6,518 research outputs found
Weighted Diffeomorphic Density Matching with Applications to Thoracic Image Registration
In this article we study the problem of thoracic image registration, in
particular the estimation of complex anatomical deformations associated with
the breathing cycle. Using the intimate link between the Riemannian geometry of
the space of diffeomorphisms and the space of densities, we develop an image
registration framework that incorporates both the fundamental law of
conservation of mass as well as spatially varying tissue compressibility
properties. By exploiting the geometrical structure, the resulting algorithm is
computationally efficient, yet widely general.Comment: Accepted in Proceedings of the 5th MICCAI workshop on Mathematical
Foundations of Computational Anatomy, Munich, Germany, 2015
(http://www-sop.inria.fr/asclepios/events/MFCA15/
Diffeomorphic density registration
In this book chapter we study the Riemannian Geometry of the density
registration problem: Given two densities (not necessarily probability
densities) defined on a smooth finite dimensional manifold find a
diffeomorphism which transforms one to the other. This problem is motivated by
the medical imaging application of tracking organ motion due to respiration in
Thoracic CT imaging where the fundamental physical property of conservation of
mass naturally leads to modeling CT attenuation as a density. We will study the
intimate link between the Riemannian metrics on the space of diffeomorphisms
and those on the space of densities. We finally develop novel computationally
efficient algorithms and demonstrate there applicability for registering RCCT
thoracic imaging.Comment: 23 pages, 6 Figures, Chapter for a Book on Medical Image Analysi
Comparison of Image Registration Based Measures of Regional Lung Ventilation from Dynamic Spiral CT with Xe-CT
Purpose: Regional lung volume change as a function of lung inflation serves
as an index of parenchymal and airway status as well as an index of regional
ventilation and can be used to detect pathologic changes over time. In this
article, we propose a new regional measure of lung mechanics --- the specific
air volume change by corrected Jacobian.
Methods: 4DCT and Xe-CT data sets from four adult sheep are used in this
study. Nonlinear, 3D image registration is applied to register an image
acquired near end inspiration to an image acquired near end expiration.
Approximately 200 annotated anatomical points are used as landmarks to evaluate
registration accuracy. Three different registration-based measures of regional
lung mechanics are derived and compared: the specific air volume change
calculated from the Jacobian (SAJ); the specific air volume change calculated
by the corrected Jacobian (SACJ); and the specific air volume change by
intensity change (SAI).
Results: After registration, the mean registration error is on the order of 1
mm. For cubical ROIs in cubes with size 20 mm 20 mm 20 mm,
the SAJ and SACJ measures show significantly higher correlation (linear
regression, average and ) with the Xe-CT based measure of
specific ventilation (sV) than the SAI measure. For ROIs in slabs along the
ventral-dorsal vertical direction with size of 150 mm 8 mm 40
mm, the SAJ, SACJ, and SAI all show high correlation (linear regression,
average , and ) with the Xe-CT based sV without
significant differences when comparing between the three methods.
Conclusion: Given a deformation field by an image registration algorithm,
significant differences between the SAJ, SACJ, and SAI measures were found at a
regional level compared to the Xe-CT sV in four sheep that were studied
Distributed-memory large deformation diffeomorphic 3D image registration
We present a parallel distributed-memory algorithm for large deformation
diffeomorphic registration of volumetric images that produces large isochoric
deformations (locally volume preserving). Image registration is a key
technology in medical image analysis. Our algorithm uses a partial differential
equation constrained optimal control formulation. Finding the optimal
deformation map requires the solution of a highly nonlinear problem that
involves pseudo-differential operators, biharmonic operators, and pure
advection operators both forward and back- ward in time. A key issue is the
time to solution, which poses the demand for efficient optimization methods as
well as an effective utilization of high performance computing resources. To
address this problem we use a preconditioned, inexact, Gauss-Newton- Krylov
solver. Our algorithm integrates several components: a spectral discretization
in space, a semi-Lagrangian formulation in time, analytic adjoints, different
regularization functionals (including volume-preserving ones), a spectral
preconditioner, a highly optimized distributed Fast Fourier Transform, and a
cubic interpolation scheme for the semi-Lagrangian time-stepping. We
demonstrate the scalability of our algorithm on images with resolution of up to
on the "Maverick" and "Stampede" systems at the Texas Advanced
Computing Center (TACC). The critical problem in the medical imaging
application domain is strong scaling, that is, solving registration problems of
a moderate size of ---a typical resolution for medical images. We are
able to solve the registration problem for images of this size in less than
five seconds on 64 x86 nodes of TACC's "Maverick" system.Comment: accepted for publication at SC16 in Salt Lake City, Utah, USA;
November 201
Medical imaging analysis with artificial neural networks
Given that neural networks have been widely reported in the research community of medical imaging, we provide a focused literature survey on recent neural network developments in computer-aided diagnosis, medical image segmentation and edge detection towards visual content analysis, and medical image registration for its pre-processing and post-processing, with the aims of increasing awareness of how neural networks can be applied to these areas and to provide a foundation for further research and practical development. Representative techniques and algorithms are explained in detail to provide inspiring examples illustrating: (i) how a known neural network with fixed structure and training procedure could be applied to resolve a medical imaging problem; (ii) how medical images could be analysed, processed, and characterised by neural networks; and (iii) how neural networks could be expanded further to resolve problems relevant to medical imaging. In the concluding section, a highlight of comparisons among many neural network applications is included to provide a global view on computational intelligence with neural networks in medical imaging
Numerical Methods for Pulmonary Image Registration
Due to complexity and invisibility of human organs, diagnosticians need to
analyze medical images to determine where the lesion region is, and which kind
of disease is, in order to make precise diagnoses. For satisfying clinical
purposes through analyzing medical images, registration plays an essential
role. For instance, in Image-Guided Interventions (IGI) and computer-aided
surgeries, patient anatomy is registered to preoperative images to guide
surgeons complete procedures. Medical image registration is also very useful in
surgical planning, monitoring disease progression and for atlas construction.
Due to the significance, the theories, methods, and implementation method of
image registration constitute fundamental knowledge in educational training for
medical specialists. In this chapter, we focus on image registration of a
specific human organ, i.e. the lung, which is prone to be lesioned. For
pulmonary image registration, the improvement of the accuracy and how to obtain
it in order to achieve clinical purposes represents an important problem which
should seriously be addressed. In this chapter, we provide a survey which
focuses on the role of image registration in educational training together with
the state-of-the-art of pulmonary image registration. In the first part, we
describe clinical applications of image registration introducing artificial
organs in Simulation-based Education. In the second part, we summarize the
common methods used in pulmonary image registration and analyze popular papers
to obtain a survey of pulmonary image registration
Improving Quantification in Lung PET/CT for the Evaluation of Disease Progression and Treatment Effectiveness
Positron Emission Tomography (PET) allows imaging of functional processes in vivo by measuring the distribution of an administered radiotracer. Whilst one of its main uses is directed towards lung cancer, there is an increased interest in diffuse lung diseases, for which the incidences rise every year, mainly due to environmental reasons and population ageing. However, PET acquisitions in the lung are particularly challenging due to several effects, including the inevitable cardiac and respiratory motion and the loss of spatial resolution due to low density, causing increased positron range. This thesis will focus on Idiopathic Pulmonary Fibrosis (IPF), a disease whose aetiology is poorly understood while patient survival is limited to a few years only. Contrary to lung tumours, this diffuse lung disease modifies the lung architecture more globally. The changes result in small structures with varying densities. Previous work has developed data analysis techniques addressing some of the challenges of imaging patients with IPF. However, robust reconstruction techniques are still necessary to obtain quantitative measures for such data, where it should be beneficial to exploit recent advances in PET scanner hardware such as Time of Flight (TOF) and respiratory motion monitoring. Firstly, positron range in the lung will be discussed, evaluating its effect in density-varying media, such as fibrotic lung. Secondly, the general effect of using incorrect attenuation data in lung PET reconstructions will be assessed. The study will compare TOF and non-TOF reconstructions and quantify the local and global artefacts created by data inconsistencies and respiratory motion. Then, motion compensation will be addressed by proposing a method which takes into account the changes of density and activity in the lungs during the respiration, via the estimation of the volume changes using the deformation fields. The method is evaluated on late time frame PET acquisitions using ¹⁸F-FDG where the radiotracer distribution has stabilised. It is then used as the basis for a method for motion compensation of the early time frames (starting with the administration of the radiotracer), leading to a technique that could be used for motion compensation of kinetic measures. Preliminary results are provided for kinetic parameters extracted from short dynamic data using ¹⁸F-FDG
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