99 6.1.2 Computational Anatomy -Shape and Deformation, p.100 ,
,
,
, Main Contributions The main objective of the thesis was to develop tools to analyze pre-ablation imaging data in atrial fibrillation (AF), stratify individual disease status and risk of arrhythmia recurrence
We developed an interactive region growing pipeline and a deep 3D convolution neural network model -dual 3D U-Nets structure -to segment the left atrium from computed tomography (CT) images. The region growing pipeline allows radiologists to use their expertise in the process of isolating the left atrium from its surrounding environment, which guarantees reliable segmentation. The results can generate accurate 3D models of the left atrial shape for shape analysis and ablation guidance, whereas Bibliography Ablitt, Imaging -Robust Image Segmentation Non-invasive extraction of the anatomical structures of the heart is a critical prerequisite in this study, vol.23, pp.1315-1324, 2004. ,
Pericardial fat is independently associated with human atrial fibrillation, Journal of the American College of Cardiology, vol.56, issue.10, pp.784-788, 2010. ,
, Atrial Fibrillation Fact Sheet, Division for Heart Disease and Stroke Prevention, National Center for Chronic Disease Prevention and Health Promotion, 2016.
A bi-ventricular cardiac atlas built from 1000+ high resolution mr images of healthy subjects and an analysis of shape and motion, Medical image analysis, vol.26, issue.1, pp.133-145, 2015. ,
Predictors of atrial fibrillation recurrence after radiofrequency catheter ablation: a systematic review, Journal of cardiovascular electrophysiology, vol.21, issue.11, pp.1208-1216, 2010. ,
Perceptual information processing system, US Patent App. 10/618, vol.543, 2004. ,
, Representation learning: A review and new perspectives, IEEE transactions on pattern analysis and machine intelligence, vol.35, pp.1798-1828, 2013.
Impact of atrial fibrillation on the risk of death: the Framingham Heart Study, Circulation, vol.98, issue.10, pp.946-952, 1998. ,
Pre-procedural predictors of atrial fibrillation recurrence after circumferential pulmonary vein ablation, European heart journal, vol.28, issue.7, pp.836-841, 2007. ,
Left atrial shape predicts recurrence after atrial fibrillation catheter ablation, Journal of Cardiovascular Electrophysiology, vol.29, issue.7, pp.966-972, 2018. ,
Left atrial sphericity: a new method to assess atrial remodeling. impact on the outcome of atrial fibrillation ablation, Journal of cardiovascular electrophysiology, vol.24, issue.7, pp.752-759, 2013. ,
Left atrial geometry and outcome of atrial fibrillation ablation: results from the multicentre LAGO-AF study, European Heart Journal -Cardiovascular Imaging, vol.19, issue.9, pp.1002-1009, 2018. ,
Size and shape spaces for landmark data in two dimensions, Statistical science, vol.1, issue.2, pp.181-222, 1986. ,
Contributions to 3D diffeomorphic atlas estimation: application to brain images, International Conference on Medical Image Computing and Computer-Assisted Intervention, pp.667-674, 2007. ,
A statistical shape modelling framework to extract 3d shape biomarkers from medical imaging data: assessing arch morphology of repaired coarctation of the aorta, BMC medical imaging, vol.16, issue.1, p.40, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01335147
Geodesic active contours, International journal of computer vision, vol.22, issue.1, pp.61-79, 1997. ,
Cutting edge clinical applications in cardiovascular magnetic resonance, World Journal of Radiology, vol.9, issue.1, p.1, 2017. ,
, Cgal 4.8.1 -3D mesh generation, 2016.
The varifold representation of nonoriented shapes for diffeomorphic registration, SIAM Journal on Imaging Sciences, vol.6, issue.4, pp.2547-2580, 2013. ,
3D U-net: Learning dense volumetric segmentation from sparse annotation, Lecture Notes in Computer Science, vol.9901, pp.424-432, 2016. ,
Cardiac arrythmias: multimodal assessment integrating body surface ecg mapping into cardiac imaging, Radiology, vol.271, issue.1, pp.239-247, 2013. ,
Age, atrial fibrillation, and structural heart disease are the main determinants of left atrial fibrosis detected by delayedenhanced magnetic resonance imaging in a general cardiology population, Journal of Cardiovascular Electrophysiology, vol.26, issue.5, pp.484-492, 2015. ,
Impact of voltage mapping to guide whether to perform ablation of the posterior wall in patients with persistent atrial fibrillation, Journal of cardiovascular electrophysiology, vol.27, issue.1, pp.13-21, 2016. ,
Influence of the duration of holter monitoring on the detection of arrhythmia recurrences after catheter ablation of atrial fibrillation: implications for patient follow-up, International journal of cardiology, vol.139, issue.3, pp.305-306, 2010. ,
A physics-based coordinate transformation for 3-d image matching, IEEE transactions on medical imaging, vol.16, issue.3, pp.317-328, 1997. ,
Use of computed tomography to identify atrial fibrillation associated differences in left atrial wall thickness and density, Pacing and Clinical Electrophysiology, vol.36, issue.1, pp.55-62, 2013. ,
Eacvi/ehra expert consensus document on the role of multi-modality imaging for the evaluation of patients with atrial fibrillation, European Heart Journal -Cardiovascular Imaging, vol.17, issue.4, pp.355-383, 2016. ,
URL : https://hal.archives-ouvertes.fr/hal-01275548
A spatiotemporal statistical atlas of motion for the quantification of abnormal myocardial tissue velocities, Medical image analysis, vol.15, issue.3, pp.316-328, 2011. ,
URL : https://hal.archives-ouvertes.fr/hal-02282430
Statistical models of sets of curves and surfaces based on currents, Medical image analysis, vol.13, issue.5, pp.793-808, 2009. ,
URL : https://hal.archives-ouvertes.fr/hal-00816051
Morphometry of anatomical shape complexes with dense deformations and sparse parameters, NeuroImage, vol.101, pp.35-49, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-01015771
Volumetric assessment of epicardial adipose tissue with cardiovascular magnetic resonance imaging, Obesity, vol.15, issue.4, pp.870-878, 2007. ,
Algebraic properties of covariant derivative and composition of exponential maps, Matematicheskie Trudy, vol.9, issue.1, pp.3-20, 2006. ,
Partial least-squares regression: a tutorial, Analytica chimica acta, vol.185, pp.1-17, 1986. ,
, Anatomy of the human body, vol.8, 1878.
Fast adipose tissue (FAT) assessment by MRI, Magnetic Resonance Imaging, vol.18, issue.7, pp.815-818, 2000. ,
Group-wise Construction of Reduced Models for Understanding and Characterization of Pulmonary Blood Flows from Medical Images, Medical Image Analysis, vol.18, issue.1, pp.63-82, 2013. ,
URL : https://hal.archives-ouvertes.fr/hal-00874545
, Symmetric algorithmic components for shape analysis with diffeomorphisms, 2019.
URL : https://hal.archives-ouvertes.fr/hal-02148832
Right ventricular function in cardiovascular disease, part i: anatomy, physiology, aging, and functional assessment of the right ventricle, Circulation, vol.117, issue.11, pp.1436-1448, 2008. ,
Driver domains in persistent atrial fibrillation, Circulation, vol.130, issue.7, pp.530-538, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-01648717
Morphology of atrial myocardium in human pulmonary veins: a postmortem analysis in patients with and without atrial fibrillation, Journal of the American College of Cardiology, vol.42, issue.6, pp.1108-1114, 2003. ,
Anatomy of the left atrium: implications for radiofrequency ablation of atrial fibrillation, Journal of cardiovascular electrophysiology, vol.10, issue.11, pp.1525-1533, 1999. ,
An end-to-end 3d convolutional neural network for action detection and segmentation in videos, 2017. ,
Review of Radiologic Physics, Lippincott Williams and Wilkins, vol.74, 2010. ,
Characterization of fractionated atrial electrograms critical for maintenance of atrial fibrillation: a randomized, controlled trial of ablation strategies (the cfae af trial, Circulation: Arrhythmia and Electrophysiology, vol.4, issue.5, pp.622-629, 2011. ,
Left atrial wall stress distribution and its relationship to electrophysiologic remodeling in persistent atrial fibrillation, Circulation: Arrhythmia and Electrophysiology, vol.5, issue.2, pp.351-360, 2012. ,
Epicardial and pericardial fat: close, but very different, Obesity, vol.17, issue.4, pp.625-625, 2009. ,
Patient-specific left atrial wall-thickness measurement and visualization for radiofrequency ablation, 361N, International Society for Optics and Photonics, vol.90, pp.361-90, 2014. ,
Left atrial wall segmentation from ct for radiofrequency catheter ablation planning, Workshop on Clinical Image-Based Procedures, pp.71-78, 2015. ,
Brain tumor segmentation and radiomics survival prediction: Contribution to the brats 2017 challenge, International MICCAI Brainlesion Workshop, pp.287-297, 2017. ,
CGALmesh: a generic framework for delaunay mesh generation, ACM Transactions on Mathematical Software (TOMS), vol.41, issue.4, p.23, 2015. ,
URL : https://hal.archives-ouvertes.fr/hal-00796052
Image Analysis and Mathematical Morphology, 1983. ,
Left Atrial Wall Segmentation and Thickness Measurement Using Region Growing and Marker-Controlled Geodesic Active Contour, 7th International Statistical Atlases and Computational Modeling of the Heart (STACOM) Workshop, Held in Conjunction with MICCAI 2016, vol.10124, pp.211-219, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01373238
Prediction of post-ablation outcome in atrial fibrillation using shape parameterization and partial least squares regression, International Conference on Functional Imaging and Modeling of the Heart, pp.311-321, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01574831
Automatically segmenting the left atrium from cardiac images using successive 3d u-nets and a contour loss, International Workshop on Statistical Atlases and Computational Models of the Heart, pp.221-229, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01860285
Parallel transport of surface deformations from pole ladder to symmetrical extension, International Workshop on Shape in Medical Imaging, pp.116-124, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01860274
Principal component analysis, 2002. ,
, STACOM Left Atrial Wall Thickness Challenge, 2016.
Algorithms for left atrial wall segmentation and thickness -evaluation on an opensource ct and mri image database, Medical Image Analysis, vol.50, pp.36-53, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01926935
ESC Guidelines for the management of atrial fibrillation developed in collaboration with EACTS, European Heart Journal, vol.37, issue.38, pp.2893-2962, 2016. ,
Threedimensional speckle tracking echocardiography for automatic assessment of global and regional left ventricular function based on area strain, Journal of the American Society of Echocardiography, vol.24, issue.3, pp.314-321, 2011. ,
Unsupervised probabilistic deformation modeling for robust diffeomorphic registration, in Deep Learning in Medical Image Analysis and Multimodal Learning for Clinical Decision Support, pp.101-109, 2018. ,
The significance of the shape of the left atrial roof as a novel index for determining the electrophysiological and structural characteristics in patients with atrial fibrillation, Europace, vol.13, issue.6, pp.803-808, 2011. ,
Automatic multi-model-based segmentation of the left atrium in cardiac mri scans, International Conference on Medical Image Computing and Computer-Assisted Intervention, pp.1-8, 2012. ,
A Semi-Automatic Method To Construct Atrial Fibre Structures : a Tool for Atrial Simulations, CinC 2012 -Computing in Cardiology, vol.39, pp.881-884, 2012. ,
URL : https://hal.archives-ouvertes.fr/hal-00759191
H-denseunet: hybrid densely connected unet for liver and tumor segmentation from ct volumes, IEEE transactions on medical imaging, vol.37, issue.12, pp.2663-2674, 2018. ,
Music: Multi-modality platform for specific imaging in cardiology, vol.16, 2019. ,
A survey on deep learning in medical image analysis, Medical Image Analysis, vol.42, pp.60-88, 2017. ,
Applications of deep learning to MRI images: A survey, Big Data Mining and Analytics, vol.1, issue.1, pp.1-18, 2018. ,
Spectral log-demons: diffeomorphic image registration with very large deformations, International journal of computer vision, vol.107, issue.3, pp.254-271, 2014. ,
URL : https://hal.archives-ouvertes.fr/hal-00979616
Efficient parallel transport of deformations in time series of images: from schild's to pole ladder, Journal of Mathematical Imaging and Vision, vol.50, issue.1-2, pp.5-17, 2014. ,
Schild's ladder for the parallel transport of deformations in time series of images, Biennial International Conference on Information Processing in Medical Imaging, pp.463-474, 2011. ,
Parallel transport in shape analysis: a scalable numerical scheme, International Conference on Geometric Science of Information, pp.29-37, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01565478
Left atrial appendage morphology assessment for risk stratification of embolic stroke in patients with atrial fibrillation: a meta-analysis, Heart Rhythm, vol.13, issue.7, pp.1402-1409, 2016. ,
A statistical model for quantification and prediction of cardiac remodelling: Application to tetralogy of fallot, IEEE transactions on medical imaging, vol.30, issue.9, pp.1605-1616, 2011. ,
URL : https://hal.archives-ouvertes.fr/inria-00616185
Association of atrial tissue fibrosis identified by delayed enhancement mri and atrial fibrillation catheter ablation: the decaaf study, Journal of the American Medical Association, issue.5, pp.498-506, 2014. ,
Spatio-temporal tensor decomposition of a polyaffine motion model for a better analysis of pathological left ventricular dynamics, IEEE transactions on medical imaging, vol.34, issue.7, pp.1562-1575, 2015. ,
URL : https://hal.archives-ouvertes.fr/hal-01205342
Diffeomorphometry and geodesic positioning systems for human anatomy, Technology, vol.2, issue.01, pp.36-43, 2014. ,
Three-dimensional right-ventricular regional deformation and survival in pulmonary hypertension, European Heart Journal -Cardiovascular Imaging, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01533793
Atrial fibrillation: the current epidemic, Journal of geriatric cardiology: JGC, vol.14, issue.3, p.195, 2017. ,
Characteristic changes of volume and three-dimensional structure of the left atrium in different forms of atrial fibrillation: predictive value after ablative treatment, Journal of Interventional Cardiac Electrophysiology, vol.32, issue.2, pp.87-94, 2011. ,
Validation of cardiovascular magnetic resonance assessment of pericardial adipose tissue volume, Journal of Cardiovascular Magnetic Resonance, vol.11, issue.1, p.15, 2009. ,
Detection and quantification of left atrial structural remodeling using delayed enhancement mri in patients with atrial fibrillation, Circulation, vol.119, issue.13, p.1758, 2009. ,
Anatomically constrained neural networks (acnns): application to cardiac image enhancement and segmentation, IEEE transactions on medical imaging, vol.37, issue.2, pp.384-395, 2017. ,
, Anatomy & Physiology, vol.12, 2013.
An efficient class of alternating sequential filters in morphology, Graphical Models and Image Processing, vol.59, issue.2, pp.109-116, 1997. ,
Parallel transport with pole ladder: a third order scheme in affine connection spaces which is exact in affine symmetric spaces, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01799888
, Riemannian Geometry, Encyclopaedia of Mathematical Sciences, Geometry, 2001.
Parallel transport in diffeomorphisms distinguishes the time-dependent pattern of hippocampal surface deformation due to healthy aging and the dementia of the alzheimer's type, NeuroImage, vol.40, issue.1, pp.68-76, 2008. ,
Hierarchical statistical shape analysis and prediction of sub-cortical brain structures, Medical image analysis, vol.12, issue.1, pp.55-68, 2008. ,
Svf-net: Learning deformable image registration using shape matching, International Conference on Medical Image Computing and Computer-Assisted Intervention, pp.266-274, 2017. ,
Detection of left atrial appendage thrombus by cardiac computed tomography in patients with atrial fibrillation: a meta-analysis, Circulation: Cardiovascular Imaging, vol.6, issue.2, pp.185-194, 2013. ,
U-net: Convolutional networks for biomedical image segmentation, International Conference on Medical image computing and computer-assisted intervention, pp.234-241, 2015. ,
Anatomic relations between the esophagus and left atrium and relevance for ablation of atrial fibrillation, Circulation, vol.112, issue.10, pp.1400-1405, 2005. ,
, Computer Vision: Theory and Applications, 2001.
,
Left atrial volume is a predictor of atrial fibrillation recurrence after catheter ablation, Journal of the American Society of Echocardiography, vol.21, issue.6, pp.697-702, 2008. ,
A study of image segmentation algorithms for different types of images, International Journal of Computer Science Issues (IJCSI), vol.7, issue.5, p.414, 2010. ,
Pericardial fat is associated with prevalent atrial fibrillation: the framingham heart study, Circulation: Arrhythmia and Electrophysiology, vol.3, issue.4, pp.345-350, 2010. ,
Left atrial segmentation challenge: a unified benchmarking framework, International Workshop on Statistical Atlases and Computational Models of the Heart, pp.1-13, 2013. ,
Fusion of multislice computed tomography imaging with three-dimensional electroanatomic mapping to guide radiofrequency catheter ablation procedures, Heart Rhythm, vol.2, issue.10, pp.1076-1081, 2005. ,
Learning spatiotemporal features with 3d convolutional networks, Proceedings of the IEEE international conference on computer vision, pp.4489-4497, 2015. ,
Diffeomorphisms groups and pattern matching in image analysis, International journal of computer vision, vol.28, issue.3, pp.213-221, 1998. ,
Surface matching via currents, Biennial International Conference on Information Processing in Medical Imaging, pp.381-392, 2005. ,
URL : https://hal.archives-ouvertes.fr/hal-00263652
3D high-resolution atrial wall thickness maps using black-blood psir, Journal of Cardiovascular Magnetic Resonance, vol.17, issue.1, p.1, 2015. ,
Novel computational analysis of left atrial anatomy improves prediction of atrial fibrillation recurrence after ablation, Frontiers in Physiology, vol.8, p.68, 2017. ,
Symmetric log-domain diffeomorphic registration: A demons-based approach, International conference on medical image computing and computer-assisted intervention, pp.754-761, 2008. ,
URL : https://hal.archives-ouvertes.fr/inria-00280602
Approaches to catheter ablation for persistent atrial fibrillation, New England Journal of Medicine, vol.372, issue.19, pp.1812-1822, 2015. ,
, VTK, vtktrianglefilter class reference, 2016.
Diagram of the human heart, vol.12, 2006. ,
Evaluation of left atrial function by multidetector computed tomography before left atrial radiofrequencycatheter ablation: comparison of a manual and automated 3d volume segmentation method, European journal of radiology, vol.75, issue.2, pp.141-146, 2010. ,
Pericardial fat is associated with atrial fibrillation severity and ablation outcome, Journal of the American College of Cardiology, vol.57, issue.17, pp.1745-1751, 2011. ,
Jacobi fields in groups of diffeomorphisms and applications, Quarterly of applied mathematics, pp.113-134, 2007. ,
, Visualizing and Understanding Convolutional Networks, vol.8689, pp.818-833, 2013.
Data augmentation using learned transformations for one-shot medical image segmentation, Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition, pp.8543-8553, 2019. ,
3-d consistent and robust segmentation of cardiac images by deep learning with spatial propagation, IEEE transactions on medical imaging, vol.37, issue.9, pp.2137-2148, 2018. ,
Epidemiology of atrial fibrillation: European perspective, Clinical epidemiology, vol.6, p.213, 2014. ,