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Publications of year 2005

Thesis

  1. Julien Dauguet. L'imagerie post mortem tridimensionnelle cérébrale : constitution et apport pour l'analyse conjointe de données histologiques anatomo-fonctionnelles et la mise en correspondance avec l'imagerie in vivo. PhD thesis, École Centrale de Paris, June 2005.
    @phdthesis{dauguet:thesis:2005,
    author = {Julien Dauguet},
    hal-identifiant = {tel-00339418},
    month = {June},
    school = {\'Ecole Centrale de Paris},
    title = {L'imagerie post mortem tridimensionnelle c\'er\'ebrale : constitution et apport pour l'analyse conjointe de donn\'ees histologiques anatomo-fonctionnelles et la mise en correspondance avec l'imagerie in vivo},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Dauguet/dauguet-phd-2005.pdf},
    url-hal = {http://hal.inria.fr/tel-00339418/en/},
    year = {2005} 
    }
    


  2. Céline Fouard. Extraction de paramètres morphométriques pour l'étude du réseau micro-vasculaire cérébral. Thèse de sciences, Université de Nice -- Sophia-Antipolis, January 2005.
    @phdthesis{fouard:thesis:2005,
    author = {C\'eline Fouard},
    hal-identifiant = {tel-00308884},
    month = {January},
    school = {Universit\'e de Nice -- Sophia-Antipolis},
    title = {Extraction de param\`etres morphom\'etriques pour l'\'etude du r\'eseau micro-vasculaire c\'er\'ebral},
    type = {Th\`ese de sciences},
    url = {http://www-sop.inria.fr/dias/Theses/phd-124.pdf},
    url-hal = {http://hal.inria.fr/tel-00308884/en/},
    url-publisher = {http://www.inria.fr/rrrt/tu-1142.html},
    year = {2005} 
    }
    


  3. Valérie Moreau-Villéger. Méthodes variationnelles et séquentielles pour l'étude de la contraction cardiaque. Thèse de sciences, Université de Nice Sophia-Antipolis, 2005.
    @phdthesis{moreau:thesis:2005,
    author = {Val\'erie Moreau-Vill\'eger},
    school = {Universit\'e de Nice Sophia-Antipolis},
    title = {M\'ethodes variationnelles et s\'equentielles pour l'\'etude de la contraction cardiaque},
    type = {Th\`ese de sciences},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Moreau/moreauThese2005.pdf},
    year = {2005} 
    }
    


  4. Mauricio A. Reyes. Respiratory Motion Compensation in Emission Tomography. Thèse de sciences, Université de Nice Sophia-Antipolis, December 2005.
    @phdthesis{reyes:phd:2005,
    author = {Mauricio A. Reyes},
    month = {December},
    school = {Universit\'e de Nice Sophia-Antipolis},
    title = {Respiratory Motion Compensation in Emission Tomography},
    type = {Th\`ese de sciences},
    year = {2005} 
    }
    


  5. Radu Stefanescu. Parallel nonlinear registration of medical images with a priori information on anatomy and pathology. Thèse de sciences, Université de Nice -- Sophia-Antipolis, March 2005.
    @phdthesis{Stefanescu:PhD:05,
    author = {Radu Stefanescu},
    month = {March},
    school = {Universit\'e de Nice -- Sophia-Antipolis},
    title = {Parallel nonlinear registration of medical images with a priori information on anatomy and pathology},
    type = {Th\`ese de sciences},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Stefanescu/thesis_stefanescu.pdf},
    year = {2005} 
    }
    


Articles in journal, book chapters

  1. Vincent Arsigny, Xavier Pennec, and Nicholas Ayache. Polyrigid and Polyaffine Transformations: a Novel Geometrical Tool to Deal with Non-Rigid Deformations - Application to the registration of histological slices. Medical Image Analysis, 9(6):507-523, December 2005. Keyword(s): Non-rigid registration, Histological slices, Polyaffine transformations, Ordinary differential equations.
    @article{arsigny:media:05,
    author = {Vincent Arsigny and Xavier Pennec and Nicholas Ayache},
    doi = {10.1016/j.media.2005.04.001},
    journal = {Medical Image Analysis},
    keywords = {Non-rigid registration, Histological slices, Polyaffine transformations, Ordinary differential equations},
    month = {December},
    number = {6},
    pages = {507-523},
    pmid = {15948656},
    title = {Polyrigid and Polyaffine Transformations: a Novel Geometrical Tool to Deal with Non-Rigid Deformations - Application to the registration of histological slices},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Arsigny_Media_ITK.pdf},
    url-hal = {https://hal.inria.fr/inria-00615665},
    url-publisher = {http://authors.elsevier.com/sd/article/S1361841505000289},
    volume = {9},
    year = {2005} 
    }
    


  2. J.-D. Boissonnat, R. Chaine, P. Frey, G. Malandain, S. Salmon, E. Saltel, and M. Thiriet. From arteriographies to computational flow in saccular aneurisms: the INRIA experience. Medical Image Analysis, 9(2):133-143, April 2005. Keyword(s): 3D reconstruction, Aneurism, Finite element method, Mesh adaptation, Pulsatile flow.
    Abstract:
    Saccular aneurisms illustrate usefulness and possible techniques of image-based modeling of flow in diseased vessels. Aneurism flow is investigated in order to estimate the rupture risk, assuming that the pressure is the major factor and that high-pressure zones are correlated to within-wall strong-stress concentrations. Computational flow is also aimed at providing additional arguments for the treatment strategy. Angiographies of aneurismal vessels of large and medium size are processed to provide three-dimensional reconstruction of the vessel region of interest. Different reconstruction techniques are used for a side and a terminal aneurisms. Reconstruction techniques may lead to different geometries especially with poor input data. The associated facetisation is improved to get a computation-adapted surface triangulation, after a treatment of vessel ends and mesh adaptation. Once the volumic mesh is obtained, the pulsatile flow of an incompressible Newtonian blood is computed using in vivo non-invasive flowmetry and the finite element method. High pressure zones are observed in the aneurism cavity. The pressure magnitude in the aneurism, the location and the size of high pressure zones depend mainly on the aneurism implantation on the vessel wall and its orientation with respect to the blood flux in the upstream vessel. The stronger the blood impacts on the aneurismal wall the higher the pressure. The state of the aneurism neck, where a high-pressure zone can occur, and the location of the aneurism, with an easy access or not, give arguments for the choice between coiling and surgical clipping. Mesh size and 3D reconstruction procedure affect the numerical results. Helpful qualitative data are provided rather than accurate quantitative results in the context of multimodeling.

    @article{boissonnat:media:2005,
    abstract = {Saccular aneurisms illustrate usefulness and possible techniques of image-based modeling of flow in diseased vessels. Aneurism flow is investigated in order to estimate the rupture risk, assuming that the pressure is the major factor and that high-pressure zones are correlated to within-wall strong-stress concentrations. Computational flow is also aimed at providing additional arguments for the treatment strategy. Angiographies of aneurismal vessels of large and medium size are processed to provide three-dimensional reconstruction of the vessel region of interest. Different reconstruction techniques are used for a side and a terminal aneurisms. Reconstruction techniques may lead to different geometries especially with poor input data. The associated facetisation is improved to get a computation-adapted surface triangulation, after a treatment of vessel ends and mesh adaptation. Once the volumic mesh is obtained, the pulsatile flow of an incompressible Newtonian blood is computed using in vivo non-invasive flowmetry and the finite element method. High pressure zones are observed in the aneurism cavity. The pressure magnitude in the aneurism, the location and the size of high pressure zones depend mainly on the aneurism implantation on the vessel wall and its orientation with respect to the blood flux in the upstream vessel. The stronger the blood impacts on the aneurismal wall the higher the pressure. The state of the aneurism neck, where a high-pressure zone can occur, and the location of the aneurism, with an easy access or not, give arguments for the choice between coiling and surgical clipping. Mesh size and 3D reconstruction procedure affect the numerical results. Helpful qualitative data are provided rather than accurate quantitative results in the context of multimodeling.},
    author = {J.-D. Boissonnat and R. Chaine and P. Frey and G. Malandain and S. Salmon and E. Saltel and M. Thiriet},
    doi = {10.1016/j.media.2004.11.004},
    hal-identifiant = {hal-00017614},
    journal = {Medical Image Analysis},
    keywords = {3D reconstruction, Aneurism, Finite element method, Mesh adaptation, Pulsatile flow},
    month = {April},
    number = {2},
    pages = {133-143},
    title = {From arteriographies to computational flow in saccular aneurisms: the INRIA experience},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/boissonnat-media-2005.pdf},
    url-hal = {http://hal.inria.fr/hal-00017614/en/},
    volume = {9},
    year = {2005} 
    }
    


  3. Pierre-Yves Bondiau, Gregoire Malandain, Stephane Chanalet, Pierre-Yves Marcy, Jean-Louis Habrand, Francois Fauchon, Philippe Paquis, Adel Courdi, Olivier Commowick, Isabelle Rutten, and Nicholas Ayache. Atlas-based automatic segmentation of MR images: validation study on the brainstem in radiotherapy context. Int J Radiat Oncol Biol Phys, 61(1):289-98, January 2005. Keyword(s): Algorithms, Anatomical Atlas, methods, Brain Neoplasms, pathology, Brain Stem, anatomy & histology, Humans, Image Interpretation Computer-Assisted, methods, Magnetic Resonance Imaging, methods, Medical Illustration, Observer Variation, Reproducibility of Results, Sensitivity and Specificity.
    Abstract:
    PURPOSE: Brain tumor radiotherapy requires the volume measurements and the localization of several individual brain structures. Any tool that can assist the physician to perform the delineation would then be of great help. Among segmentation methods, those that are atlas-based are appealing because they are able to segment several structures simultaneously, while preserving the anatomy topology. This study aims to evaluate such a method in a clinical context. METHODS AND MATERIALS: The brain atlas is made of two three-dimensional (3D) volumes: the first is an artificial 3D magnetic resonance imaging (MRI); the second consists of the segmented structures in this artificial MRI. The elastic registration of the artificial 3D MRI against a patient 3D MRI dataset yields an elastic transformation that can be applied to the labeled image. The elastic transformation is obtained by minimizing the sum of the square differences of the image intensities and derived from the optical flow principle. This automatic delineation (AD) enables the mapping of the segmented structures onto the patient MRI. Parameters of the AD have been optimized on a set of 20 patients. Results are obtained on a series of 6 patients' MRI. A comprehensive validation of the AD has been conducted on performance of atlas-based segmentation in a clinical context with volume, position, sensitivity, and specificity that are compared by a panel of seven experimented physicians for the brain tumor treatments. RESULTS: Expert interobserver volume variability ranged from 16.70 cm(3) to 41.26 cm(3). For patients, the ratio of minimal to maximal volume ranged from 48% to 70%. Median volume varied from 19.47 cm(3) to 27.66 cm(3) and volume of the brainstem calculated by AD varied from 17.75 cm(3) to 24.54 cm(3). Medians of experts ranged, respectively, for sensitivity and specificity, from 0.75 to 0.98 and from 0.85 to 0.99. Median of AD were, respectively, 0.77 and 0.97. Mean of experts ranged, respectively, from 0.78 to 0.97 and from 0.86 to 0.99. Mean of AD were, respectively, 0.76 and 0.97. CONCLUSIONS: Results demonstrate that the method is repeatable, provides a good trade-off between accuracy and robustness, and leads to reproducible segmentation and labeling. These results can be improved by enriching the atlas with the rough information of tumor or by using different laws of deformation for the different structures. Qualitative results also suggest that this method can be used for automatic segmentation of other organs such as neck, thorax, abdomen, pelvis, and limbs.

    @article{bondiau:ijrobp:2005,
    abstract = {PURPOSE: Brain tumor radiotherapy requires the volume measurements and the localization of several individual brain structures. Any tool that can assist the physician to perform the delineation would then be of great help. Among segmentation methods, those that are atlas-based are appealing because they are able to segment several structures simultaneously, while preserving the anatomy topology. This study aims to evaluate such a method in a clinical context. METHODS AND MATERIALS: The brain atlas is made of two three-dimensional (3D) volumes: the first is an artificial 3D magnetic resonance imaging (MRI); the second consists of the segmented structures in this artificial MRI. The elastic registration of the artificial 3D MRI against a patient 3D MRI dataset yields an elastic transformation that can be applied to the labeled image. The elastic transformation is obtained by minimizing the sum of the square differences of the image intensities and derived from the optical flow principle. This automatic delineation (AD) enables the mapping of the segmented structures onto the patient MRI. Parameters of the AD have been optimized on a set of 20 patients. Results are obtained on a series of 6 patients' MRI. A comprehensive validation of the AD has been conducted on performance of atlas-based segmentation in a clinical context with volume, position, sensitivity, and specificity that are compared by a panel of seven experimented physicians for the brain tumor treatments. RESULTS: Expert interobserver volume variability ranged from 16.70 cm(3) to 41.26 cm(3). For patients, the ratio of minimal to maximal volume ranged from 48% to 70%. Median volume varied from 19.47 cm(3) to 27.66 cm(3) and volume of the brainstem calculated by AD varied from 17.75 cm(3) to 24.54 cm(3). Medians of experts ranged, respectively, for sensitivity and specificity, from 0.75 to 0.98 and from 0.85 to 0.99. Median of AD were, respectively, 0.77 and 0.97. Mean of experts ranged, respectively, from 0.78 to 0.97 and from 0.86 to 0.99. Mean of AD were, respectively, 0.76 and 0.97. CONCLUSIONS: Results demonstrate that the method is repeatable, provides a good trade-off between accuracy and robustness, and leads to reproducible segmentation and labeling. These results can be improved by enriching the atlas with the rough information of tumor or by using different laws of deformation for the different structures. Qualitative results also suggest that this method can be used for automatic segmentation of other organs such as neck, thorax, abdomen, pelvis, and limbs.},
    author = {Pierre-Yves Bondiau and Gregoire Malandain and Stephane Chanalet and Pierre-Yves Marcy and Jean-Louis Habrand and Francois Fauchon and Philippe Paquis and Adel Courdi and Olivier Commowick and Isabelle Rutten and Nicholas Ayache},
    doi = {10.1016/j.ijrobp.2004.08.055},
    journal = {Int J Radiat Oncol Biol Phys},
    keywords = {Algorithms, Anatomical Atlas, methods, Brain Neoplasms, pathology, Brain Stem, anatomy & histology, Humans, Image Interpretation Computer-Assisted, methods, Magnetic Resonance Imaging, methods, Medical Illustration, Observer Variation, Reproducibility of Results, Sensitivity and Specificity},
    month = {January},
    number = {1},
    pages = {289-98},
    title = {Atlas-based automatic segmentation of MR images: validation study on the brainstem in radiotherapy context},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/bondiau-ijrobp-2005.pdf},
    url-hal = {https://hal.inria.fr/inria-00615664},
    volume = {61},
    year = {2005} 
    }
    


  4. Olivier Clatz, Hervé Delingette, Ion-Florin Talos, Alexandra J. Golby, Ron Kikinis, Ferenc Jolesz, Nicholas Ayache, and Simon Warfield. Robust Non-Rigid Registration to Capture Brain Shift from Intra-Operative MRI. IEEE Transactions on Medical Imaging, 24(11):1417-1427, Nov. 2005. Keyword(s): Non-rigid registration, intra-operative magnetic resonance imaging, finite element model, brain shift.
    Abstract:
    We present a new algorithm to register 3D pre-operative Magnetic Resonance (MR) images to intra-operative MR images of the brain which have undergone brain shift. This algorithm relies on a robust estimation of the deformation from a sparse noisy set of measured displacements. We propose a new framework to co mpute the displacement field in an iterative process, allowing the solution to gradually move from an approximation formulation (minimizing the sum of a re gularization term and a data error term) to an interpolation formulation (least square minimization of the data error term). An outlier rejection step is i ntroduced in this gradual registration process using a weighted least trimmed squares approach, aiming at improving the robustness of the algorithm. We use a patient-specific model discretized with the finite element method (FEM) in order to ensure a realistic mechanical behavior of the brain tissue. To meet the clinical time constraint, we parallelized the slowest step of the algorithm so that we can perform a full 3D image registration in 35 seconds ( including the image update time) on a heterogeneous cluster of 15 PCs. The algorithm has been tested on six cases of brain tumor resection, presenting a brain shift of up to 14 mm. The results show a good ability to recover la rge displacements, and a limited decrease of accuracy near the tumor resection cavity.

    @article{clatz_2:TMI:2005,
    abstract = {We present a new algorithm to register 3D pre-operative Magnetic Resonance (MR) images to intra-operative MR images of the brain which have undergone brain shift. This algorithm relies on a robust estimation of the deformation from a sparse noisy set of measured displacements. We propose a new framework to co mpute the displacement field in an iterative process, allowing the solution to gradually move from an approximation formulation (minimizing the sum of a re gularization term and a data error term) to an interpolation formulation (least square minimization of the data error term). An outlier rejection step is i ntroduced in this gradual registration process using a weighted least trimmed squares approach, aiming at improving the robustness of the algorithm. We use a patient-specific model discretized with the finite element method (FEM) in order to ensure a realistic mechanical behavior of the brain tissue. To meet the clinical time constraint, we parallelized the slowest step of the algorithm so that we can perform a full 3D image registration in 35 seconds ( including the image update time) on a heterogeneous cluster of 15 PCs. The algorithm has been tested on six cases of brain tumor resection, presenting a brain shift of up to 14 mm. The results show a good ability to recover la rge displacements, and a limited decrease of accuracy near the tumor resection cavity.},
    author = {Olivier Clatz and Herv\'e Delingette and Ion-Florin Talos and Alexandra J. Golby and Ron Kikinis and Ferenc Jolesz and Nicholas Ayache and Simon Warfield},
    journal = {IEEE Transactions on Medical Imaging},
    keywords = {Non-rigid registration, intra-operative magnetic resonance imaging, finite element model, brain shift},
    month = {Nov.},
    number = {11},
    pages = {1417-1427},
    title = {Robust Non-Rigid Registration to Capture Brain Shift from Intra-Operative MRI},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Clatz/TMI_intraoperative_clatz.pdf},
    url-hal = {https://hal.inria.fr/inria-00615661},
    volume = {24},
    year = {2005} 
    }
    


  5. Olivier Clatz, Maxime Sermesant, Pierre-Yves Bondiau, Hervé Delingette, Simon K. Warfield, Grégoire Malandain, and Nicholas Ayache. Realistic Simulation of the 3D Growth of Brain Tumors in MR Images Coupling Diffusion with Mass Effect. IEEE Transactions on Medical Imaging, 24(10):1334-1346, October 2005. Keyword(s): Tumor, brain, growth, model, simulation.
    Abstract:
    We propose a new model to simulate the 3D growth of glioblastomas multiforma (GBMs), the most aggressive glial tumors. The GBM speed of growth depends on the invaded tissue: faster in white than in gray matter, it is stopped by the dura or the ventricles. These different structures are introduced into the model using an atlas matching technique. The atlas includes both the segmentations of anatomical structures and diffusion information in white matter fibers. We use the finite element method (FEM) to simulate the invasion of the GBM in the brain parenchyma and its mechanical interaction with the invaded structures (mass effect). Depending on the considered tissue, the former effect is modeled with a reaction-diffusion or a Gompertz equation, while the latter is based on a linear elastic brain constitutive equation. In addition, we propose a new coupling equation taking into account the mechanical influence of the tumor cells on the invaded tissues. The tumor growth simulation is assessed by comparing the extit{in-silico} GBM growth with the real growth observed on two magnetic resonance images (MRIs) of a patient acquired with six months difference. Results show the feasibility of this new conceptual approach and justifies its further validation.

    @article{clatz_1:TMI:2005,
    abstract = {We propose a new model to simulate the 3D growth of glioblastomas multiforma (GBMs), the most aggressive glial tumors. The GBM speed of growth depends on the invaded tissue: faster in white than in gray matter, it is stopped by the dura or the ventricles. These different structures are introduced into the model using an atlas matching technique. The atlas includes both the segmentations of anatomical structures and diffusion information in white matter fibers. We use the finite element method (FEM) to simulate the invasion of the GBM in the brain parenchyma and its mechanical interaction with the invaded structures (mass effect). Depending on the considered tissue, the former effect is modeled with a reaction-diffusion or a Gompertz equation, while the latter is based on a linear elastic brain constitutive equation. In addition, we propose a new coupling equation taking into account the mechanical influence of the tumor cells on the invaded tissues. The tumor growth simulation is assessed by comparing the 	extit{in-silico} GBM growth with the real growth observed on two magnetic resonance images (MRIs) of a patient acquired with six months difference. Results show the feasibility of this new conceptual approach and justifies its further validation.},
    author = {Olivier Clatz and Maxime Sermesant and Pierre-Yves Bondiau and Herv\'e Delingette and Simon K. Warfield and Gr\'egoire Malandain and Nicholas Ayache},
    journal = {IEEE Transactions on Medical Imaging},
    keywords = {Tumor, brain, growth, model, simulation},
    month = {October},
    number = {10},
    pages = {1334-1346},
    title = {Realistic Simulation of the 3D Growth of Brain Tumors in MR Images Coupling Diffusion with Mass Effect},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Clatz/TMI_GBM_clatz.pdf},
    url-hal = {https://hal.inria.fr/inria-00615662},
    volume = {24},
    year = {2005} 
    }
    


  6. H. Delingette and N. Ayache. Hepatic Surgery Simulation. Communications of the ACM, 48(2):31-36, February 2005.
    @article{Delingette:cacm:2005,
    author = {H. Delingette and N. Ayache},
    journal = {Communications of the ACM},
    month = {February},
    number = {2},
    pages = {31--36},
    title = {Hepatic Surgery Simulation},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/cacm-delingette-05.pdf},
    url-hal = {https://hal.inria.fr/inria-00615659},
    volume = {48},
    year = {2005} 
    }
    


  7. D. Ducreux, I. Huynh, P. Fillard, J. Renoux, M.C. Petit-Lacour, K. Marsot-Dupuch, and P. Lasjaunias. Brain MR Diffusion Tensor Imaging and Fibre Tracking to Differentiate Between Two Diffuse Axonal Injuries. Neuroradiology, 47(8):604-608, August 2005.
    @article{Ducreux:Neuroradiology:05,
    author = {D. Ducreux and I. Huynh and P. Fillard and J. Renoux and M.C. Petit-Lacour and K. Marsot-Dupuch and P. Lasjaunias},
    hal-identifiant = {inria-00502656},
    journal = {Neuroradiology},
    month = {August},
    number = {8},
    pages = {604-608},
    title = {Brain MR Diffusion Tensor Imaging and Fibre Tracking to Differentiate Between Two Diffuse Axonal Injuries},
    url-hal = {http://hal.inria.fr/inria-00502656/en/},
    volume = {47},
    year = {2005} 
    }
    


  8. D. Facon, A. Ozanne, P. Fillard, J.-F. Lepeintre, C. Tournoux-Facon, and D. Ducreux. MR Diffusion Tensor Imaging and Fiber Tracking in Spinal Cord Compression. AJNR. American journal of neuroradiology, 26:1587-1594, 2005.
    @article{Facon:AJNR:05,
    author = {D. Facon and A. Ozanne and P. Fillard and J.-F. Lepeintre and C. Tournoux-Facon and D. Ducreux},
    hal-identifiant = {inria-00502651},
    journal = {AJNR. American journal of neuroradiology},
    pages = {1587-1594},
    title = {MR Diffusion Tensor Imaging and Fiber Tracking in Spinal Cord Compression},
    url-hal = {http://hal.inria.fr/inria-00502651/en/},
    volume = {26},
    year = {2005} 
    }
    


  9. C. Forest, H. Delingette, and N. Ayache. Removing Tetrahedra from manifold tetrahedralisation : application to real-time surgical simulation. Medical Image Analysis, 9(2):113-122, April 2005. Keyword(s): Surgical simulation, Topological modifications, Manifold meshes.
    Abstract:
    This paper proposes an efficient method for removing tetrahedra from a tetrahedral mesh while keeping its manifold property. We first define precisely the notion of manifold tetrahedral mesh and stress its relevance in the context of real-time surgery simulation. We then provide a method for removing a tetrahedron that complies with the manifold definition. This removal may require in some cases the removal of neighboring tetrahedra. After providing an exhaustive description of the tetrahedron removal algorithm, its efficiency is evaluated for different mesh configurations. This algorithm is currently used in the context of real-time surgery simulation where the action of an ultrasonic lancet can be simulated by the removal of small set of tetrahedra from a tetrahedralisation.

    @article{Forest:media:2005,
    abstract = {This paper proposes an efficient method for removing tetrahedra from a tetrahedral mesh while keeping its manifold property. We first define precisely the notion of manifold tetrahedral mesh and stress its relevance in the context of real-time surgery simulation. We then provide a method for removing a tetrahedron that complies with the manifold definition. This removal may require in some cases the removal of neighboring tetrahedra. After providing an exhaustive description of the tetrahedron removal algorithm, its efficiency is evaluated for different mesh configurations. This algorithm is currently used in the context of real-time surgery simulation where the action of an ultrasonic lancet can be simulated by the removal of small set of tetrahedra from a tetrahedralisation.},
    author = {C. Forest and H. Delingette and N. Ayache},
    doi = {10.1016/j.media.2004.11.003},
    journal = {Medical Image Analysis},
    keywords = {Surgical simulation, Topological modifications, Manifold meshes},
    month = {April},
    number = {2},
    pages = {113--122},
    title = {Removing Tetrahedra from manifold tetrahedralisation : application to real-time surgical simulation},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/Media-Forest-2005.pdf},
    url-hal = {https://hal.inria.fr/inria-00615666},
    volume = {9},
    year = {2005} 
    }
    


  10. Céline Fouard and Grégoire Malandain. 3-D chamfer distances and norms in anisotropic grids. Image and Vision Computing, 23(2):143-158, February 2005. Keyword(s): chamfer distance, anisotropic lattice, Farey triangulation.
    Abstract:
    Chamfer distances are widely used in image analysis and many authors have investigated the computation of optimal chamfer mask coefficients. Unfortunately, these methods are not systematized: calculations have to be conducted manually for every mask size or image anisotropy. Since image acquisition (e.g. medical imaging) can lead to discrete anisotropic grids with unpredictable anisotropy value, automated calculation of chamfer mask coefficients becomes mandatory for e cient distance map computations. This article presents an automatic construction for chamfer masks of arbitrary sizes. This allows, first, to derive analytically the relative error with respect to the Euclidean distance, in any 3-D anisotropic lattice, and second, to compute optimal chamfer coefficients. In addition, the resulting chamfer map verifies discrete norm conditions.

    @article{fouard:ivc:2005,
    abstract = {Chamfer distances are widely used in image analysis and many authors have investigated the computation of optimal chamfer mask coefficients. Unfortunately, these methods are not systematized: calculations have to be conducted manually for every mask size or image anisotropy. Since image acquisition (e.g. medical imaging) can lead to discrete anisotropic grids with unpredictable anisotropy value, automated calculation of chamfer mask coefficients becomes mandatory for e cient distance map computations. This article presents an automatic construction for chamfer masks of arbitrary sizes. This allows, first, to derive analytically the relative error with respect to the Euclidean distance, in any 3-D anisotropic lattice, and second, to compute optimal chamfer coefficients. In addition, the resulting chamfer map verifies discrete norm conditions.},
    author = {C\'eline Fouard and Gr\'egoire Malandain},
    doi = {10.1016/j.imavis.2004.06.009},
    hal-identifiant = {hal-00308886},
    journal = {Image and Vision Computing},
    keywords = {chamfer distance, anisotropic lattice, Farey triangulation},
    month = {February},
    number = {2},
    pages = {143--158},
    title = {3-D chamfer distances and norms in anisotropic grids},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Fouard/Fouard_Malandain_IVC_2004.pdf},
    url-hal = {http://hal.inria.fr/hal-00308886/en/},
    volume = {23},
    year = {2005} 
    }
    


  11. C. Germain, V. Breton, P. Clarysse, Y. Gaudeau, T. Glatard, E. Jeannot, Y. Legré, C. Loomis, I. Magnin, J. Montagnat, J.-M. Moureau, A. Osorio, X. Pennec, and R. Texier. Grid-Enabling Medical Image Analysis. Journal of Clinical Monitoring and Computing, 19(4-5):339-349, October 2005.
    @article{Germain:JCMC:2005,
    author = {C. Germain and V. Breton and P. Clarysse and Y. Gaudeau and T. Glatard and E. Jeannot and Y. Legr\'e and C. Loomis and I. Magnin and J. Montagnat and J.-M. Moureau and A. Osorio and X. Pennec and R. Texier},
    doi = {10.1007/s10877-005-0679-9},
    hal-identifiant = {inria-00288871},
    journal = {Journal of Clinical Monitoring and Computing},
    month = {October},
    number = {4-5},
    pages = {339--349},
    pmid = {16328948},
    publisher = {Springer},
    title = {Grid-Enabling Medical Image Analysis},
    url-hal = {http://hal.inria.fr/inria-00288871/en/},
    url-publisher = {http://www.springerlink.com/openurl.asp?genre=article&issn=1387-1307&volume=19&issue=4&spage=339},
    volume = {19},
    year = {2005} 
    }
    


  12. Grégoire Malandain and Mauricio Reyes. La tomographie en mouvement. Pour la science, 338:132-137, December 2005.
    @article{malandain:pls:05,
    author = {Gr\'egoire Malandain and Mauricio Reyes},
    journal = {Pour la science},
    month = {December},
    pages = {132--137},
    title = {La tomographie en mouvement},
    url-hal = {https://hal.inria.fr/inria-00615669},
    url-publisher = {http://www.pourlascience.com/index.php?ids=WtziAfYhsmtvomeisOBp&Menu=Pls&Action=3&idn3=4915},
    volume = {338},
    year = {2005} 
    }
    


  13. J. Montagnat and H. Delingette. 4D Deformable Models with temporal constraints : application to 4D cardiac image segmentation. Medical Image Analysis, 9(1):87-100, February 2005.
    @article{Montagnat:Media:04,
    author = {J. Montagnat and H. Delingette},
    hal-identifiant = {hal-00443361},
    journal = {Medical Image Analysis},
    month = {February},
    number = {1},
    pages = {87--100},
    title = {4D Deformable Models with temporal constraints : application to 4D cardiac image segmentation},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/montagnat-Media04.pdf},
    url-hal = {http://hal.inria.fr/hal-00443361/en/},
    volume = {9},
    year = {2005} 
    }
    


  14. V Muthurangu, D Atkinson, M Sermesant, M E Miquel, S Hegde, R Johnson, R Andriantsimiavona, A M Taylor, E Baker, R Tulloh, D Hill, and R S Razavi. Measurement of total pulmonary arterial compliance using invasive pressure monitoring and MR flow quantification during MR-guided cardiac catheterization. American journal of physiology. Heart and circulatory physiology, 289(3):1301-1306, September 2005.
    Abstract:
    Pulmonary hypertensive disease is assessed by quantification of pulmonary vascular resistance. Pulmonary total arterial compliance is also an indicator of pulmonary hypertensive disease. However, because of difficulties in measuring compliance, it is rarely used. We describe a method of measuring pulmonary arterial compliance utilizing magnetic resonance (MR) flow data and invasive pressure measurements. Seventeen patients with suspected pulmonary hypertension or congenital heart disease requiring preoperative assessment underwent MR-guided cardiac catheterization. Invasive manometry was used to measure pulmonary arterial pressure, and phase-contrast MR was used to measure flow at baseline and at 20 ppm nitric oxide (NO). Total arterial compliance was calculated using the pulse pressure method (parameter optimization of the 2-element windkessel model) and the ratio of stroke volume to pulse pressure. There was good agreement between the two estimates of compliance (r = 0.98, P 10% in response to 20 ppm NO. As a population, the increase did not reach statistical significance. There was an inverse relation between compliance and resistance (r = 0.89, P < 0.001) and between compliance and mean pulmonary arterial pressure (r = 0.72, P < 0.001). We have demonstrated the feasibility of quantifying total arterial compliance using an MR method.

    @article{Muthurangu:AJP:05,
    abstract = {Pulmonary hypertensive disease is assessed by quantification of pulmonary vascular resistance. Pulmonary total arterial compliance is also an indicator of pulmonary hypertensive disease. However, because of difficulties in measuring compliance, it is rarely used. We describe a method of measuring pulmonary arterial compliance utilizing magnetic resonance (MR) flow data and invasive pressure measurements. Seventeen patients with suspected pulmonary hypertension or congenital heart disease requiring preoperative assessment underwent MR-guided cardiac catheterization. Invasive manometry was used to measure pulmonary arterial pressure, and phase-contrast MR was used to measure flow at baseline and at 20 ppm nitric oxide (NO). Total arterial compliance was calculated using the pulse pressure method (parameter optimization of the 2-element windkessel model) and the ratio of stroke volume to pulse pressure. There was good agreement between the two estimates of compliance (r = 0.98, P 10% in response to 20 ppm NO. As a population, the increase did not reach statistical significance. There was an inverse relation between compliance and resistance (r = 0.89, P < 0.001) and between compliance and mean pulmonary arterial pressure (r = 0.72, P < 0.001). We have demonstrated the feasibility of quantifying total arterial compliance using an MR method.},
    author = {V Muthurangu and D Atkinson and M Sermesant and M E Miquel and S Hegde and R Johnson and R Andriantsimiavona and A M Taylor and E Baker and R Tulloh and D Hill and R S Razavi},
    doi = {10.1152/ajpheart.00957.2004},
    journal = {American journal of physiology. Heart and circulatory physiology},
    month = {September},
    number = {3},
    pages = {1301-1306},
    title = {Measurement of total pulmonary arterial compliance using invasive pressure monitoring and MR flow quantification during MR-guided cardiac catheterization},
    url-hal = {https://hal.inria.fr/inria-00615658},
    url-publisher = {http://www.hubmed.org/display.cgi?uids=15879483},
    volume = {289},
    year = {2005} 
    }
    


  15. Stéphane Nicolau, Alain Garcia, Xavier Pennec, Luc Soler, and Nicholas Ayache. An augmented reality system to guide radio-frequency tumor ablation. Computer Animation and Virtual World (previously the Journal of Visualization and Computer Animation), 16(1):1-10, 2005.
    @article{Nicolau:CAVW:05,
    author = {St\'ephane Nicolau and Alain Garcia and Xavier Pennec and Luc Soler and Nicholas Ayache},
    doi = {10.1002/cav.52},
    journal = {Computer Animation and Virtual World (previously the Journal of Visualization and Computer Animation)},
    number = {1},
    pages = {1--10},
    publisher = {Wiley},
    title = {An augmented reality system to guide radio-frequency tumor ablation},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Nicolau.CAVW.pdf},
    url-hal = {https://hal.inria.fr/inria-00615660},
    url-publisher = {http://www3.interscience.wiley.com/cgi-bin/jtoc/106562739/},
    volume = {16},
    year = {2005} 
    }
    


  16. Xavier Pennec. Recaler pour mieux soigner. Pour la science, 338:126-131, December 2005.
    @article{Pennec:PLS:05,
    author = {Xavier Pennec},
    journal = {Pour la science},
    month = {December},
    pages = {126--131},
    title = {Recaler pour mieux soigner},
    url = {http://www-sop.inria.fr/members/Xavier.Pennec/Pennec.PLS05.pdf},
    url-hal = {https://hal.inria.fr/inria-00615670},
    url-publisher = {http://www.pourlascience.com/index.php?ids=WtziAfYhsmtvomeisOBp&Menu=Pls&Action=3&idn3=4914},
    volume = {338},
    year = {2005} 
    }
    


  17. K. Rhode, M. Sermesant, D. Brogan, S. Hegde, J. Hipwell, P. Lambiase, E. Rosenthal, C. Bucknall, S. Qureshi, J. Gill, R. Razavi, and D. Hill. A system for real-time XMR guided cardiovascular intervention. IEEE Transactions on Medical Imaging, 24(11):1428-1440, 2005.
    @article{Rhode:TMI:05,
    author = {K. Rhode and M. Sermesant and D. Brogan and S. Hegde and J. Hipwell and P. Lambiase and E. Rosenthal and C. Bucknall and S. Qureshi and J. Gill and R. Razavi and D. Hill},
    journal = {IEEE Transactions on Medical Imaging},
    number = {11},
    pages = {1428-1440},
    title = {A system for real-time XMR guided cardiovascular intervention},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/TMI2005Rhode.pdf},
    url-hal = {https://hal.inria.fr/inria-00615663},
    volume = {24},
    year = {2005} 
    }
    


  18. M. Sermesant, K. Rhode, G. Sanchez-Ortiz, O. Camara, R. Andriantsimiavona, S. Hegde, D. Rueckert, P. Lambiase, C. Bucknall, E. Rosenthal, H. Delingette, D. Hill, N. Ayache, and R. Razavi. Simulation of Cardiac Pathologies using an Electromechanical Biventricular Model and XMR Interventional Imaging. Medical Image Analysis, 9(5):467-480, 2005.
    @article{Sermesant:MEDIA:05,
    author = {M. Sermesant and K. Rhode and G. Sanchez-Ortiz and O. Camara and R. Andriantsimiavona and S. Hegde and D. Rueckert and P. Lambiase and C. Bucknall and E. Rosenthal and H. Delingette and D. Hill and N. Ayache and R. Razavi},
    journal = {Medical Image Analysis},
    number = {5},
    pages = {467--480},
    title = {Simulation of Cardiac Pathologies using an Electromechanical Biventricular Model and XMR Interventional Imaging},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/SermesantMEDIA2005.pdf},
    url-hal = {https://hal.inria.fr/inria-00615667},
    volume = {9},
    year = {2005} 
    }
    


  19. Radu Stefanescu, Xavier Pennec, and Nicholas Ayache. A Grid Service for the Interactive Use of a Parallel Non-Rigid Registration Algorithm of Medical Images. Methods of Information in Medicine, 44(2), 2005. Keyword(s): grid service, registration, non-rigid, parallel.
    @article{Stefanescu:MIM:05,
    author = {Radu Stefanescu and Xavier Pennec and Nicholas Ayache},
    journal = {Methods of Information in Medicine},
    keywords = {grid service, registration, non-rigid, parallel},
    number = {2},
    pmid = {15924183},
    title = {A Grid Service for the Interactive Use of a Parallel Non-Rigid Registration Algorithm of Medical Images},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Stefanescu/MIM04.pdf},
    url-publisher = {http://www.methods-online.com/zs/methods/artikel.asp?path=/zs/methods/2005/2/&nummer=me05020239},
    volume = {44},
    year = {2005} 
    }
    


  20. Xavier Pennec, Alexis Roche, Pascal Cathier, and Nicholas Ayache. Non-Rigid MR/US Registration for Tracking Brain Deformations. In R.S. Blum and Zh. Liu, editors, Multi-Sensor Image Fusion and Its Applications, volume 26 of Signal Processing and Communications, chapter 4, pages 107-143. CRC Press - Taylor and Francis, July 2005. Keyword(s): registration, matching, ultrasound, motion tracking, deformations, magnetic resonance, correlation ratio, robust estimation, multimodal.
    @incollection{Pennec:Fusion:05,
    author = {Xavier Pennec and Alexis Roche and Pascal Cathier and Nicholas Ayache},
    booktitle = {Multi-Sensor Image Fusion and Its Applications},
    chapter = {4},
    editor = {R.S. Blum and Zh. Liu},
    keywords = {registration, matching, ultrasound, motion tracking, deformations, magnetic resonance, correlation ratio, robust estimation, multimodal},
    month = {July},
    pages = {107--143},
    publisher = {CRC Press - Taylor and Francis},
    series = {Signal Processing and Communications},
    title = {Non-Rigid {MR/US} Registration for Tracking Brain Deformations},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Pennec.MRUS_Fusion.pdf},
    url-hal = {https://hal.inria.fr/inria-00615672},
    url-publisher = {http://www.crcpress.com/shopping_cart/products/product_detail.asp?sku=DK493X},
    volume = {26},
    year = {2005} 
    }
    


  21. A. Pitiot, H. Delingette, and P.M. Thompson. Automated Image Segmentation: Issues and Applications. In Cornelius T. Leondes, editor, Medical Imaging Systems Technology, volume 3. World Scientific, 2005.
    @incollection{pitiot:SegmentationReview:2005,
    author = {A. Pitiot and H. Delingette and P.M. Thompson},
    booktitle = {Medical Imaging Systems Technology},
    editor = {Cornelius T. Leondes},
    publisher = {World Scientific},
    title = {Automated Image Segmentation: Issues and Applications},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/leondes-segmentation-2004Aug09.pdf},
    url-hal = {https://hal.inria.fr/inria-00615671},
    volume = {3},
    year = {2005} 
    }
    


Conference articles

  1. Vincent Arsigny, Pierre Fillard, Xavier Pennec, and Nicholas Ayache. Fast and Simple Calculus on Tensors in the Log-Euclidean Framework. In J. Duncan and G. Gerig, editors, Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part I, volume 3749 of LNCS, Palm Springs, CA, USA, October 26-29, pages 115-122, 2005. Springer. Keyword(s): DT-MRI, Magnetic Resonance Imaging, Tensors, brain, Riemannian geometry, Lie group, regularization, interpolation, Log-Euclidean metrics.
    @inproceedings{Arsigny:MICCAI:05,
    address = {Palm Springs, CA, USA, October 26-29},
    author = {Vincent Arsigny and Pierre Fillard and Xavier Pennec and Nicholas Ayache},
    booktitle = {Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part I},
    doi = {10.1007/11566465_15},
    editor = {J. Duncan and G. Gerig},
    hal-identifiant = {inria-00502669},
    keywords = {DT-MRI, Magnetic Resonance Imaging, Tensors, brain, Riemannian geometry, Lie group, regularization, interpolation, Log-Euclidean metrics},
    pages = {115-122},
    pmid = {16685836},
    publisher = {Springer},
    series = {LNCS},
    title = {Fast and Simple Calculus on Tensors in the Log-{Euclidean} Framework},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Arsigny/arsigny_miccai05.pdf},
    url-hal = {http://hal.inria.fr/inria-00502669/en/},
    url-publisher = {http://springerlink.metapress.com/openurl.asp?genre=article&issn=0302-9743&volume=3749&spage=115},
    volume = {3749},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2005} 
    }
    


  2. M. A. Audette, H. Delingette, A. Fuchs, O. Burgert, and K. Chinzei. A topologically faithful, tissue-guided, spatially varying meshing strategy for computing patient-specific head models for endoscopic pituitary surgery simulation. In Computer Vision for Biomedical Image Applications (CVBIA), LNCS, Beijing, China, pages 178-188, 2005.
    @inproceedings{Audette:cvbia:2005,
    address = {Beijing, China},
    author = {M. A. Audette and H. Delingette and A. Fuchs and O. Burgert and K. Chinzei},
    booktitle = {Computer Vision for Biomedical Image Applications (CVBIA)},
    pages = {178-188},
    series = {LNCS},
    title = {A topologically faithful, tissue-guided, spatially varying meshing strategy for computing patient-specific head models for endoscopic pituitary surgery simulation},
    url-hal = {https://hal.inria.fr/inria-00615611},
    year = {2005} 
    }
    


  3. Eric Bardinet, Didier Dormont, Grégoire Malandain, Manik Bhattacharjee, Bernard Pidoux, Christian Saleh, Philippe Cornu, Nicholas Ayache, Yves Agid, and Jérôme Yelnik. Retrospective cross-evaluation of an histological and deformable 3D atlas of the basal ganglia on series of Parkinsonian patients treated by deep brain stimulation (DBS). In J. Duncan and G. Gerig, editors, Proceedings of MICCAI'05, volume 3750 of LNCS, Palm Springs, California, pages 385-393, 2005. Springer.
    @inproceedings{bardinet:miccai:2005,
    address = {Palm Springs, California},
    author = {Eric Bardinet and Didier Dormont and Gr\'egoire Malandain and Manik Bhattacharjee and Bernard Pidoux and Christian Saleh and Philippe Cornu and Nicholas Ayache and Yves Agid and J\'er\^ome Yelnik},
    booktitle = {Proceedings of MICCAI'05},
    doi = {10.1007/11566489_48},
    editor = {J. Duncan and G. Gerig},
    pages = {385--393},
    publisher = {Springer},
    series = {LNCS},
    title = {Retrospective cross-evaluation of an histological and deformable 3D atlas of the basal ganglia on series of Parkinsonian patients treated by deep brain stimulation (DBS)},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/bardinet-miccai-2005.pdf},
    url-hal = {https://hal.inria.fr/inria-00616005},
    volume = {3750},
    year = {2005} 
    }
    


  4. Ivan Bricault, Simon DiMaio, Olivier Clatz, Sonia Pujol, Kirby Vosburgh, and Ron Kikinis. Computer-Assisted Interventions on liver: Feasibility of the anchor needle technique for real-time targeting of lesions with respiratory motion. In Surgetica, Chambéry, January 2005.
    @inproceedings{bricault:sur:2005,
    address = {Chamb\'ery},
    author = {Ivan Bricault and Simon DiMaio and Olivier Clatz and Sonia Pujol and Kirby Vosburgh and Ron Kikinis},
    booktitle = {Surgetica},
    month = {January},
    title = {Computer-Assisted Interventions on liver: Feasibility of the anchor needle technique for real-time targeting of lesions with respiratory motion},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Clatz/Bricault_Surgetica.pdf},
    url-hal = {https://hal.inria.fr/inria-00616014},
    year = {2005} 
    }
    


  5. Arnaud Charnoz, Vincent Agnus, Grégoire Malandain, Clément Forest, Mohamed Tajine, and Luc Soler. Liver registration for the follow-up of hepatic tumors. In J. Duncan and G. Gerig, editors, Proceedings of MICCAI'05, volume 3750 of LNCS, Palm Springs, California, pages 155-162, 2005. Springer.
    @inproceedings{charnoz:miccai:2005,
    address = {Palm Springs, California},
    author = {Arnaud Charnoz and Vincent Agnus and Gr\'egoire Malandain and Cl\'ement Forest and Mohamed Tajine and Luc Soler},
    booktitle = {Proceedings of MICCAI'05},
    doi = {10.1007/11566489_20},
    editor = {J. Duncan and G. Gerig},
    pages = {155--162},
    publisher = {Springer},
    series = {LNCS},
    title = {Liver registration for the follow-up of hepatic tumors},
    url-hal = {https://hal.inria.fr/inria-00616006},
    volume = {3750},
    year = {2005} 
    }
    


  6. Arnaud Charnoz, Vincent Agnus, Grégoire Malandain, Luc Soler, and Mohamed Tajine. Tree Matching Applied to Vascular System. In Luc Brun and Mario Vento, editors, Graph-Based Representations in Pattern Recognition, volume 3434 of LNCS, pages 183-192, 2005. Springer.
    @inproceedings{charnoz:gbr:2005,
    author = {Arnaud Charnoz and Vincent Agnus and Gr\'egoire Malandain and Luc Soler and Mohamed Tajine},
    booktitle = {Graph-Based Representations in Pattern Recognition},
    doi = {10.1007/b107037},
    editor = {Luc Brun and Mario Vento},
    pages = {183--192},
    publisher = {Springer},
    series = {LNCS},
    title = {Tree Matching Applied to Vascular System},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/charnoz-gbr-2005.pdf},
    url-hal = {https://hal.inria.fr/inria-00615996},
    volume = {3434},
    year = {2005} 
    }
    


  7. Arnaud Charnoz, Vincent Agnus, Grégoire Malandain, Luc Soler, and Mohamed Tajine. Vascular system matching validated on the liver. In Gary Christensen and Milan Sonka, editors, Proc. of Information Processing in Medical Imaging 2005 (IPMI'05), volume 3565 of LNCS, Glenwood springs, Colorado, USA, pages 443-455, July 2005. Springer.
    @inproceedings{charnoz:ipmi:2005,
    address = {Glenwood springs, Colorado, USA},
    author = {Arnaud Charnoz and Vincent Agnus and Gr\'egoire Malandain and Luc Soler and Mohamed Tajine},
    booktitle = {Proc. of Information Processing in Medical Imaging 2005 (IPMI'05)},
    doi = {10.1007/11505730_37},
    editor = {Gary Christensen and Milan Sonka},
    month = {July},
    pages = {443--455},
    publisher = {Springer},
    series = {LNCS},
    title = {Vascular system matching validated on the liver},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/charnoz-ipmi-2005.pdf},
    volume = {3565},
    year = {2005} 
    }
    


  8. Olivier Clatz, Pierre-Yves Bondiau, Hervé Delingette, and Nicholas Ayache. Modélisation macroscopique de la croissance des tumeurs cérébrales. In Congrès Français de Mécanique (CFM), Troyes, August 2005.
    @inproceedings{Clatz:cfm:2005,
    address = {Troyes},
    author = {Olivier Clatz and Pierre-Yves Bondiau and Herv\'e Delingette and Nicholas Ayache},
    booktitle = {Congr\`es Fran\c{c}ais de M\'ecanique (CFM)},
    month = {August},
    title = {Mod\'elisation macroscopique de la croissance des tumeurs c\'er\'ebrales},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Clatz/cfm2005_clatz.pdf},
    year = {2005} 
    }
    


  9. Olivier Clatz, Hervé Delingette, Ion-Florin Talos, Alexandra J. Golby, Nicholas Ayache, Ron Kikinis, Ferenc A. Jolesz, and Simon K. Warfield. Hybrid Formulation of the Model-Based Non-Rigid Registration Problem to Improve Accuracy and Robustness. In J. Duncan and G. Gerig, editors, Proceedings of MICCAI'05, volume 3750 of LNCS, pages 295-302, October 2005. Springer.
    @inproceedings{Clatz:MICCAI:05,
    author = {Olivier Clatz and Herv\'e Delingette and Ion-Florin Talos and Alexandra J. Golby and Nicholas Ayache and Ron Kikinis and Ferenc A. Jolesz and Simon K. Warfield},
    booktitle = {Proceedings of MICCAI'05},
    doi = {10.1007/11566489_37},
    editor = {J. Duncan and G. Gerig},
    month = {October},
    pages = {295--302},
    publisher = {Springer},
    series = {LNCS},
    title = {Hybrid Formulation of the Model-Based Non-Rigid Registration Problem to Improve Accuracy and Robustness},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Clatz/MICCAI_2005_clatz.pdf},
    url-hal = {https://hal.inria.fr/inria-00616007},
    volume = {3750},
    year = {2005} 
    }
    


  10. O. Colliot, T. Mansi, N. Bernasconi, V. Naessens, D. Klironomos, and A. Bernasconi. A level set driven by MR features of focal cortical dysplasia for lesion segmentation. In Medical Image Understanding and Analysis (MIUA), pages 239-242, 2005.
    @inproceedings{colliot05:MIUA,
    author = {O. Colliot and T. Mansi and N. Bernasconi and V. Naessens and D. Klironomos and A. Bernasconi},
    booktitle = {Medical Image Understanding and Analysis (MIUA)},
    pages = {239-242},
    title = {A level set driven by MR features of focal cortical dysplasia for lesion segmentation},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tommaso.Mansi/colliot05MIUA.pdf},
    url-hal = {https://hal.inria.fr/inria-00616016},
    year = {2005} 
    }
    


  11. O. Colliot, T. Mansi, N. Bernasconi, V. Naessens, D. Klironomos, and A. Bernasconi. Segmentation of Focal Cortical Dysplasia Lesions Using a Feature-Based Level Set. In Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'05), volume 3749 of Lecture Notes in Computer Science, Palm Springs (CA), USA, pages 375-382, 2005. Springer.
    Abstract:
    Focal cortical dysplasia (FCD), a malformation of cortical development, is an important cause of medically intractable epilepsy. FCD lesions are difficult to distinguish from non-lesional cortex and their delineation on MRI is a challenging task. This paper presents a method to segment FCD lesions on T1-weighted MRI, based on a 3D deformable model, implemented using the level set framework. The deformable model is driven by three MRI features: cortical thickness, relative intensity and gradient. These features correspond to the visual characteristics of FCD and allow to differentiate lesions from normal tissues. The proposed method was tested on 18 patients with FCD and its performance was quantitatively evaluated by comparison with the manual tracings of two trained raters. The validation showed that the similarity between the level set segmentation and the manual labels is similar to the agreement between the two human raters. This new approach may become a useful tool for the presurgical evaluation of patients with intractable epilepsy.

    @inproceedings{colliot05:MICCAI,
    abstract = {Focal cortical dysplasia (FCD), a malformation of cortical development, is an important cause of medically intractable epilepsy. FCD lesions are difficult to distinguish from non-lesional cortex and their delineation on MRI is a challenging task. This paper presents a method to segment FCD lesions on T1-weighted MRI, based on a 3D deformable model, implemented using the level set framework. The deformable model is driven by three MRI features: cortical thickness, relative intensity and gradient. These features correspond to the visual characteristics of FCD and allow to differentiate lesions from normal tissues. The proposed method was tested on 18 patients with FCD and its performance was quantitatively evaluated by comparison with the manual tracings of two trained raters. The validation showed that the similarity between the level set segmentation and the manual labels is similar to the agreement between the two human raters. This new approach may become a useful tool for the presurgical evaluation of patients with intractable epilepsy.},
    address = {Palm Springs (CA), USA},
    author = {O. Colliot and T. Mansi and N. Bernasconi and V. Naessens and D. Klironomos and A. Bernasconi},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'05)},
    doi = {10.1007/11566465_47},
    pages = {375-382},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Segmentation of Focal Cortical Dysplasia Lesions Using a Feature-Based Level Set},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tommaso.Mansi/colliot05MICCAI.pdf},
    url-hal = {https://hal.inria.fr/inria-00616015},
    volume = {3749},
    year = {2005} 
    }
    


  12. Olivier Commowick, Radu Stefanescu, Pierre Fillard, Vincent Arsigny, Nicholas Ayache, Xavier Pennec, and Grégoire Malandain. Incorporating Statistical Measures of Anatomical Variability in Atlas-to-Subject Registration for Conformal Brain Radiotherapy. In J. Duncan and G. Gerig, editors, Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part II, volume 3750 of LNCS, Palm Springs, CA, USA, October 26-29, pages 927-934, 2005. Springer. Keyword(s): registration, brain, Brain Stem, statistics, validation, Tensors.
    Annotation:
    Erratum: The tensor $W_j$ should be defined as $W_j = J^T.J$ and not as $W_j = J.J^T$.

    @inproceedings{Commowick:MICCAI:05,
    address = {Palm Springs, CA, USA, October 26-29},
    annote = {Erratum: The tensor $W_j$ should be defined as $W_j = J^T.J$ and not as $W_j = J.J^T$.},
    author = {Olivier Commowick and Radu Stefanescu and Pierre Fillard and Vincent Arsigny and Nicholas Ayache and Xavier Pennec and Gr\'egoire Malandain},
    booktitle = {Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part II},
    doi = {10.1007/11566489_114},
    editor = {J. Duncan and G. Gerig},
    hal-identifiant = {inria-00502673},
    keywords = {registration, brain, Brain Stem, statistics, validation, Tensors},
    pages = {927--934},
    pmid = {16686049},
    publisher = {Springer},
    series = {LNCS},
    title = {Incorporating Statistical Measures of Anatomical Variability in Atlas-to-Subject Registration for Conformal Brain Radiotherapy},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Commowick/CommowickMiccai05.pdf},
    url-hal = {http://hal.inria.fr/inria-00502673/en/},
    url-publisher = {http://springerlink.metapress.com/openurl.asp?genre=article&issn=0302-9743&volume=3750&spage=927},
    volume = {3750},
    year = {2005} 
    }
    


  13. Pierre Fillard, Vincent Arsigny, Nicholas Ayache, and Xavier Pennec. A Riemannian Framework for the Processing of Tensor-Valued Images. In Ole Fogh Olsen, Luc Florak, and Arjan Kuijper, editors, Deep Structure, Singularities, and Computer Vision (DSSCV), LNCS, pages 112-123, June 2005. Springer. Keyword(s): Tensors, Riemannian geometry, Structure tensors, regularization.
    @inproceedings{Fillard:DSSCV:05,
    author = {Pierre Fillard and Vincent Arsigny and Nicholas Ayache and Xavier Pennec},
    booktitle = {Deep Structure, Singularities, and Computer Vision (DSSCV)},
    doi = {10.1007/11577812_10},
    editor = {Ole Fogh Olsen and Luc Florak and Arjan Kuijper},
    keywords = {Tensors, Riemannian geometry, Structure tensors, regularization},
    month = {June},
    pages = {112--123},
    publisher = {Springer},
    series = {LNCS},
    title = {A {R}iemannian Framework for the Processing of Tensor-Valued Images},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Fillard/Fillard.DSSCV05.pdf},
    url-hal = {https://hal.inria.fr/inria-00615994},
    url-publisher = {www.springerlink.com/openurl.asp?genre=article&issn=0302-9743&volume=3753&spage=112},
    year = {2005} 
    }
    


  14. Pierre Fillard, Vincent Arsigny, Xavier Pennec, Paul M. Thompson, and Nicholas Ayache. Extrapolation of Sparse Tensor Fields: Application to the Modeling of Brain Variability. In Gary Christensen and Milan Sonka, editors, Proc. of Information Processing in Medical Imaging 2005 (IPMI'05), volume 3565 of LNCS, Glenwood springs, Colorado, USA, pages 27-38, July 2005. Springer. Keyword(s): Sucal lines, Riemannian geometry, brain, Modeling of anatomical variability, Tensors.
    @inproceedings{Fillard:IPMI:05,
    address = {Glenwood springs, Colorado, USA},
    author = {Pierre Fillard and Vincent Arsigny and Xavier Pennec and Paul M. Thompson and Nicholas Ayache},
    booktitle = {Proc. of Information Processing in Medical Imaging 2005 (IPMI'05)},
    doi = {10.1007/11505730_3},
    editor = {Gary Christensen and Milan Sonka},
    hal-identifiant = {inria-00502688},
    keywords = {Sucal lines, Riemannian geometry, brain, Modeling of anatomical variability, Tensors},
    month = {July},
    pages = {27--38},
    pmid = {17354682},
    publisher = {Springer},
    series = {LNCS},
    title = {Extrapolation of Sparse Tensor Fields: Application to the Modeling of Brain Variability},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Fillard/Fillard.IPMI05.pdf},
    url-hal = {http://hal.inria.fr/inria-00502688/en/},
    url-publisher = {http://www.springerlink.com/openurl.asp?genre=article&issn=0302-9743&volume=3565&spage=27},
    volume = {3565},
    year = {2005} 
    }
    


  15. Cécile Germain, Vincent Breton, Patrick Clarysse, Y. Gaudeau, Tristan Glatard, Emmanuel Jeannot, Yannick Legré, Charles Loomis, Johan Montagnat, Jean-Marie Moureau, Angel Osorio, Xavier Pennec, and Romain Texier. Grid-enabling medical image analysis. In proceedings of the IEEE/ACM International Symposium on Cluster Computing and the Grid (CCGRID'05), volume 1, Cardiff, UK, pages 487-495, May 2005. IEEE.
    @inproceedings{Germain:biogrid:2005,
    address = {Cardiff, UK},
    author = {C\'ecile Germain and Vincent Breton and Patrick Clarysse and Y. Gaudeau and Tristan Glatard and Emmanuel Jeannot and Yannick Legr\'e and Charles Loomis and Johan Montagnat and Jean-Marie Moureau and Angel Osorio and Xavier Pennec and Romain Texier},
    booktitle = {proceedings of the IEEE/ACM International Symposium on Cluster Computing and the Grid (CCGRID'05)},
    doi = {10.1109/CCGRID.2005.1558593},
    hal-identifiant = {hal-00166971},
    month = {May},
    pages = {487-495},
    publisher = {IEEE},
    title = {Grid-enabling medical image analysis},
    url = {http://www.i3s.unice.fr/~johan/publis/Biogrid05.pdf},
    url-hal = {https://hal.inria.fr/inria-00174284},
    volume = {1},
    year = {2005} 
    }
    


  16. Tristan Glatard, Johan Montagnat, and Xavier Pennec. Grid-enabled workflows for data intensive applications. In Proc. 18th IEEE Symp. on Computer Based Medical Systems (CBMS'05), Dublin, Ireland, June 23-24, pages 537-542, 2005. IEEE.
    @inproceedings{Glatard:CBMS:2005,
    author = {Tristan Glatard and Johan Montagnat and Xavier Pennec},
    booktitle = {Proc. 18th IEEE Symp. on Computer Based Medical Systems (CBMS'05), Dublin, Ireland, June 23-24},
    doi = {10.1109/CBMS.2005.61},
    pages = {537-542},
    publisher = {IEEE},
    title = {Grid-enabled workflows for data intensive applications},
    url = {www.i3s.unice.fr/~johan/publis/CBMS05.pdf},
    year = {2005} 
    }
    


  17. M. A. González Ballester, M.G. Linguraru, M. Reyes Aguirre, and N. Ayache. On the Adequacy of Principal Factor Analysis for the Study of Shape Variability. In J.M. Fitzpatrick and J.M. Reinhardt, editors, SPIE Medical Imaging '05, volume 5747, pages 1392-1399, 2005. SPIE Publishing.
    @inproceedings{Gonzalez:SPIE:05,
    author = {Gonz\'alez Ballester, M. A. and M.G. Linguraru and Reyes Aguirre, M. and N. Ayache},
    booktitle = {SPIE Medical Imaging '05},
    editor = {J.M. Fitzpatrick and J.M. Reinhardt},
    pages = {1392--1399},
    publisher = {SPIE Publishing},
    title = {On the Adequacy of Principal Factor Analysis for the Study of Shape Variability},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gonzalez/Gonzalez_SPIE_2005.pdf},
    url-hal = {https://hal.inria.fr/inria-00616012},
    volume = {5747},
    year = {2005} 
    }
    


  18. S. Haïk, D. Galanaud, B.A. Faucheux, N. Privat, I. Laffont-Proust, M.G. Linguraru, N. Ayache, J.J. Hauw, D. Dormont, and J.P. Brandel. Early diagnosis of human TSE by multimodality MRI: Spectroscopic detection of thalamic gliosis in a patient with FFI and normal FLAIR and diffusion-weighted imaging. In Proceedings of Prions 2005: Between Fundamentals and Society's Needs, pages 176, 2005.
    @inproceedings{Haik:PRIONS:2005,
    author = {S. Ha\"ik and D. Galanaud and B.A. Faucheux and N. Privat and I. Laffont-Proust and M.G. Linguraru and N. Ayache and J.J. Hauw and D. Dormont and J.P. Brandel},
    booktitle = {Proceedings of Prions 2005: Between Fundamentals and Society's Needs},
    pages = {176},
    title = {Early diagnosis of human TSE by multimodality MRI: Spectroscopic detection of thalamic gliosis in a patient with FFI and normal FLAIR and diffusion-weighted imaging},
    url-hal = {https://hal.inria.fr/inria-00616010},
    year = {2005} 
    }
    


  19. S. Haïk, D. Galanaud, B.A. Faucheux, N. Privat, M.G. Linguraru, N. Ayache, J.J. Hauw, D. Dormont, and J.P. Brandel. Early diagnosis of human TSE by multimodality MRI: Spectroscopic detection of thalamic gliosis in a patient with FFI and normal FLAIR and diffusion-weighted imaging. In II International Symposium on The New Prion Biology: Basic Science, Diagnosis and Therapy, Venice, Italy, April 2005.
    @inproceedings{haik:istnpb:2005,
    address = {Venice, Italy},
    author = {S. Ha\"ik and D. Galanaud and B.A. Faucheux and N. Privat and M.G. Linguraru and N. Ayache and J.J. Hauw and D. Dormont and J.P. Brandel},
    booktitle = {II International Symposium on The New Prion Biology: Basic Science, Diagnosis and Therapy},
    month = {April},
    title = {Early diagnosis of human TSE by multimodality MRI: Spectroscopic detection of thalamic gliosis in a patient with FFI and normal FLAIR and diffusion-weighted imaging},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/ISTNPB2005.pdf},
    url-hal = {https://hal.inria.fr/inria-00616010},
    year = {2005} 
    }
    


  20. Heike Hufnagel, Xavier Pennec, Grégoire Malandain, Hans Handels, and Nicholas Ayache. Non-Linear 2D and 3D Registration Using Block-Matching and B-Splines. In Bildverarbeitung fuer die Medizin 2005, Informatik aktuell, Heidelberg, Germany, pages 325-329, March 2005. Deutsches Krebsforschungszentrum, Springer.
    @inproceedings{hufnagel:bvm:2005,
    address = {Heidelberg, Germany},
    author = {Heike Hufnagel and Xavier Pennec and Gr\'egoire Malandain and Hans Handels and Nicholas Ayache},
    booktitle = {Bildverarbeitung fuer die Medizin 2005},
    doi = {10.1007/3-540-26431-0_67},
    month = {March},
    organization = {Deutsches Krebsforschungszentrum},
    pages = {325-329},
    publisher = {Springer},
    series = {Informatik aktuell},
    title = {Non-Linear 2D and 3D Registration Using Block-Matching and B-Splines},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Heike.Hufnagel/huf_bvm05.pdf},
    url-hal = {https://hal.inria.fr/inria-00615991},
    year = {2005} 
    }
    


  21. M.G. Linguraru, N. Ayache, M.A. González Ballester, E. Bardinet, D. Galanaud, S. Haïk, B.A. Faucheux, P. Cozzone, D. Dormont, and J.P. Brandel. New Ratios for the Detection and Classification of CJD in Multisequence MRI of the Brain. In J. Duncan and G. Gerig, editors, Medical Image Computing and Computer-Assisted Intervention, MICCAI 2005, volume 3750 of LNCS, Palm Springs, USA, pages 492-499, 2005. Springer.
    @inproceedings{Linguraru:MICCAI:2005,
    address = {Palm Springs, USA},
    author = {M.G. Linguraru and N. Ayache and M.A. Gonz\'alez Ballester and E. Bardinet and D. Galanaud and S. Ha\"ik and B.A. Faucheux and P. Cozzone and D. Dormont and J.P. Brandel},
    booktitle = {Medical Image Computing and Computer-Assisted Intervention, MICCAI 2005},
    doi = {10.1007/11566489_61},
    editor = {J. Duncan and G. Gerig},
    hal-identifiant = {hal-00092642},
    pages = {492--499},
    publisher = {Springer},
    series = {LNCS},
    title = {New Ratios for the Detection and Classification of CJD in Multisequence MRI of the Brain},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Linguraru/Linguraru_MICCAI_2005.pdf},
    url-hal = {http://hal.inria.fr/hal-00092642/en/},
    volume = {3750},
    year = {2005} 
    }
    


  22. M.G. Linguraru, P.M Novotny, and R.D. Howe. Enhancement of Instrument Appearance in Ultrasound Images by Distribution and Spatial Analysis. In Medical Image Computing and Computer-Assisted Intervention, MICCAI 2005, Palm Springs, USA, 2005. Note: Short paper.
    @inproceedings{Linguraru:MICCAI:2005:2,
    address = {Palm Springs, USA},
    author = {M.G. Linguraru and P.M Novotny and R.D. Howe},
    booktitle = {Medical Image Computing and Computer-Assisted Intervention, MICCAI 2005},
    note = {short paper},
    title = {Enhancement of Instrument Appearance in Ultrasound Images by Distribution and Spatial Analysis},
    year = {2005} 
    }
    


  23. K. Marias, M.G. Linguraru, M.A. González Ballester, S. Petroudi, M. Tsiknakis, and J.M. Brady. Automatic Labelling and BI-RADS Characterisation of Mammogram Densities. In Proceedings of 27th IEEE Engineering in Medicine and Biology Society (EMBS) Annual International Conference, IEEE, Shanghai, China, 2005.
    @inproceedings{Linguraru:EMBC:2005,
    address = {Shanghai, China},
    author = {K. Marias and M.G. Linguraru and M.A. Gonz\'alez Ballester and S. Petroudi and M. Tsiknakis and J.M. Brady},
    booktitle = {Proceedings of 27th IEEE Engineering in Medicine and Biology Society (EMBS) Annual International Conference},
    series = {IEEE},
    title = {Automatic Labelling and BI-RADS Characterisation of Mammogram Densities},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Linguraru/Linguraru_EMBC_2005.pdf},
    year = {2005} 
    }
    


  24. Valérie Moreau-Villéger, Hervé Delingette, Maxime Sermesant, Hiroshi Ashikaga, Owen Faris, Elliot McVeigh, and Nicholas Ayache. Estimating Local Apparent Conductivity with a 2-D Electrophysiological Model of the Heart. In Proc. of Functional Imaging and Modeling of the Heart 2005 (FIMH'O5), volume 3504 of LNCS, pages 256-266, June 2005. Springer.
    @inproceedings{Moreau:FIMH05,
    author = {Val\'erie Moreau-Vill\'eger and Herv\'e Delingette and Maxime Sermesant and Hiroshi Ashikaga and Owen Faris and Elliot McVeigh and Nicholas Ayache},
    booktitle = {Proc. of Functional Imaging and Modeling of the Heart 2005 (FIMH'O5)},
    doi = {10.1007/11494621_26},
    month = {June},
    pages = {256-266},
    publisher = {Springer},
    series = {LNCS},
    title = {Estimating Local Apparent Conductivity with a 2-D Electrophysiological Model of the Heart},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Moreau/moreauFimh05.pdf},
    url-hal = {https://hal.inria.fr/inria-00616001},
    volume = {3504},
    year = {2005} 
    }
    


  25. Stéphane Nicolau, Xavier Pennec, Luc Soler, and Nicholas Ayache. A complete Augmented Reality Guidance System for Liver Punctures: First Clinical Evaluation. In J. Duncan and G. Gerig, editors, Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part I, volume 3749 of LNCS, Palm Springs, CA, USA, October 26-29, pages 539-547, 2005. Springer.
    @inproceedings{Nicolau:MICCAI:05,
    address = {Palm Springs, CA, USA, October 26-29},
    author = {St\'ephane Nicolau and Xavier Pennec and Luc Soler and Nicholas Ayache},
    booktitle = {Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part I},
    doi = {10.1007/11566465_67},
    editor = {J. Duncan and G. Gerig},
    pages = {539--547},
    pmid = {16685888},
    publisher = {Springer},
    series = {LNCS},
    title = {A complete Augmented Reality Guidance System for Liver Punctures: First Clinical Evaluation},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Nicolau.MICCAI05.pdf},
    url-hal = {https://hal.inria.fr/inria-00616011},
    url-publisher = {http://springerlink.metapress.com/openurl.asp?genre=article&issn=0302-9743&volume=3749&spage=539},
    volume = {3749},
    year = {2005} 
    }
    


  26. P.M. Novotny, M.G. Linguraru, G. Marx, P. Del Nido, and R.D. Howe. Using Real-Time Three-Dimensional Ultrasound to Characterize Mitral Valve Motion. In Proceedings of Biomedical Engineering Society - BMES 2005, Baltimore, USA, pages 1302, 2005.
    @inproceedings{Linguraru:BMES:2005,
    address = {Baltimore, USA},
    author = {P.M. Novotny and M.G. Linguraru and G. Marx and P. Del Nido and R.D. Howe},
    booktitle = {Proceedings of Biomedical Engineering Society - BMES 2005},
    pages = {1302},
    title = {Using Real-Time Three-Dimensional Ultrasound to Characterize Mitral Valve Motion},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Linguraru/Linguraru_BMES_2005.pdf},
    year = {2005} 
    }
    


  27. Xavier Pennec, Radu Stefanescu, Vincent Arsigny, Pierre Fillard, and Nicholas Ayache. Riemannian Elasticity: A statistical regularization framework for non-linear registration. In J. Duncan and G. Gerig, editors, Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part II, volume 3750 of LNCS, Palm Springs, CA, USA, October 26-29, pages 943-950, 2005. Springer. Keyword(s): registration, statistics, Tensors, Riemannian geometry, brain.
    @inproceedings{Pennec:MICCAI:05,
    address = {Palm Springs, CA, USA, October 26-29},
    author = {Xavier Pennec and Radu Stefanescu and Vincent Arsigny and Pierre Fillard and Nicholas Ayache},
    booktitle = {Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part II},
    doi = {10.1007/11566489_116},
    editor = {J. Duncan and G. Gerig},
    hal-identifiant = {inria-00502675},
    keywords = {registration, statistics, Tensors, Riemannian geometry, brain},
    pages = {943--950},
    pmid = {16686051},
    publisher = {Springer},
    series = {LNCS},
    title = {{Riemannian} Elasticity: A statistical regularization framework for non-linear registration},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Pennec.MICCAI05.pdf},
    url-hal = {http://hal.inria.fr/inria-00502675/en/},
    url-publisher = {http://springerlink.metapress.com/openurl.asp?genre=article&issn=0302-9743&volume=3750&spage=943},
    volume = {3750},
    year = {2005} 
    }
    


  28. Mauricio Reyes, Grégoire Malandain, Jacques Darcourt, and Pierre Malick Koulibaly. Respiratory Motion Correction in Emission Tomography Imaging. In Fully Three-Dimensional Image Reconstruction Meeting in Radiology and Nuclear Medicine, Salt Lake City, Utah, USA, July 2005.
    @inproceedings{reyes:3d:2005,
    address = {Salt Lake City, Utah, USA},
    author = {Mauricio Reyes and Gr\'egoire Malandain and Jacques Darcourt and Pierre Malick Koulibaly},
    booktitle = {Fully Three-Dimensional Image Reconstruction Meeting in Radiology and Nuclear Medicine},
    month = {July},
    title = {Respiratory Motion Correction in Emission Tomography Imaging},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Reyes/mreyes-3DFull05.pdf},
    url-hal = {https://hal.inria.fr/inria-00615995},
    year = {2005} 
    }
    


  29. Mauricio Reyes, Grégoire Malandain, Pierre Malick Koulibaly, Miguel A. González Ballester, and Jacques Darcourt. Respiratory Motion Correction in Emission Tomography Image Reconstruction. In J. Duncan and G. Gerig, editors, Proceedings of MICCAI'05, Part II, volume 3750 of LNCS, Palm Springs, California, pages 369-376, 2005. Springer.
    @inproceedings{reyes:miccai:2005,
    address = {Palm Springs, California},
    author = {Mauricio Reyes and Gr\'egoire Malandain and Pierre Malick Koulibaly and Gonz\'alez Ballester, Miguel A. and Jacques Darcourt},
    booktitle = {Proceedings of MICCAI'05, Part II},
    doi = {10.1007/11566489_46},
    editor = {J. Duncan and G. Gerig},
    pages = {369--376},
    publisher = {Springer},
    series = {LNCS},
    title = {Respiratory Motion Correction in Emission Tomography Image Reconstruction},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Reyes/mreyes-miccai05.pdf},
    url-hal = {https://hal.inria.fr/inria-00616009},
    url-publisher = {http://www.springerlink.com/(yxodh055umd2ptalzv4tq145)/app/home/contribution.asp?referrer=parent&backto=issue,46,123;journal,4,2225;linkingpublicationresults,1:105633,1},
    volume = {3750},
    year = {2005} 
    }
    


  30. Gilles Scarella, Olivier Clatz, Stéphane Lanteri, Grégory Beaume, Steve Oudot, Jean-Philippe Pons, Serge Piperno, Patrick Joly, and Joe Wiart. Realistic numerical modeling of human head tissues exposure to electromagnetic waves from mobiles phones. In Seventh International Conference on Mathematical and Numerical Aspects of Wave Propagation, Brown University, Rhode Island, June 20-24 2005.
    @inproceedings{scarella:wave:05,
    address = {Brown University, Rhode Island},
    author = {Gilles Scarella and Olivier Clatz and St\'ephane Lanteri and Gr\'egory Beaume and Steve Oudot and Jean-Philippe Pons and Serge Piperno and Patrick Joly and Joe Wiart},
    booktitle = {Seventh International Conference on Mathematical and Numerical Aspects of Wave Propagation},
    month = {June 20-24},
    title = {Realistic numerical modeling of human head tissues exposure to electromagnetic waves from mobiles phones},
    url-hal = {https://hal.inria.fr/inria-00616013},
    year = {2005} 
    }
    


  31. M. Sermesant, Y. Coudière, V. Moreau-Villéger, K.S. Rhode, D.L.G Hill, and R. Razavi. A Fast-Marching Approach to Cardiac Electrophysiology Simulation for XMR Interventional Imaging. In Proceedings of MICCAI'05, volume 3750 of LNCS, Palm Springs, California, pages 607-615, 2005. Springer.
    @inproceedings{Sermesant:miccai05,
    address = {Palm Springs, California},
    author = {M. Sermesant and Y. Coudi\`ere and V. Moreau-Vill\'eger and K.S. Rhode and D.L.G Hill and R. Razavi},
    booktitle = {Proceedings of MICCAI'05},
    doi = {10.1007/11566489_75},
    pages = {607--615},
    publisher = {Springer},
    series = {LNCS},
    title = {A Fast-Marching Approach to Cardiac Electrophysiology Simulation for XMR Interventional Imaging},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/MICCAI2005Sermesant.pdf},
    url-hal = {https://hal.inria.fr/inria-00616008},
    volume = {3750},
    year = {2005} 
    }
    


  32. Maxime Sermesant, Philippe Moireau, Oscar Camara, Jacques Sainte-Marie, Rado Andriantsimiavona, Robert Cimrman, Derek L. G. Hill, Dominique Chapelle, and Reza Razavi. Cardiac Function Estimation from MRI Using a Heart Model and Data Assimilation: Advances and Difficulties. In Proc. of Functional Imaging and Modeling of the Heart 2005 (FIMH'O5), volume 3504 of LNCS, pages 325-337, June 2005. Springer.
    @inproceedings{Sermesant:FIMH05,
    author = {Maxime Sermesant and Philippe Moireau and Oscar Camara and Jacques Sainte-Marie and Rado Andriantsimiavona and Robert Cimrman and Derek L. G. Hill and Dominique Chapelle and Reza Razavi},
    booktitle = {Proc. of Functional Imaging and Modeling of the Heart 2005 (FIMH'O5)},
    doi = {DOI:10.1007/11494621_26},
    month = {June},
    pages = {325-337},
    publisher = {Springer},
    series = {LNCS},
    title = {Cardiac Function Estimation from MRI Using a Heart Model and Data Assimilation: Advances and Difficulties},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/SermesantFIMH2005.pdf},
    volume = {3504},
    year = {2005} 
    }
    


  33. Tom Vercauteren, Aymeric Perchant, Xavier Pennec, and Nicholas Ayache. Mosaicing of Confocal Microscopic In Vivo Soft Tissue Video Sequences. In J. Duncan and G. Gerig, editors, Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part I, volume 3749 of LNCS, Palm Springs, CA, USA, October 26-29, pages 753-760, October 2005. Springer.
    @inproceedings{Vercauteren:MICCAI:05,
    address = {Palm Springs, CA, USA, October 26-29},
    author = {Tom Vercauteren and Aymeric Perchant and Xavier Pennec and Nicholas Ayache},
    booktitle = {Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part I},
    doi = {10.1007/11566465_93},
    editor = {J. Duncan and G. Gerig},
    hal-identifiant = {inria-00166791},
    month = {October},
    pages = {753--760},
    pmid = {16685914},
    publisher = {Springer},
    series = {LNCS},
    title = {Mosaicing of Confocal Microscopic In Vivo Soft Tissue Video Sequences},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tom.Vercauteren/mosaicing_miccai05_vercauteren.pdf},
    url-hal = {https://hal.inria.fr/inria-00166791},
    volume = {3749},
    year = {2005} 
    }
    


  34. Christopher Wagner, Olivier Clatz, Ross Feller, Douglas Perrin, Hervé Delingette, Nicholas Ayache, and Robert Howe. Integrating Tactile and Force Feedback with Finite Element Models. In International Conference on Robotics and Automation (ICRA'05), Barcelona, April 2005.
    @inproceedings{Wagner:icra:2005,
    address = {Barcelona},
    author = {Christopher Wagner and Olivier Clatz and Ross Feller and Douglas Perrin and Herv\'e Delingette and Nicholas Ayache and Robert Howe},
    booktitle = {International Conference on Robotics and Automation (ICRA'05)},
    month = {April},
    title = {Integrating Tactile and Force Feedback with Finite Element Models},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/icra2005-wagner.pdf},
    url-hal = {https://hal.inria.fr/inria-00615998},
    year = {2005} 
    }
    


Internal reports

  1. Vincent Arsigny, Pierre Fillard, Xavier Pennec, and Nicholas Ayache. Fast and Simple Computations on Tensors with Log-Euclidean Metrics. Research report RR-5584, INRIA, Sophia-Antipolis, France, May 2005. Keyword(s): DT-MRI, Magnetic Resonance Imaging, Tensors, brain, Riemannian geometry, Lie group, regularization, extrapolation, interpolation.
    @techreport{Arsigny:RRTensors:05,
    address = {Sophia-Antipolis, France},
    author = {Vincent Arsigny and Pierre Fillard and Xavier Pennec and Nicholas Ayache},
    hal-identifiant = {inria-00070423},
    institution = {INRIA},
    keywords = {DT-MRI, Magnetic Resonance Imaging, Tensors, brain, Riemannian geometry, Lie group, regularization, extrapolation, interpolation},
    month = {May},
    number = {RR-5584},
    postscript = {ftp://ftp.inria.fr/INRIA/publication/publi-ps-gz/RR/RR-5584.ps.gz},
    title = {Fast and Simple Computations on Tensors with Log-{Euclidean} Metrics},
    type = {Research report},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Arsigny/arsigny_rr_tensors.pdf},
    url-hal = {http://hal.inria.fr/inria-00070423/en/},
    url-publisher = {http://www.inria.fr/rrrt/rr-5584.html},
    year = {2005} 
    }
    


  2. Jonathan Boisvert. Système de navigation 3D pour les chirurgies minimalement invasives du rachis. Research Report (Candidacy Examination Report), École Polytechnique de Montréal, 2005.
    @techreport{boisvert:navsystem,
    author = {Jonathan Boisvert},
    institution = {\'Ecole Polytechnique de Montr\'eal},
    title = {Syst\`eme de navigation 3D pour les chirurgies minimalement invasives du rachis},
    type = {Research Report (Candidacy Examination Report)},
    year = {2005} 
    }
    


  3. Pierre Fillard, Vincent Arsigny, Xavier Pennec, and Nicholas Ayache. Joint Estimation and Smoothing of Clinical DT-MRI with a Log-Euclidean Metric. Research report RR-5607, INRIA, Sophia-Antipolis, France, June 2005. Keyword(s): tensors, DT-MRI, DTI, estimation, regularization, fiber tracking, Log-Euclidean, Riemannian geometry.
    @techreport{Fillard:RREstimation:05,
    address = {Sophia-Antipolis, France},
    author = {Pierre Fillard and Vincent Arsigny and Xavier Pennec and Nicholas Ayache},
    hal-identifiant = {inria-00070400},
    institution = {INRIA},
    keywords = {tensors, DT-MRI, DTI, estimation, regularization, fiber tracking, Log-Euclidean, Riemannian geometry},
    month = {June},
    number = {RR-5607},
    postscript = {ftp://ftp.inria.fr/INRIA/publication/publi-ps-gz/RR/RR-5607.ps.gz},
    title = {Joint Estimation and Smoothing of Clinical {DT-MRI} with a Log-{Euclidean} Metric},
    type = {Research report},
    url = {ftp://ftp.inria.fr/INRIA/publication/publi-pdf/RR/RR-5607.pdf},
    url-hal = {http://hal.inria.fr/inria-00070400/en/},
    url-publisher = {http://www.inria.fr/rrrt/rr-5607.html},
    year = {2005} 
    }
    


  4. Céline Fouard, Grégoire Malandain, Steffen Prohaska, and Malte Westerhoff. Blockwise processing applied to brain micro-vascular network study. Research report RR-5581, INRIA, 2005. Keyword(s): image mosaic, digital topology, chamfer map, medial axis, skeleton, topological thinning.
    Abstract:
    The study of cerebral micro-vascular network requires high resolution images. However, to obtain statistically relevant results, a large area of the brain (about few square millimeters) has to be investigated. This leads us to consider huge images, too large to be loaded and processed at once in the memory of a standard computer. To consider a large area, a compact representation of the vessels is required. The medial axis seems to be the tools of choice for the aimed application. To extract it, a dedicated skeletonization algorithm is proposed. Indeed, a skeleton must be homotopic, thin and medial with respect to the object it represents. Numerous approaches already exist which focus on computational efficiency. However, they all implicitly assume that the image can be completely processed in the computer memory, which is not realistic with the size of the data considered here. We present in this paper a skeletonization algorithm that processes data locally (in sub-images) while preserving global properties (i.e. homotopy). We then show some results obtained on a mosaic of 3-D images acquired by confocal microscopy.

    @techreport{fouard:RR:2005,
    abstract = {The study of cerebral micro-vascular network requires high resolution images. However, to obtain statistically relevant results, a large area of the brain (about few square millimeters) has to be investigated. This leads us to consider huge images, too large to be loaded and processed at once in the memory of a standard computer. To consider a large area, a compact representation of the vessels is required. The medial axis seems to be the tools of choice for the aimed application. To extract it, a dedicated skeletonization algorithm is proposed. Indeed, a skeleton must be homotopic, thin and medial with respect to the object it represents. Numerous approaches already exist which focus on computational efficiency. However, they all implicitly assume that the image can be completely processed in the computer memory, which is not realistic with the size of the data considered here. We present in this paper a skeletonization algorithm that processes data locally (in sub-images) while preserving global properties (i.e. homotopy). We then show some results obtained on a mosaic of 3-D images acquired by confocal microscopy.},
    author = {C\'eline Fouard and Gr\'egoire Malandain and Steffen Prohaska and Malte Westerhoff},
    hal-identifiant = {inria-00070426},
    institution = {INRIA},
    keywords = {image mosaic, digital topology, chamfer map, medial axis, skeleton, topological thinning},
    number = {RR-5581},
    postscript = {ftp://ftp.inria.fr/INRIA/publication/publi-ps-gz/RR/RR-5581.ps.gz},
    title = {Blockwise processing applied to brain micro-vascular network study},
    type = {Research report},
    url = {ftp://ftp.inria.fr/INRIA/publication/publi-pdf/RR/RR-5581.pdf},
    url-hal = {https://hal.archives-ouvertes.fr/hal-00308887},
    url-publisher = {http://www.inria.fr/rrrt/rr-5581.html},
    year = {2005} 
    }
    


  5. Tristan Glatard, Johan Montagnat, and Xavier Pennec. An optimized workflow enactor for data-intensive grid applications. Technical report I3S/RR-2005-32, Nice-Sophia-Antipolis University, I3S Lab, RAINBOW project, 2005.
    @techreport{Glatard:RR:2005,
    author = {Tristan Glatard and Johan Montagnat and Xavier Pennec},
    institution = {Nice-Sophia-Antipolis University, I3S Lab, RAINBOW project},
    number = {I3S/RR-2005-32},
    title = {An optimized workflow enactor for data-intensive grid applications},
    url = {http://www.i3s.unice.fr/~mh/RR/2005/RR-05.32-T.GLATARD.pdf},
    url-hal = {https://hal.archives-ouvertes.fr/hal-00691833},
    year = {2005} 
    }
    


  6. Grégoire Malandain and Céline Fouard. On optimal chamfer masks and coefficients. Research report RR-5566, INRIA, 2005. Keyword(s): Chamfer distance, anisotropic lattice, Farey triangulation.
    Abstract:
    This report describes the calculation of local errors in Chamfer masks both in two- and in three-dimensional anisotropic spaces. For these errors, closed forms are given that can be related to the Chamfer mask geometry. Thanks to these calculation, it can be obsrved that the usual Chamfer masks ({\em i.e.} 3x3x3 or 5x5x5) have an inhomogeneously distributed error. Moreover, it allows us to design dedicated Chamfer masks by controlling either the complexity of the computation of the distance map (or equivalently the number of vectors in the mask), or the error of the mask in $\mathbb{Z}^2$ or in $\mathbb{Z}^3$. Last, since Chamfer distances are usually computed with integer weights (and approximate the Euclidean distance up to a multiplicative factor), we demonstrate that the knowledge of the local errors allows a very efficient computation of these weights.

    @techreport{malandain:RR:2005,
    abstract = { This report describes the calculation of local errors in Chamfer masks both in two- and in three-dimensional anisotropic spaces. For these errors, closed forms are given that can be related to the Chamfer mask geometry. Thanks to these calculation, it can be obsrved that the usual Chamfer masks ({\em i.e.} 3x3x3 or 5x5x5) have an inhomogeneously distributed error. Moreover, it allows us to design dedicated Chamfer masks by controlling either the complexity of the computation of the distance map (or equivalently the number of vectors in the mask), or the error of the mask in $\mathbb{Z}^2$ or in $\mathbb{Z}^3$. Last, since Chamfer distances are usually computed with integer weights (and approximate the Euclidean distance up to a multiplicative factor), we demonstrate that the knowledge of the local errors allows a very efficient computation of these weights.},
    author = {Gr\'egoire Malandain and C\'eline Fouard},
    hal-identifiant = {inria-00070440},
    institution = {INRIA},
    keywords = {Chamfer distance, anisotropic lattice, Farey triangulation},
    number = {RR-5566},
    title = {On optimal chamfer masks and coefficients},
    type = {Research report},
    url = {ftp://ftp.inria.fr/INRIA/publication/publi-pdf/RR/RR-5566.pdf},
    url-hal = {http://hal.inria.fr/inria-00070440/en/},
    url-publisher = {http://www.inria.fr/rrrt/rr-5566.html},
    year = {2005} 
    }
    


Patents, standards

  1. Vincent Arsigny, Xavier Pennec, Pierre Fillard, and Nicholas Ayache. Dispositif perfectionné de traitement ou de production d'images de tenseurs. French patent filing number 0503483, April 2005. Note: International application number PCT/FR2006/000774 published 12.10.2006.
    @patent{Arsigny:Patent:05,
    address = {},
    author = {Vincent Arsigny and Xavier Pennec and Pierre Fillard and Nicholas Ayache},
    month = {April},
    note = {International application number PCT/FR2006/000774 published 12.10.2006},
    number = {French patent filing number 0503483},
    optabstract = {},
    optdoi = {},
    opthal-date-depot = {},
    opthal-identifiant = {},
    opthal-version = {},
    optisbn = {},
    optissn = {},
    optkeywords = {},
    opturl = {},
    opturl-publisher = {},
    optx-scientific-popularization = {},
    title = {Dispositif perfectionn\'e de traitement ou de production d'images de tenseurs},
    url-hal = {https://hal.inria.fr/hal-00875686},
    x-language = {},
    x-pays = {},
    year = {2005} 
    }
    


Miscellaneous

  1. Antoine Azar. An Interactive Intensity- and Feature-Based Non-Rigid Registration Framework for 3D Medical Images. Master's Thesis, Master IGMMV, Université de Nice Sophia-Antipolis, 2005. Note: In collaboration with Siemens Corporate Research, NJ, USA.
    @mastersthesis{Azar:MEng:2005,
    author = {Antoine Azar},
    note = {In collaboration with Siemens Corporate Research, NJ, USA},
    school = {Master IGMMV, Universit\'e de Nice Sophia-Antipolis},
    title = {An Interactive Intensity- and Feature-Based Non-Rigid Registration Framework for 3D Medical Images},
    type = {Master's Thesis},
    url-hal = {https://hal.inria.fr/inria-00615601},
    year = {2005} 
    }
    


  2. Olivier Duhamel. Validation de modèles mathématiques en biologie à l'aide du traitement d'image. Master's Thesis, Université Paul Sabatier, Toulouse, 2005.
    @mastersthesis{duhamel:master:2005,
    author = {Olivier Duhamel},
    school = {Universit\'e Paul Sabatier, Toulouse},
    title = {Validation de mod\`eles math\'ematiques en biologie \`a l'aide du traitement d'image},
    type = {Master's Thesis},
    year = {2005} 
    }
    


  3. T. Mansi. Automatic Segmentation of Focal Cortical Dysplasia Lesions on MRI Images using Geometric Deformable Models. Master's thesis, Politecnico di Torino (Italy) / ENST Paris (France), 2005.
    @mastersthesis{mansi05:mscthesis,
    author = {T. Mansi},
    school = {Politecnico di Torino (Italy) / ENST Paris (France)},
    title = {Automatic Segmentation of Focal Cortical Dysplasia Lesions on MRI Images using Geometric Deformable Models},
    year = {2005} 
    }
    


  4. O. Colliot, T. Mansi, N. Bernasconi, V. Naessens, D. Klironomos, and A. Bernasconi. Automatic delineation of focal cortical dysplasia lesion on MRI. Annual Meeting of the American Epilepsy Society AES 2005 (abstracts), 2005.
    @misc{bernasconi05:AES,
    author = {O. Colliot and T. Mansi and N. Bernasconi and V. Naessens and D. Klironomos and A. Bernasconi},
    howpublished = {Annual Meeting of the American Epilepsy Society AES 2005 (abstracts)},
    title = {Automatic delineation of focal cortical dysplasia lesion on MRI},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tommaso.Mansi/colliot05AES.pdf},
    year = {2005} 
    }
    


  5. Jimena Costa, Hervé Delingette, Jean-Christophe Diaz, William Wibault, and Ann Egelmeers. Towards an automatic delineation of lower abdomen structures for conformational radiotherapy based on CT images. Proceedings of the 44èmes Journées Scientifiques de la Société Française de Physique Médicale (SFPM), June 2005.
    Abstract:
    The delineation of anatomical structures based on images of the lower abdomen in the frame of dose calculation for conformational radiotherapy is very complex to automatize. We present here the first results of a semi-automatic delineation of the bladder in tomodensitometric (CT) images. The method we have used is based on deformable templates whose deformation is guided by the image and by the user as well, in case the latter desires to correct the automatic delineation. In order to validate our approach, we use a set of CT images that have been segmented by medical experts. These hand-made contours act in fact as "ground truth", allowing for an objective evaluation of the performance of our algorithm.

    @misc{Costa:SFPM:05,
    abstract = {The delineation of anatomical structures based on images of the lower abdomen in the frame of dose calculation for conformational radiotherapy is very complex to automatize. We present here the first results of a semi-automatic delineation of the bladder in tomodensitometric (CT) images. The method we have used is based on deformable templates whose deformation is guided by the image and by the user as well, in case the latter desires to correct the automatic delineation. In order to validate our approach, we use a set of CT images that have been segmented by medical experts. These hand-made contours act in fact as "ground truth", allowing for an objective evaluation of the performance of our algorithm. },
    address = {Avignon, France},
    author = {Jimena Costa and Herv\'e Delingette and Jean-Christophe Diaz and William Wibault and Ann Egelmeers},
    howpublished = {Proceedings of the 44\`emes Journ\'ees Scientifiques de la Soci\'et\'e Fran\c{c}aise de Physique M\'edicale (SFPM)},
    month = {June},
    title = {Towards an automatic delineation of lower abdomen structures for conformational radiotherapy based on CT images},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Costa/Costa_Avignon_2005.pdf},
    year = {2005} 
    }
    


  6. G. Dugas-Phocion, C. Lebrun, S. Chanalet, M. Chatel, N. Ayache, and G. Malandain. Automatic segmentation of white matter lesions in multi-sequence MRI of relapsing-remitting multiple sclerosis patients. 21th Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRIMS), September 2005. Keyword(s): multiple sclerosis.
    @misc{dugas:ectrims:2005,
    author = {G. Dugas-Phocion and C. Lebrun and S. Chanalet and M. Chatel and N. Ayache and G. Malandain},
    howpublished = {21th Congress of the European Committee for Treatment and Research in Multiple Sclerosis (ECTRIMS)},
    keywords = {multiple sclerosis},
    month = {September},
    title = {Automatic segmentation of white matter lesions in multi-sequence MRI of relapsing-remitting multiple sclerosis patients},
    year = {2005} 
    }
    


  7. D. Galanaud, D. Dormont, J.P. Brandel, M.G. Linguraru, E. Bardinet, and J. Chiras. Exploration des Maladies a Prions par IRM Multimodalitaire. Journées de Neuroradiologie de Langue Française, 2005. Note: Journal of Neuroradiology 32(2):79.
    @misc{Linguraru:JN:05,
    author = {D. Galanaud and D. Dormont and J.P. Brandel and M.G. Linguraru and E. Bardinet and J. Chiras},
    howpublished = {Journ\'ees de Neuroradiologie de Langue Fran\c{c}aise},
    note = {Journal of Neuroradiology 32(2):79},
    publisher = {Masson},
    title = {Exploration des Maladies a Prions par IRM Multimodalitaire},
    year = {2005} 
    }
    


  8. A. Isambert, F. Dhermain, A. Beaudre, G. Malandain, O. Commowick, J.C. Diaz, F. Bidault, P.Y. Bondiau, J. Bourhis, M. Ricard, and D. Lefkopoulos. Requirements for the use of an atlas-based automatic segmentation for delineation of Organs at risk (OAR) in conformal radiotherapy (CRT): quality assurance (QA) and preliminary results for 22 adult patients with primary brain tumors. Acts of the 24th European Society for Therapeutic Radiology and Oncology (ESTRO 2005), 2005.
    @misc{isambert:estro:2005,
    author = {A. Isambert and F. Dhermain and A. Beaudre and G. Malandain and O. Commowick and J.C. Diaz and F. Bidault and P.Y. Bondiau and J. Bourhis and M. Ricard and D. Lefkopoulos},
    howpublished = {Acts of the 24th European Society for Therapeutic Radiology and Oncology (ESTRO 2005)},
    title = {Requirements for the use of an atlas-based automatic segmentation for delineation of Organs at risk (OAR) in conformal radiotherapy (CRT): quality assurance (QA) and preliminary results for 22 adult patients with primary brain tumors},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/isambert-estro-2005.pdf},
    year = {2005} 
    }
    


  9. M.G. Linguraru and N. Ayache. Definition and Evaluation of MRI-Based Measures for the Neuroradiological Investigation of Creutzfeldt-Jakob Diseases. ERCIM News,No.60, Special Issue on Biomedical Informatics, 2005.
    @misc{Linguraru:ERCIM:2005,
    author = {M.G. Linguraru and N. Ayache},
    howpublished = {ERCIM News,No.60, Special Issue on Biomedical Informatics},
    pages = {52--53},
    title = {Definition and Evaluation of MRI-Based Measures for the Neuroradiological Investigation of Creutzfeldt-Jakob Diseases},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Linguraru/Linguraru_ERCIM_2005.pdf},
    year = {2005} 
    }
    


  10. Mauricio A. Reyes, Gregoire Malandain, Nicholas Ayache, Jacques Darcourt, and Pierre M. Koulibaly. Respiratory Motion Compensation within Emission Tomographic Reconstruction. 52nd Annual Meeting of the Society of Nuclear Medicine, June 2005.
    @misc{reyes:snm:2005,
    address = {Toronto, Canada},
    author = {Mauricio A. Reyes and Gregoire Malandain and Nicholas Ayache and Jacques Darcourt and Pierre M. Koulibaly},
    howpublished = {52nd Annual Meeting of the Society of Nuclear Medicine},
    month = {June},
    title = {Respiratory Motion Compensation within Emission Tomographic Reconstruction},
    year = {2005} 
    }
    



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