Difference between revisions of "Modules:VMTK in 3D Slicer Tutorial: Coronary Artery Centerline Extraction"
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Medical imaging is used for the diagnosis of CAD and for the quantification and grading of stenosis. The extraction of the central lumen line (centerline) of coronary arteries is helpful for visualization purposes, stenosis quantification or further processing steps (e.g. reformatting) [Schaap2009]. | Medical imaging is used for the diagnosis of CAD and for the quantification and grading of stenosis. The extraction of the central lumen line (centerline) of coronary arteries is helpful for visualization purposes, stenosis quantification or further processing steps (e.g. reformatting) [Schaap2009]. | ||
− | This tutorial shows how to use tools based on the [http://www.vmtk.org Vascular Modeling Toolkit] ([Antiga2008]) in [http://www.slicer.org 3D Slicer] to segment the right coronary artery (A. coronaria dextra) in a computed tomography angiography (CTA) volume and extract the associated centerline. In particular the segmentation is performed on a CTA dataset which was obtained through the [http://coronary.bigr.nl/ Rotterdam Coronary Artery Algorithm Evaluation Framework] ([Schaap2009]). | + | This tutorial shows how to use tools based on the [http://www.vmtk.org Vascular Modeling Toolkit (VMTK)] ([Antiga2008]) in [http://www.slicer.org 3D Slicer] to segment the right coronary artery (A. coronaria dextra, RCA) in a computed tomography angiography (CTA) volume and extract the associated centerline. In particular the segmentation is performed on a CTA dataset which was obtained through the [http://coronary.bigr.nl/ Rotterdam Coronary Artery Algorithm Evaluation Framework] ([Schaap2009]). |
||[[Image:Human heart with coronary arteries new.png|thumb|260pxx260px|Human heart with Coronary Arteries]] | ||[[Image:Human heart with coronary arteries new.png|thumb|260pxx260px|Human heart with Coronary Arteries]] | ||
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Revision as of 00:53, 15 November 2009
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Contents
Background
Coronary heart disease (CHD) is the leading cause of death in high-income countries and one of the main causes of death worldwide [WHO2008]. The primary cause for CHD is atherosclerosis of the coronary arteries and is called coronary artery disease (CAD). Plaque within the walls of the coronaries narrows the lumen of the affected vessels (so-called stenosis) and disturbs the regularization abilities of the vessel walls. Consequently this reduces the blood flow inside the affected vessels and constrains the supply of oxygen and nutrients to the myocardium. Beside of heart pain, symptoms of the CHD can appear as heart-rhythm-disturbances, cardiac insufficiency, angina-pectoris-attacks, cardiac infarcts or sudden cardiac deaths [HJ07, pp307].
Medical imaging is used for the diagnosis of CAD and for the quantification and grading of stenosis. The extraction of the central lumen line (centerline) of coronary arteries is helpful for visualization purposes, stenosis quantification or further processing steps (e.g. reformatting) [Schaap2009]. This tutorial shows how to use tools based on the Vascular Modeling Toolkit (VMTK) ([Antiga2008]) in 3D Slicer to segment the right coronary artery (A. coronaria dextra, RCA) in a computed tomography angiography (CTA) volume and extract the associated centerline. In particular the segmentation is performed on a CTA dataset which was obtained through the Rotterdam Coronary Artery Algorithm Evaluation Framework ([Schaap2009]). |
VMTK in 3D Slicer Installation
To use VMTK in 3D Slicer a set of modules has to be installed. Since 3D Slicer v3.5 the modules are available as 3D Slicer extensions.
Segmentation
Generating Vesselness using VMTKVesselEnhancement
Lumen Segmentation using VMTKEasyLevelSetSegmentation
Centerline Computation using VMTKCenterlines
Evaluation
References
[Antiga2008] | Antiga, L.; Piccinelli, M.; Botti, L.; Ene-Iordache, B.; Remuzzi, A. & Steinman, D. A. An image-based modeling framework for patient-specific computational hemodynamics. Med Biol Eng Comput, Biomedical Engineering Department, Mario Negri Institute for Pharmacological Research, Villa Camozzi, Ranica, BG, Italy. 2008, 46, 1097-1112 | |
[HJ2007] | Huch, R. & Jürgens, K. D. Mensch, Körper, Krankheit. Urban & Fischer Verlag, 2007 | |
[Schaap2009] | Schaap, M.; Metz, C.; van Walsum, T.; van der Giessen, A.; Weustink, A.; Mollet, N.; Bauer, C.; Bogunović, H.; Castro, C.; Deng, X.; Dikici, E.; O'Donnell, T.; Frenay, M.; Friman, O.; Hoyos, M. H.; Kitslaar, P.; Krissian, K.; Kühnel, C.; Luengo-Oroz, M. A.; Orkisz, M.; Smedby, Ö.; Styner, M.; Szymczak, A.; Tek, H.; Wang, C.; Warfield, S. K.; Zambal, S.; Zhang, Y.; Krestin, G. P. & Niessen, W. Standardized Evaluation Methodology and Reference Database for Evaluating Coronary Artery Centerline Extraction Algorithms. Medical Image Analysis, 2009, 13/5, 701-714 | |
[WHO08] | World Health Organization WHO. The top ten causes of death. Fact sheet N310, 10 2008. |