Patients. In Medical Image Computing in Catalunya: Graduate Student Workshop (19–20).
Abstract: Agitation is a serious problem in sedated intensive care unit (ICU) patients. In this work, standard machine learning techniques working on wearable accelerometer data have been used to classifying agitation levels achieving very good classification performances.
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Antonio Hernandez, Carlo Gatta, Petia Radeva, Laura Igual, R. Letaz, & Sergio Escalera. (2010). Automatic Vessel Segmentation For Angiography and CT Registration. In Medical Image Computing in Catalunya: Graduate Student Workshop (1–2).
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Michal Drozdzal, Laura Igual, Jordi Vitria, Petia Radeva, C. Malagelada, & Fernando Azpiroz. (2010). SIFT flow-based Sequences Alignment. In Medical Image Computing in Catalunya: Graduate Student Workshop (7–8).
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Miguel Reyes, Jordi Vitria, Petia Radeva, & Sergio Escalera. (2010). Real-time Activity Monitoring of Inpatients. In Medical Image Computing in Catalunya: Graduate Student Workshop (35–36).
Abstract: In this paper, we present the development of an application capable of monitoring a set of patient vital signs in real time. The application has been designed to support the medical staff of a hospital. Preliminary results show the suitability
of the system to prevent the injury produced by the agitation of the patients.
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Santiago Segui, Michal Drozdzal, Petia Radeva, & Jordi Vitria. (2010). Severe Motility Diagnosis using WCE. In Medical Image Computing in Catalunya: Graduate Student Workshop (45–46).
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Ferran Poveda, Jaume Garcia, Enric Marti, & Debora Gil. (2010). Validation of the myocardial architecture in DT-MRI tractography. In Medical Image Computing in Catalunya: Graduate Student Workshop (pp. 29–30). Girona (Spain).
Abstract: Deep understanding of myocardial structure may help to link form and funcion of the heart unraveling crucial knowledge for medical and surgical clinical procedures and studies. In this work we introduce two visualization techniques based on DT-MRI streamlining able to decipher interesting properties of the architectural organization of the heart.
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Simone Balocco, O. Camara, E. Vivas, T. Sola, L. Guimaraens, H. A. van Andel, et al. (2010). Feasibility of Estimating Regional Mechanical Properties of Cerebral Aneurysms In Vivo. MEDPHYS - Medical Physics, 37(4), 1689–1706.
Abstract: PURPOSE:
In this article, the authors studied the feasibility of estimating regional mechanical properties in cerebral aneurysms, integrating information extracted from imaging and physiological data with generic computational models of the arterial wall behavior.
METHODS:
A data assimilation framework was developed to incorporate patient-specific geometries into a given biomechanical model, whereas wall motion estimates were obtained from applying registration techniques to a pair of simulated MR images and guided the mechanical parameter estimation. A simple incompressible linear and isotropic Hookean model coupled with computational fluid-dynamics was employed as a first approximation for computational purposes. Additionally, an automatic clustering technique was developed to reduce the number of parameters to assimilate at the optimization stage and it considerably accelerated the convergence of the simulations. Several in silico experiments were designed to assess the influence of aneurysm geometrical characteristics and the accuracy of wall motion estimates on the mechanical property estimates. Hence, the proposed methodology was applied to six real cerebral aneurysms and tested against a varying number of regions with different elasticity, different mesh discretization, imaging resolution, and registration configurations.
RESULTS:
Several in silico experiments were conducted to investigate the feasibility of the proposed workflow, results found suggesting that the estimation of the mechanical properties was mainly influenced by the image spatial resolution and the chosen registration configuration. According to the in silico experiments, the minimal spatial resolution needed to extract wall pulsation measurements with enough accuracy to guide the proposed data assimilation framework was of 0.1 mm.
CONCLUSIONS:
Current routine imaging modalities do not have such a high spatial resolution and therefore the proposed data assimilation framework cannot currently be used on in vivo data to reliably estimate regional properties in cerebral aneurysms. Besides, it was observed that the incorporation of fluid-structure interaction in a biomechanical model with linear and isotropic material properties did not have a substantial influence in the final results.
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Simone Balocco, Carlo Gatta, Marina Alberti, Xavier Carrillo, Juan Rigla, & Petia Radeva. (2012). Relation between plaque type, plaque thickness, blood shear stress and plaque stress in coronary arteries assessed by X-ray Angiography and Intravascular Ultrasound. MEDPHYS - Medical Physics, 39(12), 7430–7445.
Abstract: PMID 23231293
PURPOSE:
Atheromatic plaque progression is affected, among others phenomena, by biomechanical, biochemical, and physiological factors. In this paper, the authors introduce a novel framework able to provide both morphological (vessel radius, plaque thickness, and type) and biomechanical (wall shear stress and Von Mises stress) indices of coronary arteries.
METHODS:
First, the approach reconstructs the three-dimensional morphology of the vessel from intravascular ultrasound (IVUS) and Angiographic sequences, requiring minimal user interaction. Then, a computational pipeline allows to automatically assess fluid-dynamic and mechanical indices. Ten coronary arteries are analyzed illustrating the capabilities of the tool and confirming previous technical and clinical observations.
RESULTS:
The relations between the arterial indices obtained by IVUS measurement and simulations have been quantitatively analyzed along the whole surface of the artery, extending the analysis of the coronary arteries shown in previous state of the art studies. Additionally, for the first time in the literature, the framework allows the computation of the membrane stresses using a simplified mechanical model of the arterial wall.
CONCLUSIONS:
Circumferentially (within a given frame), statistical analysis shows an inverse relation between the wall shear stress and the plaque thickness. At the global level (comparing a frame within the entire vessel), it is observed that heavy plaque accumulations are in general calcified and are located in the areas of the vessel having high wall shear stress. Finally, in their experiments the inverse proportionality between fluid and structural stresses is observed.
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