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Publications of year 2008

Books and proceedings

  1. Xavier Pennec and Sarang Joshi, editors. Proceedings of the Second International Workshop on Mathematical Foundations of Computational Anatomy - Geometrical and Statistical Methods for Modelling Biological Shape Variability, New York, USA, September 2008.
    @proceedings{Pennec:MFCAProcs:08,
    address = {New York, USA},
    editor = {Xavier Pennec and Sarang Joshi},
    month = {September},
    title = {Proceedings of the Second International Workshop on Mathematical Foundations of Computational Anatomy - Geometrical and Statistical Methods for Modelling Biological Shape Variability},
    url = {http://www.inria.fr/sophia/asclepios/events/MFCA08/Proceedings/MFCA08_Proceedings.pdf},
    url-hal = {https://hal.inria.fr/hal-00846316},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {US},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


Thesis

  1. Jonathan Boisvert. Modèles de la variabilité géométrique du rachis scoliotique. PhD thesis, Université de Nice-Sophia Antipolis (France) and École Polytechnique de Montréal (Canada), March 2008.
    @phdthesis{Boisvert:PhD:2008,
    author = {Jonathan Boisvert},
    month = {March},
    school = {Universit\'e de Nice-Sophia Antipolis (France) and \'Ecole Polytechnique de Montr\'eal (Canada)},
    title = {Mod\`eles de la variabilit\'e g\'eom\'etrique du rachis scoliotique},
    type = {PhD thesis},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Jonathan.Boisvert/PhD_Boisvert.pdf},
    x-pays = {CA},
    year = {2008} 
    }
    


  2. Jimena Costa. Segmentation of Anatomical Structures of the Lower Abdomen using 3D Deformable Models. PhD Thesis, École Nationale Supérieure des Mines de Paris, March 2008.
    @phdthesis{Costa:PhD:08,
    author = {Jimena Costa},
    month = {March},
    school = {\'Ecole Nationale Sup\'erieure des Mines de Paris},
    title = {Segmentation of Anatomical Structures of the Lower Abdomen using 3D Deformable Models},
    type = {PhD Thesis},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Costa/These.pdf},
    year = {2008} 
    }
    


  3. Pierre Fillard. Riemannian Processing of Tensors for Diffusion MRI and Computational Anatomy of the Brain. PhD Thesis, University of Nice-Sophia Antipolis, February 2008.
    @phdthesis{Fillard:PhD:08,
    author = {Pierre Fillard},
    month = {February},
    school = {University of Nice-Sophia Antipolis},
    title = {{Riemannian} Processing of Tensors for Diffusion MRI and Computational Anatomy of the Brain},
    type = {PhD Thesis},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Pierre.Fillard/ThesisPFillard.pdf},
    year = {2008} 
    }
    


  4. Tom Vercauteren. Image Registration and Mosaicing for Dynamic In Vivo Fibered Confocal Microscopy. PhD Thesis, École Nationale Supérieure des Mines de Paris, January 2008.
    @phdthesis{Vercauteren:PhD:08,
    author = {Tom Vercauteren},
    month = {January},
    school = {\'Ecole Nationale Sup\'erieure des Mines de Paris},
    title = {Image Registration and Mosaicing for Dynamic In Vivo Fibered Confocal Microscopy},
    type = {PhD Thesis},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tom.Vercauteren/PhDThesis-TomVercauteren.pdf},
    year = {2008} 
    }
    


Articles in journal, book chapters

  1. Neculai Archip, Olivier Clatz, Stephen Whalen, Simon Dimaio, Peter Black, Alexandra Golby, Ferenc Jolesz, and Simon Warfield. Compensation of geometric distortion effects on intraoperative magnetic resonance imaging for enhanced visualization in image-guided neurosurgery. Neurosurgery, 62(3 supl. 1):209-15, March 2008.
    @article{Archip:Neurosurgery:08,
    author = {Neculai Archip and Olivier Clatz and Stephen Whalen and Simon Dimaio and Peter Black and Alexandra Golby and Ferenc Jolesz and Simon Warfield},
    journal = {Neurosurgery},
    month = {March},
    number = {3 supl. 1},
    pages = {209-15},
    title = {Compensation of geometric distortion effects on intraoperative magnetic resonance imaging for enhanced visualization in image-guided neurosurgery},
    url-hal = {https://hal.inria.fr/inria-00616076},
    volume = {62},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  2. Jonathan Boisvert, Farida Cheriet, Xavier Pennec, Hubert Labelle, and Nicholas Ayache. Articulated Spine Models for 3D Reconstruction from Partial Radiographic Data. IEEE Transactions on Bio-Medical Engineering, 55(11):2565-2574, November 2008.
    @article{Boisvert:TBME:08,
    author = {Jonathan Boisvert and Farida Cheriet and Xavier Pennec and Hubert Labelle and Nicholas Ayache},
    doi = {10.1109/TBME.2008.2001125},
    journal = {IEEE Transactions on Bio-Medical Engineering},
    month = {November},
    number = {11},
    pages = {2565--2574},
    pmid = {18990626},
    title = {Articulated Spine Models for 3D Reconstruction from Partial Radiographic Data},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Boisvert-TBME08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616069},
    volume = {55},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-pays = {CA},
    year = {2008} 
    }
    


  3. Jonathan Boisvert, Farida Cheriet, Xavier Pennec, Hubert Labelle, and Nicholas Ayache. Geometric Variability of the Scoliotic Spine using Statistics on Articulated Shape Models. IEEE Transactions on Medical Imaging, 27(4):557-568, 2008.
    @article{Boisvert:TMI:08,
    author = {Jonathan Boisvert and Farida Cheriet and Xavier Pennec and Hubert Labelle and Nicholas Ayache},
    doi = {10.1109/TMI.2007.911474},
    journal = {IEEE Transactions on Medical Imaging},
    number = {4},
    pages = {557--568},
    pmid = {18390352},
    title = {Geometric Variability of the Scoliotic Spine using Statistics on Articulated Shape Models},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Boisvert.TMI08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616070},
    volume = {27},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-pays = {CA},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  4. Jonathan Boisvert, Farida Cheriet, Xavier Pennec, Hubert Labelle, and Nicholas Ayache. Principal Deformations Modes of Articulated Models for the Analysis of 3D Spine Deformities. Electronic Letters on Computer Vision and Image Analysis, 7(4):13-31, December 2008.
    @article{Boisvert:ELCVIA:08,
    author = {Jonathan Boisvert and Farida Cheriet and Xavier Pennec and Hubert Labelle and Nicholas Ayache},
    journal = {Electronic Letters on Computer Vision and Image Analysis},
    month = {December},
    number = {4},
    pages = {13--31},
    title = {Principal Deformations Modes of Articulated Models for the Analysis of 3D Spine Deformities},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Jonathan.Boisvert/Boisvert_ELCVIA08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616067},
    url-publisher = {http://elcvia.cvc.uab.es/index.php/elcvia/article/view/165/202},
    volume = {7},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-pays = {CA},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  5. Pierre-Yves Bondiau, Olivier Clatz, Maxime Sermesant, Pierre-Yves Marcy, Hervé Delingette, Marc Frenay, and Nicholas Ayache. Biocomputing: numerical simulation of glioblastoma growth using diffusion tensor imaging. Physics in Medicine and Biology, 53(4):879-93, February 2008.
    @article{bondiau:pmb:08,
    author = {Pierre-Yves Bondiau and Olivier Clatz and Maxime Sermesant and Pierre-Yves Marcy and Herv\'e Delingette and Marc Frenay and Nicholas Ayache},
    journal = {Physics in Medicine and Biology},
    month = {February},
    number = {4},
    pages = {879-93},
    title = {Biocomputing: numerical simulation of glioblastoma growth using diffusion tensor imaging},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/PMB2008Bondiau.pdf},
    url-hal = {https://hal.inria.fr/inria-00616078},
    volume = {53},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  6. P. Chinchapatnam, K.S. Rhode, M. Ginks, C.A. Rinaldi, P. Lambiase, R. Razavi, S. Arridge, and M. Sermesant. Model-Based Imaging of Cardiac Apparent Conductivity and Local Conduction Velocity for Diagnosis and Planning of Therapy. IEEE Transactions on Medical Imaging, 27(11):1631-1642, 2008.
    @article{TMI2008Phani,
    author = {P. Chinchapatnam and K.S. Rhode and M. Ginks and C.A. Rinaldi and P. Lambiase and R. Razavi and S. Arridge and M. Sermesant},
    journal = {IEEE Transactions on Medical Imaging},
    number = {11},
    pages = {1631-1642},
    title = {Model-Based Imaging of Cardiac Apparent Conductivity and Local Conduction Velocity for Diagnosis and Planning of Therapy},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/TMI2008Phani.pdf},
    url-hal = {https://hal.inria.fr/inria-00616071},
    volume = {27},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  7. Olivier Commowick, Vincent Arsigny, Aurélie Isambert, Jimena Costa, Frédéric Dhermain, François Bidault, Pierre-Yves Bondiau, Nicholas Ayache, and Grégoire Malandain. An efficient locally affine framework for the smooth registration of anatomical structures. Medical Image Analysis, 12(4):427-41, August 2008. Keyword(s): Algorithms, Brain, anatomy & histology, Diagnostic Imaging, methods, Humans, Image Processing Computer-Assisted, Radiotherapy Planning Computer-Assisted, methods, Sensitivity and Specificity.
    Abstract:
    Intra-subject and inter-subject nonlinear registration based on dense transformations requires the setting of many parameters, mainly for regularization. This task is a major issue, as the global quality of the registration will depend on it. Setting these parameters is, however, very hard, and they may have to be tuned for each patient when processing data acquired by different centers or using different protocols. Thus, we present in this article a method to introduce more coherence in the registration by using fewer degrees of freedom than with a dense registration. This is done by registering the images only on user-defined areas, using a set of affine transformations, which are optimized together in a very efficient manner. Our framework also ensures a smooth and coherent transformation thanks to a new regularization of the affine components. Finally, we ensure an invertible transformation thanks to the Log-Euclidean polyaffine framework. This allows us to get a more robust and very efficient registration method, while obtaining good results as explained below. We performed a qualitative and quantitative evaluation of the obtained results on two applications: first on atlas-based brain segmentation, comparing our results with a dense registration algorithm. Then the second application for which our framework is particularly well suited concerns bone registration in the lower-abdomen area. We obtain in this case a better positioning of the femoral heads than with a dense registration. For both applications, we show a significant improvement in computation time, which is crucial for clinical applications.

    @article{commowick:mia:2008,
    abstract = {Intra-subject and inter-subject nonlinear registration based on dense transformations requires the setting of many parameters, mainly for regularization. This task is a major issue, as the global quality of the registration will depend on it. Setting these parameters is, however, very hard, and they may have to be tuned for each patient when processing data acquired by different centers or using different protocols. Thus, we present in this article a method to introduce more coherence in the registration by using fewer degrees of freedom than with a dense registration. This is done by registering the images only on user-defined areas, using a set of affine transformations, which are optimized together in a very efficient manner. Our framework also ensures a smooth and coherent transformation thanks to a new regularization of the affine components. Finally, we ensure an invertible transformation thanks to the Log-Euclidean polyaffine framework. This allows us to get a more robust and very efficient registration method, while obtaining good results as explained below. We performed a qualitative and quantitative evaluation of the obtained results on two applications: first on atlas-based brain segmentation, comparing our results with a dense registration algorithm. Then the second application for which our framework is particularly well suited concerns bone registration in the lower-abdomen area. We obtain in this case a better positioning of the femoral heads than with a dense registration. For both applications, we show a significant improvement in computation time, which is crucial for clinical applications.},
    author = {Olivier Commowick and Vincent Arsigny and Aur\'elie Isambert and Jimena Costa and Fr\'ed\'eric Dhermain and Fran\c{c}ois Bidault and Pierre-Yves Bondiau and Nicholas Ayache and Gr\'egoire Malandain},
    doi = {10.1016/j.media.2008.01.002},
    journal = {Medical Image Analysis},
    keywords = {Algorithms, Brain, anatomy & histology, Diagnostic Imaging, methods, Humans, Image Processing Computer-Assisted, Radiotherapy Planning Computer-Assisted, methods, Sensitivity and Specificity},
    month = {August},
    number = {4},
    pages = {427-41},
    title = {An efficient locally affine framework for the smooth registration of anatomical structures},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Olivier.Commowick/CommowickMedia2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616074},
    volume = {12},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  8. Olivier Commowick, Vincent Grégoire, and Grégoire Malandain. Atlas-Based Delineation of Lymph Node Levels in Head and Neck Computed Tomography Images. Radiotherapy Oncology, 87(2):281-289, 2008.
    @article{Commowick_RO_2008,
    author = {Olivier Commowick and Vincent Gr\'egoire and Gr\'egoire Malandain},
    journal = {Radiotherapy Oncology},
    number = {2},
    pages = {281-289},
    title = {Atlas-Based Delineation of Lymph Node Levels in Head and Neck Computed Tomography Images},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Olivier.Commowick/CommowickRO2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616080},
    volume = {87},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  9. H. Delingette. Triangular Springs for Modeling Nonlinear Membranes. IEEE Transactions on Visualization and Computer Graphics, 14(2), March/April 2008.
    @article{delingette:tvcg:2008,
    author = {H. Delingette},
    journal = {IEEE Transactions on Visualization and Computer Graphics},
    month = {March/April},
    number = {2},
    title = {Triangular Springs for Modeling Nonlinear Membranes},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/tvcg-membrane.pdf},
    url-hal = {https://hal.inria.fr/inria-00616072},
    url-publisher = {http://doi.ieeecomputersociety.org/10.1109/TVCG.2007.70431},
    volume = {14},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  10. Stanley Durrleman, Xavier Pennec, Alain Trouvé, Paul Thompson, and Nicholas Ayache. Inferring brain variability from diffeomorphic deformations of currents: an integrative approach. Medical Image Analysis, 12(5):626-637, 2008.
    @article{Durrleman:Media:08,
    author = {Stanley Durrleman and Xavier Pennec and Alain Trouv\'e and Paul Thompson and Nicholas Ayache},
    doi = {10.1016/j.media.2008.06.010},
    journal = {Medical Image Analysis},
    number = {5},
    pages = {626--637},
    pmid = {18658005},
    title = {Inferring brain variability from diffeomorphic deformations of currents: an integrative approach},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Stanley.Durrleman/Durrleman_Media08.pdf},
    url-hal = {https://hal.inria.fr/hal-00816052},
    volume = {12},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-pays = {US},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  11. Tristan Glatard, Johan Montagnat, David Emsellem, and Diane Lingrand. A Service-Oriented Architecture enabling dynamic services grouping for optimizing distributed workflows execution. Future Generation Computer Systems, 7(24):720-730, July 2008.
    @article{glatard-montagnat-etal:2007b,
    author = {Tristan Glatard and Johan Montagnat and David Emsellem and Diane Lingrand},
    doi = {10.1016/j.future.2008.02.011},
    hal-identifiant = {hal-00459808},
    journal = {Future Generation Computer Systems},
    month = {July},
    number = {24},
    pages = {720--730},
    title = {A Service-Oriented Architecture enabling dynamic services grouping for optimizing distributed workflows execution},
    url-hal = {https://hal.archives-ouvertes.fr/hal-00459808},
    volume = {7},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  12. Tristan Glatard, Johan Montagnat, Diane Lingrand, and Xavier Pennec. Flexible and efficient workflow deployment of data-intensive applications on GRIDS with MOTEUR. International Journal of High Performance Computing Applications, 3(22):347-360, August 2008. Note: Special issue on Workflow Systems in Grid Environments.
    @article{Glatard:IJHPCA:08,
    author = {Tristan Glatard and Johan Montagnat and Diane Lingrand and Xavier Pennec},
    doi = {10.1177/1094342008096067},
    journal = {International Journal of High Performance Computing Applications},
    month = {August},
    note = {Special issue on Workflow Systems in Grid Environments},
    number = {22},
    pages = {347--360},
    title = {Flexible and efficient workflow deployment of data-intensive applications on GRIDS with MOTEUR},
    url = {http://rainbow.polytech.unice.fr/publis/glatard-montagnat-etal:2008.pdf},
    volume = {3},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  13. S Haik, D Galanaud, MG Linguraru, K Peoc'h, N Privat, BA Faucheux, N Ayache, JJ Hauw, D Dormont, and JP Brandel. In Vivo Detection of Thalamic Gliosis: A Pathoradiologic Demonstration in Familial Fatal Insomnia. Archives of Neurology, 65(4):545-549, April 2008.
    Abstract:
    BACKGROUND: Increasing evidence supports the usefulness of brain magnetic resonance imaging (MRI) for the diagnosis of human prion diseases. From the neuroradiological point of view, fatal familial insomnia is probably the most challenging to diagnose because brain lesions are mostly confined to the thalamus. OBJECTIVE: To determine whether multisequence MRI of the brain can show thalamic alterations and establish pathoradiologic correlations in a patient with familial fatal insomnia. DESIGN: Radioclinical prospective study. We describe a patient with fatal familial insomnia and normal MRI images. Because the MRI study was performed only 4 days before the patient's death, we were able to compare radiological data with the lesions observed at the neuropathologic level. Patient A 55-year-old man with familial fatal insomnia. Main Outcome Measure Magnetic resonance spectroscopy combined with the measurement of apparent diffusion coefficient of water in different brain areas. RESULTS: The neuroradiological study showed, in the thalamus but not in the other brain regions studied, an increase of apparent diffusion coefficient of water and a metabolic pattern indicating gliosis. These alterations closely correlated with neuropathologic data showing an almost pure gliosis that was restricted to the thalami. CONCLUSION: Considering fatal familial insomnia as a model of thalamic-restricted gliosis, this case demonstrates that multisequences of magnetic resonance can detect prion-induced gliosis in vivo, as confirmed by a neuropathologic examination performed only a few days after radiological examination.

    @article{haik:an:2008,
    abstract = {BACKGROUND: Increasing evidence supports the usefulness of brain magnetic resonance imaging (MRI) for the diagnosis of human prion diseases. From the neuroradiological point of view, fatal familial insomnia is probably the most challenging to diagnose because brain lesions are mostly confined to the thalamus. OBJECTIVE: To determine whether multisequence MRI of the brain can show thalamic alterations and establish pathoradiologic correlations in a patient with familial fatal insomnia. DESIGN: Radioclinical prospective study. We describe a patient with fatal familial insomnia and normal MRI images. Because the MRI study was performed only 4 days before the patient's death, we were able to compare radiological data with the lesions observed at the neuropathologic level. Patient A 55-year-old man with familial fatal insomnia. Main Outcome Measure Magnetic resonance spectroscopy combined with the measurement of apparent diffusion coefficient of water in different brain areas. RESULTS: The neuroradiological study showed, in the thalamus but not in the other brain regions studied, an increase of apparent diffusion coefficient of water and a metabolic pattern indicating gliosis. These alterations closely correlated with neuropathologic data showing an almost pure gliosis that was restricted to the thalami. CONCLUSION: Considering fatal familial insomnia as a model of thalamic-restricted gliosis, this case demonstrates that multisequences of magnetic resonance can detect prion-induced gliosis in vivo, as confirmed by a neuropathologic examination performed only a few days after radiological examination.},
    author = {S Haik and D Galanaud and MG Linguraru and K Peoc'h and N Privat and BA Faucheux and N Ayache and JJ Hauw and D Dormont and JP Brandel},
    journal = {Archives of Neurology},
    month = {April},
    number = {4},
    pages = {545-549},
    title = {In Vivo Detection of Thalamic Gliosis: A Pathoradiologic Demonstration in Familial Fatal Insomnia},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Nicholas.Ayache/HaikAN2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616065},
    volume = {65},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  14. H. Hufnagel, X. Pennec, J. Ehrhardt, N. Ayache, and H. Handels. Generation of a Statistical Shape Model with Probabilistic Point Correspondences and EM-ICP. International Journal for Computer Assisted Radiology and Surgery, 2(5):265-273, March 2008.
    @article{Hufnagel:ijcars:2008,
    author = {H. Hufnagel and X. Pennec and J. Ehrhardt and N. Ayache and H. Handels},
    doi = {10.1007/s11548-007-0138-9},
    journal = {International Journal for Computer Assisted Radiology and Surgery},
    month = {March},
    number = {5},
    pages = {265--273},
    title = {Generation of a Statistical Shape Model with Probabilistic Point Correspondences and {EM-ICP}},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Heike.Hufnagel/hufnagel_IJCARS.pdf},
    url-hal = {https://hal.inria.fr/inria-00616073},
    volume = {2},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-pays = {DE},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  15. A Isambert, G Bonniaud, F Lavielle, G Malandain, and D Lefkopoulos. A phantom study of the accuracy of CT, MR and PET image registrations with a block matching-based algorithm. Cancer radiothérapie, 12(8):800-8, December 2008. Keyword(s): Algorithms, Automation, Brain, pathology, Head, Humans, Magnetic Resonance Imaging, methods, Phantoms Imaging, Positron-Emission Tomography, methods, Radiotherapy Planning Computer-Assisted, methods, Software, Tomography X-Ray Computed, methods.
    Abstract:
    PURPOSE: The aim of the present study was to quantitatively assess the performance of a block matching-based automatic registration algorithm integrated within the commercial treatment planning system designated ISOgray from Dosisoft. The accuracy of the process was evaluated by a phantom study on computed tomography (CT), magnetic resonance (MR) and positron emission tomography (PET) images. MATERIALS AND METHODS: Two phantoms were used to carry out this study: the cylindrical Jaszczak phantom and the anthropomorphic Liqui-Phil Head Phantom (the Phantom Laboratory), containing fillable spheres. External fiducial markers were used to quantify the accuracy of 41 CT/CT, MR/CT and PET/CT automatic registrations with images of the rotated and tilted phantoms. RESULTS: The study first showed that a cylindrical phantom was not adapted for the evaluation of the performance of a block matching-based registration software. Secondly, the Liqui-Phil Head Phantom study showed that the algorithm was able to perform automatic registrations of CT/CT and MR/CT images with differences of up to 40 degrees in phantom rotation and of up to 20-30 degrees for PET/CT with accuracy below the image voxel size. CONCLUSION: The study showed that the block matching-based automatic registration software under investigation was robust, reliable and yielded very satisfactory results. This phantom-based test can be integrated into a periodical quality assurance process and used for any commissioning of image registration software for radiation therapy.

    @article{isambert:cr:2008,
    abstract = {PURPOSE: The aim of the present study was to quantitatively assess the performance of a block matching-based automatic registration algorithm integrated within the commercial treatment planning system designated ISOgray from Dosisoft. The accuracy of the process was evaluated by a phantom study on computed tomography (CT), magnetic resonance (MR) and positron emission tomography (PET) images. MATERIALS AND METHODS: Two phantoms were used to carry out this study: the cylindrical Jaszczak phantom and the anthropomorphic Liqui-Phil Head Phantom (the Phantom Laboratory), containing fillable spheres. External fiducial markers were used to quantify the accuracy of 41 CT/CT, MR/CT and PET/CT automatic registrations with images of the rotated and tilted phantoms. RESULTS: The study first showed that a cylindrical phantom was not adapted for the evaluation of the performance of a block matching-based registration software. Secondly, the Liqui-Phil Head Phantom study showed that the algorithm was able to perform automatic registrations of CT/CT and MR/CT images with differences of up to 40 degrees in phantom rotation and of up to 20-30 degrees for PET/CT with accuracy below the image voxel size. CONCLUSION: The study showed that the block matching-based automatic registration software under investigation was robust, reliable and yielded very satisfactory results. This phantom-based test can be integrated into a periodical quality assurance process and used for any commissioning of image registration software for radiation therapy.},
    author = {A Isambert and G Bonniaud and F Lavielle and G Malandain and D Lefkopoulos},
    doi = {10.1016/j.canrad.2008.04.009},
    journal = {Cancer radioth\'erapie},
    keywords = {Algorithms, Automation, Brain, pathology, Head, Humans, Magnetic Resonance Imaging, methods, Phantoms Imaging, Positron-Emission Tomography, methods, Radiotherapy Planning Computer-Assisted, methods, Software, Tomography X-Ray Computed, methods},
    month = {December},
    number = {8},
    pages = {800-8},
    title = {A phantom study of the accuracy of CT, MR and PET image registrations with a block matching-based algorithm},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/isambert-cr-2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616066},
    volume = {12},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  16. Aurélie Isambert, Frédéric Dhermain, François Bidault, Olivier Commowick, Pierre-Yves Bondiau, Grégoire Malandain, and Dimitri Lefkopoulos. Evaluation of an atlas-based automatic segmentation software for the delineation of brain organs at risk in a radiation therapy clinical context. Radiotherapy Oncology, 87(1):93-9, April 2008. Keyword(s): Algorithms, Brain Neoplasms, pathology, Female, Humans, Image Interpretation Computer-Assisted, methods, Magnetic Resonance Imaging, Male, Middle Aged, ROC Curve, Retrospective Studies, Software, Tomography X-Ray Computed.
    Abstract:
    BACKGROUND AND PURPOSE: Conformal radiation therapy techniques require the delineation of volumes of interest, a time-consuming and operator-dependent task. In this work, we aimed to evaluate the potential interest of an atlas-based automatic segmentation software (ABAS) of brain organs at risk (OAR), when used under our clinical conditions. MATERIALS AND METHODS: Automatic and manual segmentations of the eyes, optic nerves, optic chiasm, pituitary gland, brain stem and cerebellum of 11 patients on T1-weighted magnetic resonance, 3-mm thick slice images were compared using the Dice similarity coefficient (DSC). The sensitivity and specificity of the ABAS were also computed and analysed from a radiotherapy point of view by splitting the ROC (Receiver Operating Characteristic) space into four sub-regions. RESULTS: Automatic segmentation of OAR was achieved in 7-8 min. Excellent agreement was obtained between automatic and manual delineations for organs exceeding 7 cm3: the DSC was greater than 0.8. For smaller structures, the DSC was lower than 0.41. CONCLUSIONS: These tests demonstrated that this ABAS is a robust and reliable tool for automatic delineation of large structures under clinical conditions in our daily practice, even though the small structures must continue to be delineated manually by an expert.

    @article{isambert:ro:2008,
    abstract = {BACKGROUND AND PURPOSE: Conformal radiation therapy techniques require the delineation of volumes of interest, a time-consuming and operator-dependent task. In this work, we aimed to evaluate the potential interest of an atlas-based automatic segmentation software (ABAS) of brain organs at risk (OAR), when used under our clinical conditions. MATERIALS AND METHODS: Automatic and manual segmentations of the eyes, optic nerves, optic chiasm, pituitary gland, brain stem and cerebellum of 11 patients on T1-weighted magnetic resonance, 3-mm thick slice images were compared using the Dice similarity coefficient (DSC). The sensitivity and specificity of the ABAS were also computed and analysed from a radiotherapy point of view by splitting the ROC (Receiver Operating Characteristic) space into four sub-regions. RESULTS: Automatic segmentation of OAR was achieved in 7-8 min. Excellent agreement was obtained between automatic and manual delineations for organs exceeding 7 cm3: the DSC was greater than 0.8. For smaller structures, the DSC was lower than 0.41. CONCLUSIONS: These tests demonstrated that this ABAS is a robust and reliable tool for automatic delineation of large structures under clinical conditions in our daily practice, even though the small structures must continue to be delineated manually by an expert.},
    author = {Aur\'elie Isambert and Fr\'ed\'eric Dhermain and Fran\c{c}ois Bidault and Olivier Commowick and Pierre-Yves Bondiau and Gr\'egoire Malandain and Dimitri Lefkopoulos},
    doi = {10.1016/j.radonc.2007.11.030},
    journal = {Radiotherapy Oncology},
    keywords = {Algorithms, Brain Neoplasms, pathology, Female, Humans, Image Interpretation Computer-Assisted, methods, Magnetic Resonance Imaging, Male, Middle Aged, ROC Curve, Retrospective Studies, Software, Tomography X-Ray Computed},
    month = {April},
    number = {1},
    pages = {93-9},
    title = {Evaluation of an atlas-based automatic segmentation software for the delineation of brain organs at risk in a radiation therapy clinical context},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/isambert-ro-2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616079},
    volume = {87},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  17. Emmanuel Mandonnet, Johan Pallud, Olivier Clatz, Hugues Duffau, and Laurent Capelle. Computational Modelling of the WHO Grade II Glioma Dynamics: Principles and Applications to Surgical Strategy. Neurosurgical Review, 31(3):263-9, July 2008.
    @article{Mandonnet:NSR:08,
    author = {Emmanuel Mandonnet and Johan Pallud and Olivier Clatz and Hugues Duffau and Laurent Capelle},
    journal = {Neurosurgical Review},
    month = {July},
    number = {3},
    pages = {263-9},
    title = {Computational Modelling of the WHO Grade II Glioma Dynamics: Principles and Applications to Surgical Strategy},
    url-hal = {https://hal.inria.fr/inria-00616077},
    volume = {31},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  18. Johan Montagnat, Tristan Glatard, Isabel Campos Plasencia, Francisco Castejon, Xavier Pennec, Giuliano Taffoni, Vladimir Voznesensky, and Claudio Vuerli. Workflow-based data parallel applications on the EGEE production grid infrastructure. Journal of Grid Computing, 6(4):369-383, December 2008.
    @article{Montagnat:JGC:2008,
    author = {Johan Montagnat and Tristan Glatard and Campos Plasencia, Isabel and Francisco Castejon and Xavier Pennec and Giuliano Taffoni and Vladimir Voznesensky and Claudio Vuerli},
    doi = {10.1007/s10723-008-9108-x},
    hal-identifiant = {hal-00443362},
    journal = {Journal of Grid Computing},
    month = {December},
    number = {4},
    pages = {369-383},
    title = {Workflow-based data parallel applications on the EGEE production grid infrastructure},
    url-hal = {https://hal.archives-ouvertes.fr/hal-00683983},
    volume = {6},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-pays = {ES,IT,RU},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  19. D R Rutgers, P Fillard, G Paradot, M Tadie, P Lasjaunias, and D Ducreux. Diffusion tensor imaging characteristics of the corpus callosum in mild, moderate, and severe traumatic brain injury. AJNR. American journal of neuroradiology, 29(9):1730-5, October 2008. Keyword(s): Adult, Anisotropy, Brain Concussion, diagnosis, Brain Injuries, diagnosis, Corpus Callosum, injuries, Diffuse Axonal Injury, diagnosis, Diffusion Magnetic Resonance Imaging, Female, Follow-Up Studies, Humans, Image Processing Computer-Assisted, Male, Middle Aged, Nerve Fibers, pathology, Young Adult.
    Abstract:
    BACKGROUND AND PURPOSE: The corpus callosum is an important predilection site for traumatic axonal injury but may be unevenly affected in head trauma. We hypothesized that there were local differences in axonal injury within the corpus callosum as investigated with diffusion tensor imaging (DTI), varying among patients with differing severity of traumatic brain injury (TBI). MATERIALS AND METHODS: Ethics committee approval and informed consent were obtained. Ten control subjects (7 men, 3 women; mean age, 37 +/- 9 years) and 39 patients with TBI (27 men, 12 women; 34 +/- 12 years) were investigated, of whom 24 had mild; 9, moderate; and 6, severe TBI. Regions of interest were selected in the callosal genu, body, and splenium to calculate fractional anisotropy (FA), apparent diffusion coefficient (ADC), and the number of fibers passing through. Statistical comparison was made through analysis of variance with the Scheffe post hoc analysis. RESULTS: Compared with controls, patients with mild TBI investigated <3 months posttrauma (n = 12) had reduced FA (P < .01) and increased ADC (P < .05) in the genu, whereas patients with mild TBI investigated > or =3 months posttrauma (n = 12) showed no significant differences. Patients with moderate and severe TBI, all investigated <3 months posttrauma, had reduced FA (P < .001) and increased ADC (P < .01) in the genu compared with controls and reduced FA in the splenium (P < .001) without significant ADC change. CONCLUSION: Mild TBI is associated with DTI abnormalities in the genu <3 months posttrauma. In more severe TBI, both the genu and splenium are affected. DTI suggests a larger contribution of vasogenic edema in the genu than in the splenium in TBI.

    @article{rutgers:aajn:2008,
    abstract = {BACKGROUND AND PURPOSE: The corpus callosum is an important predilection site for traumatic axonal injury but may be unevenly affected in head trauma. We hypothesized that there were local differences in axonal injury within the corpus callosum as investigated with diffusion tensor imaging (DTI), varying among patients with differing severity of traumatic brain injury (TBI). MATERIALS AND METHODS: Ethics committee approval and informed consent were obtained. Ten control subjects (7 men, 3 women; mean age, 37 +/- 9 years) and 39 patients with TBI (27 men, 12 women; 34 +/- 12 years) were investigated, of whom 24 had mild; 9, moderate; and 6, severe TBI. Regions of interest were selected in the callosal genu, body, and splenium to calculate fractional anisotropy (FA), apparent diffusion coefficient (ADC), and the number of fibers passing through. Statistical comparison was made through analysis of variance with the Scheffe post hoc analysis. RESULTS: Compared with controls, patients with mild TBI investigated <3 months posttrauma (n = 12) had reduced FA (P < .01) and increased ADC (P < .05) in the genu, whereas patients with mild TBI investigated > or =3 months posttrauma (n = 12) showed no significant differences. Patients with moderate and severe TBI, all investigated <3 months posttrauma, had reduced FA (P < .001) and increased ADC (P < .01) in the genu compared with controls and reduced FA in the splenium (P < .001) without significant ADC change. CONCLUSION: Mild TBI is associated with DTI abnormalities in the genu <3 months posttrauma. In more severe TBI, both the genu and splenium are affected. DTI suggests a larger contribution of vasogenic edema in the genu than in the splenium in TBI.},
    author = {D R Rutgers and P Fillard and G Paradot and M Tadie and P Lasjaunias and D Ducreux},
    doi = {10.3174/ajnr.A1213},
    hal-identifiant = {inria-00502705},
    journal = {AJNR. American journal of neuroradiology},
    keywords = {Adult, Anisotropy, Brain Concussion, diagnosis, Brain Injuries, diagnosis, Corpus Callosum, injuries, Diffuse Axonal Injury, diagnosis, Diffusion Magnetic Resonance Imaging, Female, Follow-Up Studies, Humans, Image Processing Computer-Assisted, Male, Middle Aged, Nerve Fibers, pathology, Young Adult},
    month = {October},
    number = {9},
    pages = {1730-5},
    title = {Diffusion tensor imaging characteristics of the corpus callosum in mild, moderate, and severe traumatic brain injury},
    url-hal = {https://hal.inria.fr/inria-00502705},
    volume = {29},
    year = {2008} 
    }
    


  20. D R Rutgers, F Toulgoat, J Cazejust, P Fillard, P Lasjaunias, and D Ducreux. White matter abnormalities in mild traumatic brain injury: a diffusion tensor imaging study. AJNR. American journal of neuroradiology, 29(3):514-9, March 2008. Keyword(s): Adult, Brain, pathology, Brain Injuries, pathology, Demyelinating Diseases, pathology, Diffusion Magnetic Resonance Imaging, methods, Female, Humans, Male, Nerve Fibers Myelinated, pathology, Reproducibility of Results, Sensitivity and Specificity.
    Abstract:
    BACKGROUND AND PURPOSE: Traumatic axonal injury is a primary brain abnormality in head trauma and is characterized by reduction of fractional anisotropy (FA) on diffusion tensor imaging (DTI). Our hypothesis was that patients with mild traumatic brain injury (TBI) have widespread brain white matter regions of reduced FA involving a variety of fiber bundles and show fiber disruption on fiber tracking in a minority of these regions. MATERIALS AND METHODS: Ethics committee approval and informed consent were obtained. Twenty-one patients with mild TBI were investigated (men:women, 12:9; mean age +/- SD, 32 +/- 9 years). In a voxel-based comparison with 11 control subjects (men:women, 8:3; mean age, 37 +/- 9 years) using z score analysis, patient regions with abnormally reduced FA were defined in brain white matter. MR imaging, DTI, and fiber tracking characteristics of these regions were described and analyzed using Pearson correlation, linear regression analysis, or the chi(2) test when appropriate. RESULTS: Patients had on average 9.1 regions with reduced FA, with a mean region volume of 525 mm(3), predominantly found in cerebral lobar white matter, cingulum, and corpus callosum. These regions mainly involved supratentorial projection fiber bundles, callosal fibers, and fronto-temporo-occipital association fiber bundles. Internal capsules and infratentorial white matter were relatively infrequently affected. Of all of the involved fiber bundles, 19.3% showed discontinuity on fiber tracking. CONCLUSION: Patients with mild TBI have multiple regions with reduced FA in various white matter locations and involving various fiber bundles. A minority of these fiber bundles show discontinuity on fiber tracking.

    @article{rutgers:aajn:2008:b,
    abstract = {BACKGROUND AND PURPOSE: Traumatic axonal injury is a primary brain abnormality in head trauma and is characterized by reduction of fractional anisotropy (FA) on diffusion tensor imaging (DTI). Our hypothesis was that patients with mild traumatic brain injury (TBI) have widespread brain white matter regions of reduced FA involving a variety of fiber bundles and show fiber disruption on fiber tracking in a minority of these regions. MATERIALS AND METHODS: Ethics committee approval and informed consent were obtained. Twenty-one patients with mild TBI were investigated (men:women, 12:9; mean age +/- SD, 32 +/- 9 years). In a voxel-based comparison with 11 control subjects (men:women, 8:3; mean age, 37 +/- 9 years) using z score analysis, patient regions with abnormally reduced FA were defined in brain white matter. MR imaging, DTI, and fiber tracking characteristics of these regions were described and analyzed using Pearson correlation, linear regression analysis, or the chi(2) test when appropriate. RESULTS: Patients had on average 9.1 regions with reduced FA, with a mean region volume of 525 mm(3), predominantly found in cerebral lobar white matter, cingulum, and corpus callosum. These regions mainly involved supratentorial projection fiber bundles, callosal fibers, and fronto-temporo-occipital association fiber bundles. Internal capsules and infratentorial white matter were relatively infrequently affected. Of all of the involved fiber bundles, 19.3% showed discontinuity on fiber tracking. CONCLUSION: Patients with mild TBI have multiple regions with reduced FA in various white matter locations and involving various fiber bundles. A minority of these fiber bundles show discontinuity on fiber tracking.},
    author = {D R Rutgers and F Toulgoat and J Cazejust and P Fillard and P Lasjaunias and D Ducreux},
    doi = {10.3174/ajnr.A0856},
    hal-identifiant = {inria-00502701},
    journal = {AJNR. American journal of neuroradiology},
    keywords = {Adult, Brain, pathology, Brain Injuries, pathology, Demyelinating Diseases, pathology, Diffusion Magnetic Resonance Imaging, methods, Female, Humans, Male, Nerve Fibers Myelinated, pathology, Reproducibility of Results, Sensitivity and Specificity},
    month = {March},
    number = {3},
    pages = {514-9},
    title = {White matter abnormalities in mild traumatic brain injury: a diffusion tensor imaging study},
    url-hal = {https://hal.inria.fr/inria-00502701},
    volume = {29},
    year = {2008} 
    }
    


  21. M Sermesant, J M Peyrat, P Chinchapatnam, F Billet, T Mansi, K Rhode, H Delingette, R Razavi, and N Ayache. Toward patient-specific myocardial models of the heart. Heart Failure Clinics, 4(3):289-301, July 2008.
    @article{Sermesant:2008:Heart-Fail-Clin:18598981,
    author = {M Sermesant and J M Peyrat and P Chinchapatnam and F Billet and T Mansi and K Rhode and H Delingette and R Razavi and N Ayache},
    journal = {Heart Failure Clinics},
    month = {July},
    number = {3},
    pages = {289-301},
    title = {Toward patient-specific myocardial models of the heart},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/HFC2008Sermesant.pdf},
    url-hal = {https://hal.inria.fr/inria-00616068},
    volume = {4},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  22. Ender Konukoglu, Xavier Pennec, Olivier Clatz, and Nicholas Ayache. Tumor Growth Modeling in Oncological Image Analysis. In I. Bankman, editor, Handbook of Medical Image Processing and Analysis - New edition, chapter 18, pages 297-307. Academic Press, December 2008. ISBN: 13: 978-0-12-373904-9.
    @incollection{Konukoglu:HMIP:08,
    author = {Ender Konukoglu and Xavier Pennec and Olivier Clatz and Nicholas Ayache},
    booktitle = {Handbook of Medical Image Processing and Analysis - New edition},
    chapter = {18},
    editor = {I. Bankman},
    isbn = {13: 978-0-12-373904-9},
    month = {December},
    pages = {297--307},
    publisher = {Academic Press},
    title = {Tumor Growth Modeling in Oncological Image Analysis},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Ender.Konukoglu/tumor_growth_in_image_analysis.pdf},
    url-hal = {https://hal.inria.fr/inria-00616081},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  23. X. Pennec. Statistical computing on manifolds: from Riemannian geometry to computational anatomy. In Frank Nielsen, editor, Emerging Trends in Visual Computing, volume 5416 of LNCS, pages 347-386. Springer, 2008. ISBN: 978-3-642-00825-2.
    @incollection{Pennec:ETCV:08,
    author = {X. Pennec},
    booktitle = {Emerging Trends in Visual Computing},
    doi = {DOI: 10.1007/978-3-642-00826-9_16},
    editor = {Nielsen, Frank},
    isbn = {978-3-642-00825-2},
    pages = {347--386},
    publisher = {Springer},
    series = {LNCS},
    title = {Statistical computing on manifolds: from {R}iemannian geometry to computational anatomy},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Pennec_ETVC08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616104},
    volume = {5416},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  24. Xavier Pennec, Nicholas Ayache, and Jean-Philippe Thirion. Landmark-based registration using features identified through differential geometry. In I. Bankman, editor, Handbook of Medical Image Processing and Analysis - New edition, chapter 34, pages 565-578. Academic Press, December 2008. ISBN: 13: 978-0-12-373904-9. Keyword(s): registration, matching, validation, uncertainty.
    @incollection{Pennec:HMIP:08,
    author = {Xavier Pennec and Nicholas Ayache and Jean-Philippe Thirion},
    booktitle = {Handbook of Medical Image Processing and Analysis - New edition},
    chapter = {34},
    editor = {I. Bankman},
    isbn = {13: 978-0-12-373904-9},
    keywords = {registration, matching, validation, uncertainty},
    month = {December},
    pages = {565--578},
    publisher = {Academic Press},
    title = {Landmark-based registration using features identified through differential geometry},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Pennec.HMIP08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616082},
    x-international-audience = {yes},
    year = {2008} 
    }
    


  25. Tom Vercauteren, Nicholas Ayache, Nicolas Savoire, Grégoire Malandain, and Aymeric Perchant. Processing of In Vivo Fibered Confocal Microscopy Video Sequences. In Jens Rittscher, Raghu Machiraju, and Stephen T. C. Wong, editors, Microscopic Image Analysis for Life Science Applications, chapter 19, pages 441-463. Artech House, 2008.
    @incollection{Vercauteren:MIALSA:08,
    author = {Tom Vercauteren and Nicholas Ayache and Nicolas Savoire and Gr\'egoire Malandain and Aymeric Perchant},
    booktitle = {Microscopic Image Analysis for Life Science Applications},
    chapter = {19},
    editor = {Jens Rittscher and Raghu Machiraju and Stephen T. C. Wong},
    pages = {441--463},
    publisher = {Artech House},
    title = {Processing of In Vivo Fibered Confocal Microscopy Video Sequences},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tom.Vercauteren/ProcessingInVivoFCM-Vercauteren-Chap19MIALSA08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616083},
    url-publisher = {http://www.artechhouse.com/Detail.aspx?strIsbn=978-1-59693-236-4},
    year = {2008} 
    }
    


Conference articles

  1. Barbara André and Hervé Delingette. Versatile design of changing mesh topologies for surgery simulation. In Fourth International Symposium on BioMedical Simulation (ISBMS'08), volume 5104 of Lecture Notes in Computer Science, London, UK, pages 147-156, July 2008. Springer.
    @inproceedings{Andre:ISBMS:08,
    address = {London, UK},
    author = {Barbara Andr\'e and Herv\'e Delingette},
    booktitle = {Fourth International Symposium on BioMedical Simulation (ISBMS'08)},
    month = {July},
    pages = {147--156},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Versatile design of changing mesh topologies for surgery simulation},
    url = {ftp://ftp-sop.inria.fr/asclepios/Publications/Herve.Delingette/B-Andre-ISBMS08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616115},
    volume = {5104},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  2. Florence Billet, Maxime Sermesant, Hervé Delingette, and Nicholas Ayache. Cardiac Motion Recovery by Coupling an Electromechanical Model and Cine-MRI Data: First Steps. In K. Miller and P.M.F. Nielsen, editors, Proc. of the Workshop on Computational Biomechanics for Medicine III. (Workshop MICCAI-2008), September 2008.
    @inproceedings{Billet:MICCAI:08,
    author = {Florence Billet and Maxime Sermesant and Herv\'e Delingette and Nicholas Ayache},
    booktitle = {Proc. of the Workshop on Computational Biomechanics for Medicine III. (Workshop MICCAI-2008)},
    editor = {K. Miller and P.M.F. Nielsen},
    month = {September},
    title = {Cardiac Motion Recovery by Coupling an Electromechanical Model and Cine-MRI Data: First Steps},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Florence.Billet/Billet_MICCAI08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616127},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  3. Caroline Brun, Natasha Leporé, Xavier Pennec, Yi-Yu Chou, Agatha D. Lee, Marina Barysheva, Greig I. de Zubicaray, Matthew Meredith, Katie McMahon, Margaret J. Wright, Arthur W. Toga, and Paul M. Thompson. A tensor-based morphometry study of genetic influences on brain structure using a new fluid registration method. In Dimitris Metaxas and Leon Axel, editors, Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08), volume 5242 of Lecture Notes in Computer Science, New York, USA, pages 914-921, September 2008. Springer.
    @inproceedings{Brun:MICCAI:08,
    address = {New York, USA},
    author = {Caroline Brun and Natasha Lepor\'e and Xavier Pennec and Yi-Yu Chou and Agatha D. Lee and Marina Barysheva and de Zubicaray, Greig I. and Matthew Meredith and Katie McMahon and Margaret J. Wright and Arthur W. Toga and Paul M. Thompson},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08)},
    doi = {10.1007/978-3-540-85990-1_110},
    editor = {Dimitris Metaxas and Leon Axel},
    month = {September},
    pages = {914--921},
    pmid = {18982692},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {A tensor-based morphometry study of genetic influences on brain structure using a new fluid registration method},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Brun_MICCAI08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616170},
    volume = {5242},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {US,AU},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  4. Caroline Brun, Natasha Leporé, Xavier Pennec, Yi-Yu Chou, Agatha D. Lee, Greig I. de Zubicaray, Katie McMahon, Margaret J. Wright, Marina Barysheva, Arthur W. Toga, and Paul M. Thompson. A new registration method based on Log-Euclidean Tensor metrics and its application to genetic studies. In Proc. of the 2008 IEEE Int. Symp. on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, May 14-17, pages 1115-1118, 2008.
    @inproceedings{Brun:ISBI:2008,
    author = {Caroline Brun and Natasha Lepor\'e and Xavier Pennec and Yi-Yu Chou and Agatha D. Lee and de Zubicaray, Greig I. and Katie McMahon and Margaret J. Wright and Marina Barysheva and Arthur W. Toga and Paul M. Thompson},
    booktitle = {Proc. of the 2008 IEEE Int. Symp. on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, May 14-17},
    doi = {10.1109/ISBI.2008.4541196},
    pages = {1115-1118},
    title = {A new registration method based on Log-{Euclidean} Tensor metrics and its application to genetic studies},
    url-hal = {https://hal.inria.fr/inria-00616171},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {US,AU},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  5. Olivier Commowick, Pierre Fillard, Olivier Clatz, and Simon K. Warfield. Detection of DTI White Matter Abnormalities in Multiple Sclerosis Patients. In Dimitris Metaxas and Leon Axel, editors, Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08), volume 5241 of Lecture Notes in Computer Science, New York, USA, pages 975-982, September 2008. Springer.
    Annotation:
    Erratum: In the version available from LNCS, the equation on page 3 should be $z( ilde{D}) = \left[ \left( ilde{D}_{Log} - \bar{D}_{Log} \right)^{ op} C^{-1} \left( ilde{D}_{Log} - \bar{D}_{Log} \right) \right]^{1/2}$. This has been corrected in the pdf available here.

    @inproceedings{Commowick_MICCAI_08,
    address = {New York, USA},
    annote = {Erratum: In the version available from LNCS, the equation on page 3 should be $z(	ilde{D}) = \left[ \left(	ilde{D}_{Log} - \bar{D}_{Log} \right)^{	op} C^{-1} \left(	ilde{D}_{Log} - \bar{D}_{Log} \right) \right]^{1/2}$. This has been corrected in the pdf available here.},
    author = {Olivier Commowick and Pierre Fillard and Olivier Clatz and Simon K. Warfield},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08)},
    editor = {Dimitris Metaxas and Leon Axel},
    hal-identifiant = {inria-00502709},
    month = {September},
    pages = {975-982},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Detection of DTI White Matter Abnormalities in Multiple Sclerosis Patients},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Olivier.Commowick/CommowickMiccai2008.pdf},
    url-hal = {http://hal.inria.fr/inria-00502709/en/},
    volume = {5241},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  6. Hervé Delingette. Biquadratic and Quadratic Springs for Modeling St Venant Kirchhoff Materials. In Fourth International Symposium on BioMedical Simulation (ISBMS'08), volume 5104 of Lecture Notes in Computer Science, London, UK, pages 40-48, July 2008. Springer.
    @inproceedings{Delingette:ISBMS:08,
    address = {London, UK},
    author = {Herv\'e Delingette},
    booktitle = {Fourth International Symposium on BioMedical Simulation (ISBMS'08)},
    month = {July},
    pages = {40--48},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Biquadratic and Quadratic Springs for Modeling St Venant Kirchhoff Materials},
    url = {ftp://ftp-sop.inria.fr/asclepios/Publications/Herve.Delingette/H-Delingette-ISBMS08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616116},
    volume = {5104},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  7. Stanley Durrleman, Xavier Pennec, Alain Trouvé, and Nicholas Ayache. A Forward Model to Build Unbiased Atlases from Curves and Surfaces. In X. Pennec and S. Joshi, editors, Proc. of the International Workshop on the Mathematical Foundations of Computational Anatomy (MFCA-2008), September 2008.
    @inproceedings{Durrleman:MFCA:08,
    author = {Stanley Durrleman and Xavier Pennec and Alain Trouv\'e and Nicholas Ayache},
    booktitle = {Proc. of the International Workshop on the Mathematical Foundations of Computational Anatomy (MFCA-2008)},
    editor = {X. Pennec and S. Joshi},
    month = {September},
    title = {A Forward Model to Build Unbiased Atlases from Curves and Surfaces},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Stanley.Durrleman/Durrleman_MFCA08.pdf},
    url-hal = {https://hal.inria.fr/inria-00632875},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  8. Stanley Durrleman, Xavier Pennec, Alain Trouvé, and Nicholas Ayache. Sparse Approximation of Currents for Statistics on Curves and Surfaces. In Dimitris Metaxas, Leon Axel, Gábor Székely, and Gabor Fichtinger, editors, Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI), Part II, volume 5242 of LNCS, New-York, USA, pages 390-398, September 2008. Springer.
    @inproceedings{Durrleman:MICCAI:08,
    address = {New-York, USA},
    author = {Stanley Durrleman and Xavier Pennec and Alain Trouv\'e and Nicholas Ayache},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI), Part II},
    doi = {10.1007/978-3-540-85990-1_47},
    editor = {Dimitris Metaxas and Leon Axel and G\'abor Sz\'ekely and Gabor Fichtinger},
    hal-identifiant = {inria-00286014},
    month = {September},
    pages = {390--398},
    pmid = {18982629},
    publisher = {Springer},
    series = {LNCS},
    title = {Sparse Approximation of Currents for Statistics on Curves and Surfaces},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Stanley.Durrleman/Durrleman_MICCAI08.pdf},
    url-hal = {https://hal.inria.fr/inria-00286014},
    volume = {5242},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  9. Tristan Glatard, Johan Montagnat, and Xavier Pennec. A Probabilistic Model to Analyse Workflow Performance on Production Grids. In 8th IEEE International Symposium on Cluster Computing and the Grid (CCGRID'08), pages 510-517, May 2008. IEEE.
    @inproceedings{Glatard:CCGrid:2008,
    author = {Tristan Glatard and Johan Montagnat and Xavier Pennec},
    booktitle = {8th IEEE International Symposium on Cluster Computing and the Grid (CCGRID'08)},
    doi = {10.1109/CCGRID.2008.123},
    hal-identifiant = {hal-00481713},
    month = {May},
    pages = {510--517},
    publisher = {IEEE},
    title = {A Probabilistic Model to Analyse Workflow Performance on Production Grids},
    url = {http://rainbow.polytech.unice.fr/publis/glatard-montagnat-etal:2008b.pdf},
    url-hal = {http://hal.inria.fr/hal-00481713/en/},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  10. Tristan Glatard, Johan Montagnat, and Xavier Pennec. A framework for evaluating the impact of compression on registration algorithms without gold standard. In International Conference on Image Processing, pages 2912-2915, 2008.
    @inproceedings{Glatard:ICIP:08,
    author = {Tristan Glatard and Johan Montagnat and Xavier Pennec},
    booktitle = {International Conference on Image Processing},
    doi = {10.1109/ICIP.2008.4712404},
    pages = {2912--2915},
    title = {A framework for evaluating the impact of compression on registration algorithms without gold standard},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Glatard.ICIP08.pdf},
    url-hal = {https://hal.archives-ouvertes.fr/hal-00683112},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  11. Monica Hernandez, Salvador Olmos, and Xavier Pennec. Comparing algorithms for diffeomorphic registration: Stationary LDDMM and Diffeomorphic Demons. In X. Pennec and S. Joshi, editors, Proc. of the International Workshop on the Mathematical Foundations of Computational Anatomy (MFCA-2008), September 2008.
    @inproceedings{Hernandez:MFCA:08,
    author = {Monica Hernandez and Salvador Olmos and Xavier Pennec},
    booktitle = {Proc. of the International Workshop on the Mathematical Foundations of Computational Anatomy (MFCA-2008)},
    editor = {X. Pennec and S. Joshi},
    month = {September},
    title = {Comparing algorithms for diffeomorphic registration: Stationary LDDMM and Diffeomorphic Demons},
    url = {http://www.inria.fr/sophia/asclepios/events/MFCA08/Proceedings/mfca08_1_3.pdf},
    url-hal = {https://hal.inria.fr/inria-00629883},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {ES},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  12. Heike Hufnagel, Xavier Pennec, Jan Ehrhardt, Nicholas Ayache, and Heinz Handels. A Global Criterion for the Computation of Statistical Shape Model Parameters Based on Correspondence Probabilities. In Springer, editor, Bildverarbeitung für die Medizin 2008, volume 14 of Informatik aktuell, pages 277-282, 2008.
    @inproceedings{Hufnagel:BVM:08,
    author = {Heike Hufnagel and Xavier Pennec and Jan Ehrhardt and Nicholas Ayache and Heinz Handels},
    booktitle = {Bildverarbeitung f\"ur die Medizin 2008},
    doi = {10.1007/978-3-540-78640-5_56},
    editor = { Springer},
    pages = {277-282},
    series = {Informatik aktuell},
    title = {A Global Criterion for the Computation of Statistical Shape Model Parameters Based on Correspondence Probabilities},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Heike.Hufnagel/Hufnagel_BVM08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616114},
    volume = {14},
    x-international-audience = {no},
    x-pays = {DE},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  13. H. Hufnagel, X. Pennec, J. Ehrhardt, N. Ayache, and H. Handels. Comparison of Statistical Shape Models Built on Correspondence Probabilities and One-to-One Correspondences. In Proc. SPIE Symposium on Medical Imaging '08, volume 6914 of SPIE Conference Series, San Diego, USA, February 2008.
    @inproceedings{Hufnagel:SPIE:08,
    address = {San Diego, USA},
    author = {H. Hufnagel and X. Pennec and J. Ehrhardt and N. Ayache and H. Handels},
    booktitle = {Proc. SPIE Symposium on Medical Imaging '08},
    doi = {10.1117/12.771136},
    month = {February},
    series = {SPIE Conference Series},
    title = {Comparison of Statistical Shape Models Built on Correspondence Probabilities and One-to-One Correspondences},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Heike.Hufnagel/hufnagel_SPIO08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616124},
    volume = {6914},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {DE},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  14. Ender Konukoglu, W.M. Wells, S. Novellas, Nicholas Ayache, R. Kikinis, P.M. Black, and K.M. Pohl. Monitoring Slowly Evolving Tumors. In In Proceedings of the IEEE Internation Symposium on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, May 2008.
    @inproceedings{Konukoglu:ISBI:08,
    address = {Paris, France},
    author = {Ender Konukoglu and W.M. Wells and S. Novellas and Nicholas Ayache and R. Kikinis and P.M. Black and K.M. Pohl},
    booktitle = {In Proceedings of the IEEE Internation Symposium on Biomedical Imaging: From Nano to Macro (ISBI'08)},
    month = {May},
    title = {Monitoring Slowly Evolving Tumors},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Ender.Konukoglu/isbi08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616117},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  15. Damien Lepiller, Maxime Sermesant, Mihaela Pop, Hervé Delingette, Graham A. Wright, and Nicholas Ayache. Cardiac Electrophysiology Model Adjustment Using the Fusion of MR and Optical Imaging. In Dimitris N. Metaxas, Leon Axel, Gabor Fichtinger, and Gábor Székely, editors, Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08), volume 5241 of Lecture Notes in Computer Science, pages 678-685, 2008. Springer.
    @inproceedings{Lepiller:MICCAI:2008,
    author = {Damien Lepiller and Maxime Sermesant and Mihaela Pop and Herv\'e Delingette and Graham A. Wright and Nicholas Ayache},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08)},
    editor = {Dimitris N. Metaxas and Leon Axel and Gabor Fichtinger and G\'abor Sz\'ekely},
    pages = {678-685},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Cardiac Electrophysiology Model Adjustment Using the Fusion of MR and Optical Imaging},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/LepillerMICCAI2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616121},
    volume = {5241},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  16. Natasha Leporé, Caroline Brun, Yi-Yu Chou, Agatha D. Lee, Marina Barysheva, Xavier Pennec, Katie McMahon, Matthew Meredith, Greig I. de Zubicaray, Margaret J. Wright, Arthur W. Toga, and Paul M. Thompson. Best individual template selection from deformation tensor minimization. In Proc. of the 2008 IEEE Int. Symp. on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, May 14-17, pages 460-463, 2008.
    @inproceedings{Lepore:ISBI:08,
    author = {Natasha Lepor\'e and Caroline Brun and Yi-Yu Chou and Agatha D. Lee and Marina Barysheva and Xavier Pennec and Katie McMahon and Matthew Meredith and de Zubicaray, Greig I. and Margaret J. Wright and Arthur W. Toga and Paul M. Thompson},
    booktitle = {Proc. of the 2008 IEEE Int. Symp. on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, May 14-17},
    doi = {10.1109/ISBI.2008.4541032},
    pages = {460-463},
    title = {Best individual template selection from deformation tensor minimization},
    url-hal = {https://hal.inria.fr/inria-00616172},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {US,AU},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  17. Erik Pernod, Jean-Christophe Souplet, Javier Rojas Balderrama, Diane Lingrand, and Xavier Pennec. Multiple Sclerosis Brain MRI Segmentation Workflow deployment on the EGEE Grid. In MICCAI-Grid Workshop (MICCAI-Grid), New York, NY, USA, pages 55-64, September 2008.
    @inproceedings{pernod:miccaigrid:2008,
    address = {New York, NY, USA},
    author = {Erik Pernod and Jean-Christophe Souplet and Rojas Balderrama, Javier and Diane Lingrand and Xavier Pennec},
    booktitle = {MICCAI-Grid Workshop (MICCAI-Grid)},
    hal-identifiant = {hal-00459138},
    month = {September},
    pages = {55-64},
    title = {Multiple Sclerosis Brain MRI Segmentation Workflow deployment on the EGEE Grid},
    url = {http://www.i3s.unice.fr/~johan/MICCAI-Grid/pdf/MICCAIGproceedings2008.pdf},
    url-hal = {https://hal.archives-ouvertes.fr/hal-00459138},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  18. Jean-Marc Peyrat, Hervé Delingette, Maxime Sermesant, Xavier Pennec, Chenyang Xu, and Nicholas Ayache. Registration of 4D Time-Series of Cardiac Images with Multichannel Diffeomorphic Demons. In Dimitris Metaxas, Leon Axel, Gabor Fichtinger, and Gábor Székely, editors, Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08), volume 5242 of Lecture Notes in Computer Science, New York, USA, pages 972-979, September 2008. Springer.
    @inproceedings{Peyrat:MICCAI:08,
    address = {New York, USA},
    author = {Jean-Marc Peyrat and Herv\'e Delingette and Maxime Sermesant and Xavier Pennec and Chenyang Xu and Nicholas Ayache},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08)},
    doi = {10.1007/978-3-540-85990-1_117},
    editor = {Dimitris Metaxas and Leon Axel and Gabor Fichtinger and G\'abor Sz\'ekely},
    month = {September},
    pages = {972--979},
    pmid = {18982699},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Registration of 4D Time-Series of Cardiac Images with Multichannel Diffeomorphic Demons},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Jean-Marc.Peyrat/Peyrat_2008_MICCAI.pdf},
    url-hal = {https://hal.inria.fr/inria-00616122},
    volume = {5242},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  19. Jean-Christophe Souplet, Christine Lebrun, Nicholas Ayache, and Grégoire Malandain. A New Evaluation Of The Brain Parenchymal Fraction: Application In Multiple Sclerosis Longitudinal Studies. In Proceedings of the IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, pages 65-68, May 2008. IEEE.
    @inproceedings{Souplet:ISBI:08,
    address = {Paris, France},
    author = {Jean-Christophe Souplet and Christine Lebrun and Nicholas Ayache and Gr\'egoire Malandain},
    booktitle = {Proceedings of the IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI'08)},
    month = {May},
    pages = {65-68},
    publisher = {IEEE},
    title = {A New Evaluation Of The Brain Parenchymal Fraction: Application In Multiple Sclerosis Longitudinal Studies},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Jean-Christophe.Souplet/souplet-ISBI-2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616128},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  20. Jean-Christophe Souplet, Christine Lebrun, Nicholas Ayache, and Grégoire Malandain. An Automatic Segmentation of T2-FLAIR Multiple Sclerosis Lesions. In MICCAI-Multiple Sclerosis Lesion Segmentation Challenge Workshop, New York, NY, USA, September 2008.
    @inproceedings{souplet_miccaichallenge_2008,
    address = {New York, NY, USA},
    author = {Jean-Christophe Souplet and Christine Lebrun and Nicholas Ayache and Gr\'egoire Malandain},
    booktitle = {MICCAI-Multiple Sclerosis Lesion Segmentation Challenge Workshop},
    month = {September},
    title = {An Automatic Segmentation of T2-FLAIR Multiple Sclerosis Lesions},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Jean-Christophe.Souplet/souplet-MICCAIMSchallenge-2008.pdf},
    url-hal = {https://hal.inria.fr/inria-00616119},
    x-international-audience = {yes},
    x-proceedings = {no},
    year = {2008} 
    }
    


  21. N. Toussaint, T. Mansi, H. Delingette, Nicholas Ayache, and M. Sermesant. An Integrated Platform for Dynamic Cardiac Simulation and Image Processing: Application to Personalised Tetralogy of Fallot Simulation. In Proc. Eurographics Workshop on Visual Computing for Biomedicine (VCBM), Delft, The Netherlands, 2008. Keyword(s): Cardiac Simulation, Freeware, Dynamics, Visualization, VTK.
    @inproceedings{Toussaint:VCBM:08,
    address = {Delft, The Netherlands},
    author = {N. Toussaint and T. Mansi and H. Delingette and Nicholas Ayache and M. Sermesant},
    booktitle = {Proc. Eurographics Workshop on Visual Computing for Biomedicine (VCBM)},
    keywords = {Cardiac Simulation, Freeware, Dynamics, Visualization, VTK},
    title = {An Integrated Platform for Dynamic Cardiac Simulation and Image Processing: Application to Personalised Tetralogy of Fallot Simulation},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Nicolas.Toussaint/Toussaint.VCBM08.pdf},
    url-hal = {https://hal.inria.fr/inria-00616120},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  22. Tom Vercauteren, Alexander Meining, François Lacombe, and Aymeric Perchant. Real Time Autonomous Video Image Registration for Endomicroscopy: Fighting The Compromises. In Jose-Angel Conchello, Carol J. Cogswell, and Tony Wilson, editors, Proc. SPIE BIOS - Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XV, volume 6861, San Jose, CA, USA, pages 68610C, January 2008. SPIE.
    @inproceedings{Vercauteren:SPIEBIOS:08,
    address = {San Jose, CA, USA},
    author = {Tom Vercauteren and Alexander Meining and Fran\c{c}ois Lacombe and Aymeric Perchant},
    booktitle = {Proc. SPIE BIOS - Three-Dimensional and Multidimensional Microscopy: Image Acquisition and Processing XV},
    doi = {10.1117/12.763089},
    editor = {Jose-Angel Conchello and Carol J. Cogswell and Tony Wilson},
    month = {January},
    pages = {68610C},
    publisher = {SPIE},
    title = {Real Time Autonomous Video Image Registration for Endomicroscopy: Fighting The Compromises},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tom.Vercauteren/RealTimeMosaicing-SPIEBIOS07-Vercauteren.pdf},
    url-hal = {https://hal.inria.fr/inria-00616123},
    volume = {6861},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  23. Tom Vercauteren, Xavier Pennec, Aymeric Perchant, and Nicholas Ayache. Symmetric Log-Domain Diffeomorphic Registration: A Demons-based Approach. In Dimitris Metaxas, Leon Axel, Gabor Fichtinger, and Gábor Székely, editors, Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08), Part I, volume 5241 of Lecture Notes in Computer Science, New York, USA, pages 754-761, September 2008. Springer.
    @inproceedings{Vercauteren:MICCAI:08,
    address = {New York, USA},
    author = {Tom Vercauteren and Xavier Pennec and Aymeric Perchant and Nicholas Ayache},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08), Part I},
    doi = {10.1007/978-3-540-85988-8_90},
    editor = {Dimitris Metaxas and Leon Axel and Gabor Fichtinger and G\'abor Sz\'ekely},
    hal-identifiant = {inria-00280602},
    month = {September},
    pages = {754--761},
    pmid = {18979814},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Symmetric Log-Domain Diffeomorphic Registration: A Demons-based Approach},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tom.Vercauteren/SymLogDemons-MICCAI08-Vercauteren.pdf},
    url-hal = {https://hal.inria.fr/inria-00280602},
    volume = {5241},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  24. Boon Thye Thomas Yeo, Mert Sabuncu, Tom Vercauteren, Nicholas Ayache, Bruce Fischl, and Polina Golland. Spherical Demons: Fast Surface Registration. In Dimitris Metaxas, Leon Axel, Gabor Fichtinger, and Gábor Székely, editors, Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08), volume 5241 of Lecture Notes in Computer Science, New York, USA, pages 745-753, September 2008. Springer. Note: Source code found here.
    @inproceedings{Yeo:MICCAI:08,
    address = {New York, USA},
    author = {Boon Thye Thomas Yeo and Mert Sabuncu and Tom Vercauteren and Nicholas Ayache and Bruce Fischl and Polina Golland},
    booktitle = {Proc. Medical Image Computing and Computer Assisted Intervention (MICCAI'08)},
    doi = {10.1007/978-3-540-85988-8_89},
    editor = {Dimitris Metaxas and Leon Axel and Gabor Fichtinger and G\'abor Sz\'ekely},
    hal-identifiant = {inria-00287048},
    month = {September},
    note = {Source code found here},
    pages = {745--753},
    pmid = {18979813},
    publisher = {Springer},
    series = {Lecture Notes in Computer Science},
    title = {Spherical Demons: Fast Surface Registration},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Tom.Vercauteren/SphericalDemons-MICCAI08-Yeo.pdf},
    url-hal = {https://hal.inria.fr/inria-00287048},
    volume = {5241},
    x-international-audience = {yes},
    x-proceedings = {yes},
    year = {2008} 
    }
    


  25. Boon Thye Thomas Yeo, Tom Vercauteren, Pierre Fillard, Xavier Pennec, Polina Golland, Nicholas Ayache, and Olivier Clatz. DTI Registration with Exact Finite-Strain Differential. In Proceedings of the IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI'08), Paris, France, May 2008. IEEE.
    @inproceedings{Yeo:ISBI:08,
    address = {Paris, France},
    author = {Boon Thye Thomas Yeo and Tom Vercauteren and Pierre Fillard and Xavier Pennec and Polina Golland and Nicholas Ayache and Olivier Clatz},
    booktitle = {Proceedings of the IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI'08)},
    doi = {10.1109/ISBI.2008.4541092},
    hal-identifiant = {inria-00272326},
    month = {May},
    publisher = {IEEE},
    title = {DTI Registration with Exact Finite-Strain Differential},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Olivier.Clatz/DTIDiffeomorphicDemons-ISBI08-Yeo.pdf},
    url-hal = {https://hal.inria.fr/inria-00272326},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {US},
    x-proceedings = {yes},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


Internal reports

  1. Stanley Durrleman, Xavier Pennec, Alain Trouvé, and Nicholas Ayache. Sparse Approximation of Currents for Statistics on Curves and Surfaces. Research report RR-6571, INRIA, June 2008.
    @techreport{Durrleman:ResearchReport:08,
    author = {Stanley Durrleman and Xavier Pennec and Alain Trouv\'e and Nicholas Ayache},
    hal-identifiant = {inria-00286014},
    institution = {INRIA},
    month = {June},
    number = {RR-6571},
    title = {Sparse Approximation of Currents for Statistics on Curves and Surfaces},
    type = {Research report},
    url-hal = {https://hal.inria.fr/inria-00286014},
    year = {2008} 
    }
    


Miscellaneous

  1. François Hebert. Segmentation de l'intestin grêle dans le cadre de la maladie de Crohn. Master's Thesis, Master IGMMV, Université de Nice Sophia-Antipolis, 2008.
    @mastersthesis{hebert:master:2008,
    author = {Fran\c{c}ois Hebert},
    school = {Master IGMMV, Universit\'e de Nice Sophia-Antipolis},
    title = {Segmentation de l'intestin gr\^ele dans le cadre de la maladie de Crohn},
    type = {Master's Thesis},
    year = {2008} 
    }
    


  2. Erik Pernod. Interface Development for Medical Imaging Applications in the framework of the Multiple Sclerosis Disease. Rapport de fin d'études, Institut des Sciences de l'Ingénieur de Toulon et du Var, 2008.
    @mastersthesis{pernod:stage:2008,
    author = {Erik Pernod},
    school = {Institut des Sciences de l'Ing\'enieur de Toulon et du Var},
    title = {Interface Development for Medical Imaging Applications in the framework of the Multiple Sclerosis Disease},
    type = {Rapport de fin d'\'etudes},
    year = {2008} 
    }
    


  3. C Brun, N Leporé, X Pennec, YY Chou, AD Lee, M Barysheva, K McMahon, GI de Zubicaray, M Wright, AW Toga, and PM Thompson. Volumetric Differences in Brain Structure in Identical and Fraternal Twins Computed using Riemannian Tensor-Based Morphometry. 13th Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 15-19, 2008.
    @misc{Brun:OHBM:08,
    address = {Melbourne, Australia},
    author = {C Brun and N Lepor\'e and X Pennec and YY Chou and AD Lee and M Barysheva and K McMahon and de Zubicaray, GI and M Wright and AW Toga and PM Thompson},
    howpublished = {13th Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 15-19},
    title = {Volumetric Differences in Brain Structure in Identical and Fraternal Twins Computed using {R}iemannian Tensor-Based Morphometry},
    url-hal = {https://hal.inria.fr/hal-00875380},
    x-editorial-board = {yes},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-pays = {US,AU},
    x-proceedings = {no},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  4. A. Isambert, V. Grégoire, F. Bidault, M. Benkebil, L. Ramus, J. Bourhis, and D. Lefkopoulos. Evaluation d'un algorithme de segmentation automatique des structures d'intérêt dans la sphère ORL. 19e Congrès de la Société Française de Radiothérapie Oncologique (SFRO), 2008. Note: Cancer radiothérapie 12(6-7):743, 2008.
    @misc{isambert:sfro:2008,
    author = {A. Isambert and V. Gr\'egoire and F. Bidault and M. Benkebil and L. Ramus and J. Bourhis and D. Lefkopoulos},
    howpublished = {19e Congr\`es de la Soci\'et\'e Fran\c{c}aise de Radioth\'erapie Oncologique (SFRO)},
    note = {Cancer radioth\'erapie 12(6-7):743, 2008},
    title = {Evaluation d'un algorithme de segmentation automatique des structures d'int\'er\^et dans la sph\`ere ORL},
    url = {http://www.inria.fr/sophia/asclepios/Publications/Gregoire.Malandain/isambert-sfro-2008.pdf},
    year = {2008} 
    }
    


  5. Tommaso Mansi, Maxime Sermesant, Martin Huber, Andrew Taylor, Giacomo Pongiglione, Xavier Pennec, and Younes Boudjemline. Modélisation électromécanique du coeur et analyse d'images. Archives de Pédiatrie - Congrès des Sociétés Françaises Médico-chirurgicales Pédiatriques, February 2008. Note: Archives de Pédiatrie 15(5):1032 -- Special award for best presentation.
    @misc{Mansi:SFP:08,
    author = {Tommaso Mansi and Maxime Sermesant and Martin Huber and Andrew Taylor and Giacomo Pongiglione and Xavier Pennec and Younes Boudjemline},
    howpublished = {Archives de P\'ediatrie - Congr\`es des Soci\'et\'es Fran\c{c}aises M\'edico-chirurgicales P\'ediatriques},
    month = {February},
    note = {Archives de P\'ediatrie 15(5):1032 -- Special award for best presentation},
    title = {Mod\'elisation \'electrom\'ecanique du coeur et analyse d'images},
    x-international-audience = {no},
    x-invited-conference = {no},
    x-pays = {DE,UK,IT},
    x-proceedings = {no},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  6. Sébastien Novellas, Grégoire Malandain, Jimena Costa, Jean-Christophe Souplet, Nicholas Ayache, and P Chevallier. Apport d'un algorithme de segmentation semi-automatique pour analyse des adénopathies médiastinales. Journées Françaises de Radiologie, October 2008.
    @misc{Novellas_JFR_08,
    author = {S\'ebastien Novellas and Gr\'egoire Malandain and Jimena Costa and Jean-Christophe Souplet and Nicholas Ayache and P Chevallier},
    howpublished = {Journ\'ees Fran\c{c}aises de Radiologie},
    month = {October},
    title = {Apport d'un algorithme de segmentation semi-automatique pour analyse des ad\'enopathies m\'ediastinales},
    x-international-audience = {no},
    x-proceedings = {no},
    year = {2008} 
    }
    


  7. Erik Pernod, Jean-Christophe Souplet, Mikael Cohen, Nicolas Toussaint, Christine Lebrun, and Grégoire Malandain. SepINRIA v1.7.2: Multiple Sclerosis Brain MRI visualisation, comparison and analysis Software. World Congress for Treatment and Research in Multiple Sclerosis (WCTRIMS), September 2008. Keyword(s): multiple sclerosis, SepINRIA.
    @misc{Pernod_WCTRMS_08,
    author = {Erik Pernod and Jean-Christophe Souplet and Mikael Cohen and Nicolas Toussaint and Christine Lebrun and Gr\'egoire Malandain},
    howpublished = {World Congress for Treatment and Research in Multiple Sclerosis (WCTRIMS)},
    keywords = {multiple sclerosis, SepINRIA},
    month = {September},
    title = {SepINRIA v1.7.2: Multiple Sclerosis Brain MRI visualisation, comparison and analysis Software},
    x-international-audience = {yes},
    x-proceedings = {no},
    year = {2008} 
    }
    


  8. Javier Rojas Balderrama, Diane Lingrand, Erik Pernod, Jean-Christophe Souplet, Xavier Pennec, and Johan Montagnat. NeuroLOG: neuroscience application workflows execution on the EGEE grid. Enabling Grid for E-sciencE (EGEE) conference, September 2008. Note: EGEE'08 best paper award.
    @misc{BALDERRAMA_EGEE_08,
    address = {Istanbul, Turkey},
    author = {Rojas Balderrama, Javier and Diane Lingrand and Erik Pernod and Jean-Christophe Souplet and Xavier Pennec and Johan Montagnat},
    hal-identifiant = {hal-00461625},
    howpublished = {Enabling Grid for E-sciencE (EGEE) conference},
    month = {September},
    note = {EGEE'08 best paper award},
    title = {NeuroLOG: neuroscience application workflows execution on the EGEE grid},
    url-hal = {http://hal.inria.fr/hal-00461625/en/},
    x-international-audience = {yes},
    x-invited-conference = {no},
    x-proceedings = {no},
    x-scientific-popularization = {no},
    year = {2008} 
    }
    


  9. Jean-Christophe Souplet, Pierre Fillard, Nicolas Toussaint, Christine Lebrun, and Grégoire Malandain. SepINRIA: A software to analyse Multiple Sclerosis Brain MRI. 60th American Academy of Neurology Annual Meeting, April 2008. Keyword(s): multiple sclerosis, SepINRIA.
    @misc{Souplet:AANa:08,
    author = {Jean-Christophe Souplet and Pierre Fillard and Nicolas Toussaint and Christine Lebrun and Gr\'egoire Malandain},
    howpublished = {60th American Academy of Neurology Annual Meeting},
    keywords = {multiple sclerosis, SepINRIA},
    month = {April},
    title = {SepINRIA: A software to analyse Multiple Sclerosis Brain MRI},
    x-international-audience = {yes},
    x-proceedings = {no},
    year = {2008} 
    }
    


  10. Jean-Christophe Souplet, Christine Lebrun, Pierre Clavelou, William Camu, Stéphane Chanalet, Nicholas Ayache, and Grégoire Malandain. A Comparative Study of Atrophy Measurements in Multiple Sclerosis. 17th Franco-UK scientific meeting of ARSEP (François Lhermitte Conferences), March 2008.
    @misc{Souplet:ARSEP:08,
    address = {Paris, France},
    author = {Jean-Christophe Souplet and Christine Lebrun and Pierre Clavelou and William Camu and St\'ephane Chanalet and Nicholas Ayache and Gr\'egoire Malandain},
    howpublished = {17th Franco-UK scientific meeting of ARSEP (Fran\c{c}ois Lhermitte Conferences)},
    month = {March},
    title = {A Comparative Study of Atrophy Measurements in Multiple Sclerosis},
    x-international-audience = {yes},
    x-proceedings = {no},
    year = {2008} 
    }
    


  11. Jean-Christophe Souplet, Christine Lebrun, Pierre Clavelou, William Camu, Stéphane Chanalet, Nicholas Ayache, and Grégoire Malandain. A New Atrophy Measurement Method dedicated to Multiple Sclerosis. 60th American Academy of Neurology Annual Meeting, April 2008.
    @misc{Souplet:AANb:08,
    address = {Chicago, USA},
    author = {Jean-Christophe Souplet and Christine Lebrun and Pierre Clavelou and William Camu and St\'ephane Chanalet and Nicholas Ayache and Gr\'egoire Malandain},
    howpublished = {60th American Academy of Neurology Annual Meeting},
    month = {April},
    title = {A New Atrophy Measurement Method dedicated to Multiple Sclerosis},
    x-international-audience = {yes},
    x-proceedings = {no},
    year = {2008} 
    }
    


  12. Jean-Christophe Souplet, Christine Lebrun, and Grégoire Malandain. SepINRIA v1.7.1: A Free Software for Lesion Segmentation and Atrophy Evaluation dedicated to Multiple Sclerosis Brain MRI. Journal of Neurology - 18th European Neurological Society Meeting, June 2008. Keyword(s): multiple sclerosis, SepINRIA.
    @misc{Souplet_ENS_08,
    address = {Nice, France},
    author = {Jean-Christophe Souplet and Christine Lebrun and Gr\'egoire Malandain},
    howpublished = {Journal of Neurology - 18th European Neurological Society Meeting},
    keywords = {multiple sclerosis, SepINRIA},
    month = {June},
    pages = {208},
    publisher = {Springer},
    title = {SepINRIA v1.7.1: A Free Software for Lesion Segmentation and Atrophy Evaluation dedicated to Multiple Sclerosis Brain MRI},
    volume = {255},
    x-international-audience = {yes},
    x-proceedings = {no},
    year = {2008} 
    }
    


  13. Jean-Christophe Souplet, Christine Lebrun, and Grégoire Malandain. SepINRIA: Un logiciel gratuit dédié à l'analyse d'Images de Résonance Magnétique cérébrales de patients atteints de sclérose en Plaques. Journées de Neurologie de Langue Française, April 2008. Keyword(s): multiple sclerosis, SepINRIA.
    @misc{Souplet_JNLF_08,
    address = {Nice, France},
    author = {Jean-Christophe Souplet and Christine Lebrun and Gr\'egoire Malandain},
    howpublished = {Journ\'ees de Neurologie de Langue Fran\c{c}aise},
    keywords = {multiple sclerosis, SepINRIA},
    month = {April},
    title = {SepINRIA: Un logiciel gratuit d\'edi\'e \`a l'analyse d'Images de R\'esonance Magn\'etique c\'er\'ebrales de patients atteints de scl\'erose en Plaques},
    x-international-audience = {no},
    x-proceedings = {no},
    year = {2008} 
    }
    



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