Bibliography

• 1N. Ayache (editor)
  
  Computational Models for the Human Body, Handbook of Numerical Analysis (Ph. Ciarlet series editor), Elsevier, 2004.
• 2N. Ayache, H. Delingette (editors)
  
  Proceedings of the International Symposium on Surgery Simulation and Soft Tissue Modeling, Lecture Notes in Computer Science, Springer-Verlag, Juan-les-Pins, France, June 2003, vol. LNCS 2673.
• 3V. Arsigny, P. Fillard, X. Pennec, N. Ayache.
  
  Log-Euclidean Metrics for Fast and Simple Calculus on Diffusion Tensors, in: Magnetic Resonance in Medicine, August 2006, vol. 56, n^o 2, p. 411-421, PMID: 16788917.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_mrm_2006.pdf
• 4N. Ayache.
  
  Epidaure: a Research Project in Medical Image Analysis, Simulation and Robotics at INRIA, in: IEEE Trans. on Medical Imaging, October 2003, vol. 22, n^o 10, p. 1185–1201.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Ayache/Ayache-editorial-ieee-tmi.pdf
• 5N. Ayache.
  
  L'analyse automatique des images medicales, etat de l'art et perspectives, in: Annales de l'Institut Pasteur, avril-juin 1998, vol. 9, n^o 1, p. 13-21, Numero special sur les progres recents de l'imagerie medicale.
• 6N. Ayache, O. Clatz, H. Delingette, G. Malandain, X. Pennec, M. Sermesant.
  
  Asclepios: a Research Project-Team at INRIA for the Analysis and Simulation of Biomedical Images, in: From semantics to computer science: essays in honor of Gilles Kahn, Y. Bertot, G. Huet, J.-J. Lévy, G. Plotkin (editors), Cambridge University Press, 2009.
  
  http://www.inria.fr/sophia/asclepios/Publications/Nicholas.Ayache/Colloquium-Gilles-Kahn-NA-2007-v5.pdf
• 7C. Blondel, R. Vaillant, G. Malandain, N. Ayache.
  
  3-D tomographic reconstruction of coronary arteries using a precomputed 4-D motion field, in: Physics in Medicine and Biology, 2004, vol. 49, n^o 11, p. 2197–2208.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Malandain/blondel-pmb-2004.pdf
• 8P. Cachier, É. Bardinet, D. Dormont, X. Pennec, N. Ayache.
  
  Iconic Feature Based Nonrigid Registration: The PASHA Algorithm, in: CVIU — Special Issue on Nonrigid Registration, Feb.-march 2003, vol. 89, n^o 2-3, p. 272–298.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Cachier/Cachier_CVIU_2003.pdf
• 9O. Clatz, M. Sermesant, P.-Y. Bondiau, H. Delingette, S. K. Warfield, G. Malandain, N. Ayache.
  
  Realistic Simulation of the 3D Growth of Brain Tumors in MR Images Coupling Diffusion with Mass Effect, in: IEEE Transactions on Medical Imaging, October 2005, vol. 24, n^o 10, p. 1334-1346.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Clatz/TMI_GBM_clatz.pdf
• 10H. Delingette, N. Ayache.
  
  Soft Tissue Modeling for Surgery Simulation, in: Computational Models for the Human Body, N. Ayache (editor), Handbook of Numerical Analysis (Ed : Ph. Ciarlet), Elsevier, 2004.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/hna-delingette.pdf
• 11H. Delingette.
  
  General Object Reconstruction based on Simplex Meshes, in: International Journal of Computer Vision, 1999, vol. 32, n^o 2, p. 111-146.
• 12J. Duncan, N. Ayache.
  
  Medical Image Analysis: Progress over two decades and the challenges ahead, in: IEEE Transactions on Pattern Analysis and Machine Intelligence, 2000, vol. 22, n^o 1, p. 85-106.
• 13M. Á. González Ballester, X. Pennec, M. G. Linguraru, N. Ayache.
  
  Generalized Image Models and Their Application as Statistical Models of Images, in: Medical Image Analysis, September 2004, vol. 8, n^o 3, p. 361–369, MICCAI 2003 Special Issue.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Gonzalez/Gonzalez:MedIA:2004.pdf
• 14K. Krissian, G. Malandain, N. Ayache, R. Vaillant, Y. Trousset.
  
  Model-Based Detection of Tubular Structures in 3D Images, in: Computer Vision and Image Understanding, 2000, vol. 80, n^o 2, p. 130–171.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Malandain/krissian-cviu-2000.pdf
• 15G. Malandain, É. Bardinet, K. Nelissen, W. Vanduffel.
  
  Fusion of autoradiographs with an MR volume using 2-D and 3-D linear transformations, in: NeuroImage, September 2004, vol. 23, n^o 1, p. 111–127.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Malandain/malandain-neuroimage-2004.pdf
• 16J. Montagnat, H. Delingette.
  
  4D Deformable Models with temporal constraints : application to 4D cardiac image segmentation, in: Medical Image Analysis, February 2005, vol. 9, n^o 1, p. 87–100.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/montagnat-Media04.pdf
• 17X. Pennec, P. Fillard, N. Ayache.
  
  A Riemannian Framework for Tensor Computing, in: International Journal of Computer Vision, January 2006, vol. 66, n^o 1, p. 41–66, A preliminary version appeared as INRIA Research Report 5255, July 2004.. [ DOI : 10.1007/s11263-005-3222-z ]
  
  http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Pennec.IJCV05.pdf
• 18X. Pennec.
  
  Intrinsic Statistics on Riemannian Manifolds: Basic Tools for Geometric Measurements, in: Journal of Mathematical Imaging and Vision, July 2006, vol. 25, n^o 1, p. 127-154, A preliminary appeared as INRIA RR-5093, January 2004.. [ DOI : 10.1007/s10851-006-6228-4 ]
  
  http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Pennec.JMIV06.pdf
• 19G. Picinbono, H. Delingette, N. Ayache.
  
  Non-Linear Anisotropic Elasticity for Real-Time Surgery Simulation, in: Graphical Models, September 2003, vol. 65, n^o 5, p. 305–321.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/Picinbono-GM03.pdf
• 20S. Prima, S. Ourselin, N. Ayache.
  
  Computation of the Mid-Sagittal Plane in 3D Brain Images, in: IEEE Transaction on Medical Imaging, February 2002, vol. 21, n^o 2, p. 122–138.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Prima/tmi.final.pdf
• 21D. Rey, G. Subsol, H. Delingette, N. Ayache.
  
  Automatic Detection and Segmentation of Evolving Processes in 3D Medical Images: Application to Multiple Sclerosis, in: Medical Image Analysis, June 2002, vol. 6, n^o 2, p. 163-179.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Rey/rey-media-2002.pdf
• 22A. Roche, G. Malandain, N. Ayache.
  
  Unifying Maximum Likelihood Approaches in Medical Image Registration, in: International Journal of Imaging Systems and Technology: Special Issue on 3D Imaging, 2000, vol. 11, n^o 1, p. 71–80.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Roche/ijist00.pdf
• 23A. Roche, X. Pennec, G. Malandain, N. Ayache.
  
  Rigid Registration of 3D Ultrasound with MR Images: a New Approach Combining Intensity and Gradient Information, in: IEEE Transactions on Medical Imaging, October 2001, vol. 20, n^o 10, p. 1038–1049.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Roche/Roche_MR_US_TMI_2001.pdf
• 24M. Sermesant, H. Delingette, N. Ayache.
  
  An Electromechanical Model of the Heart for Image Analysis and Simulation, in: IEEE Transactions in Medical Imaging, 2007, vol. 25, n^o 5, p. 612–625.
  
  ftp://ftp-sop.inria.fr/asclepios/Publications/Maxime.Sermesant/TMI2006Sermesant.pdf
• 25M. Sermesant, C. Forest, X. Pennec, H. Delingette, N. Ayache.
  
  Deformable biomechanical models: Application to 4D cardiac image analysis, in: Medical Image Analysis, December 2003, vol. 7, n^o 4, p. 475–488.
  
  http://authors.elsevier.com/sd/article/S1361841503000689

Doctoral Dissertations and Habilitation Theses

• 26B. André.
  
  Smart Atlas for Endomicroscopy Diagnosis Support: A Clinical Application of Content-Based Image Retrieval, Ecole Nationale Supérieure des Mines de Paris, October 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Barbara.Andre/PhD-Thesis-Barbara-ANDRE.pdf
• 27F. Chung.
  
  Regional appearance modeling for deformable model-based image segmentation, Ecole Nationale Supérieure des Mines de Paris, January 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Francois.Chung/Phd-Thesis_Francois-Chung.pdf, http://pastel.archives-ouvertes.fr/pastel-00575796/en/
• 28L. Ramus.
  
  Conception et utilisation d'atlas anatomiques pour la segmentation automatique : application à la radiothérapie des cancers ORL, Université de Nice Sophia Antipolis, Juillet 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Liliane.Ramus/These_Liliane_Ramus.pdf

Articles in International Peer-Reviewed Journal

• 29B. André, T. Vercauteren, A. M. Buchner, M. B. Wallace, N. Ayache.
  
  A Smart Atlas for Endomicroscopy using Automated Video Retrieval, in: Medical Image Analysis, 2011, vol. 15, n^o 4, p. 460–476. [ DOI : 10.1016/j.media.2011.02.003 ]
  
  http://www.inria.fr/sophia/asclepios/Publications/Barbara.Andre/ANDRE-MedIA2011-published.pdf, http://hal.inria.fr/inria-00616190/en
• 30O. Camara, M. Sermesant, P. Lamata, L. Wang, M. Pop, J. Relan, M. De Craene, H. Delingette, H. Liu, S. Niederer, A. Pashaei, G. Plank, D. Romero, R. Sebastian, K. C. L. Wong, H. Zhang, N. Ayache, A. Frangi, P. Shi, N. Smith, G. Wright.
  
  Inter-Model Consistency and Complementarity: Learning from ex-vivo Imaging and Electrophysiological Data towards an Integrated Understanding of Cardiac Physiology, in: Progress in Biophysics and Molecular Biology, 2011, vol. 107, n^o 1, p. 122-133.
  
  http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/PBMBcamara2011.pdf, http://hal.inria.fr/inria-00616197/en
• 31F. Chung, J. Schmid, N. Magnenat-Thalmann, H. Delingette.
  
  Comparison of statistical models performance in case of segmentation using a small amount of training datasets, in: The Visual Computer, 2011, vol. 27, n^o 2, p. 141-151, 10.1007/s00371-010-0536-9.
  
  http://www.inria.fr/sophia/asclepios/Publications/Francois.Chung/comparison_of_statistical_models_performance_in_case_of_segmentation_using_a_small_amount_of_training_datasets.pdf, http://hal.inria.fr/inria-00616199/en
• 32S. Durrleman, P. Fillard, X. Pennec, A. Trouvé, N. Ayache.
  
  Registration, Atlas Estimation and Variability Analysis of White Matter Fiber Bundles Modeled as Currents, in: NeuroImage, 2011, vol. 55, n^o 3, p. 1073-1090. [ DOI : 10.1016/j.neuroimage.2010.11.056 ]
  
  http://www.inria.fr/sophia/asclepios/Publications/Stanley.Durrleman/Durrleman_NImg10.pdf, http://hal.inria.fr/inria-00541930/en/
• 33E. Geremia, O. Clatz, B. H. Menze, E. Konukoglu, A. Criminisi, N. Ayache.
  
  Spatial Decision Forests for MS Lesion Segmentation in Multi-Channel Magnetic Resonance Images, in: NeuroImage, 2011, vol. 57, n^o 2, p. 378-390.
  
  http://www.inria.fr/sophia/asclepios/Publications/Ezequiel.Geremia/Geremia-MS-NeuroImage-2011.pdf, http://hal.inria.fr/inria-00616194/en
• 34E. Konukoglu, J. Relan, U. Cilingir, B. H. Menze, P. Chinchapatnam, A. S. Jadidi, H. Cochet, M. Hocini, H. Delingette, P. Jaïs, M. Haïssaguerre, N. Ayache, M. Sermesant.
  
  Efficient Probabilistic Model Personalization Integrating Uncertainty on Data and Parameters: Application to Eikonal-Diffusion Models in Cardiac Electrophysiology, in: Progress in Biophysics and Molecular Biology, 2011, vol. 107, n^o 1, p. 134-146.
  
  http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/KonukogluPBMB2011.pdf, http://hal.inria.fr/inria-00616198/en
• 35G. Langs, B. H. Menze, D. Lashkari, P. Golland.
  
  Detecting stable distributed patterns of brain activation using Gini contrast, in: NeuroImage, 2011, vol. 56, p. 497-507.
  
  http://people.csail.mit.edu/langs/Georg_Langs/index_files/rf_rev.pdf, http://hal.inria.fr/inria-00616195/en
• 36M. Lorenzi, A. Beltramello, N. Mercuri, E. Canu, G. Zoccatelli, F. Pizzini, F. Alessandrini, M. Cotelli, S. Rosini, D. Costardi, C. Caltagirone, G. Frisoni.
  
  Effect of memantine on resting state default mode network activity in Alzheimer's disease, in: Drugs and Aging, 2011, vol. 28, n^o 3, p. 205–217.
  
  http://www.inria.fr/sophia/asclepios/Publications/Marco.Lorenzi/Lorenzi_DaA_2010.pdf, http://hal.inria.fr/
• 37T. Mansi, X. Pennec, M. Sermesant, H. Delingette, N. Ayache.
  
  iLogDemons: A Demons-Based Registration Algorithm for Tracking Incompressible Elastic Biological Tissues, in: Int. J. of Computer Vision, 2011, vol. 92, n^o 1, p. 92-111. [ DOI : 10.1007/s11263-010-0405-z ]
  
  http://www.inria.fr/sophia/asclepios/Publications/Tommaso.Mansi/mansi10IJCV.pdf, http://hal.inria.fr/inria-00616187/en
• 38T. Mansi, I. Voigt, B. Leonardi, X. Pennec, S. Durrleman, M. Sermesant, H. Delingette, A. Taylor, Y. Boudjemline, G. Pongiglione, N. Ayache.
  
  A Statistical Model for Quantification and Prediction of Cardiac Remodelling: Application to Tetralogy of Fallot, in: IEEE Transactions on Medical Images, 2011, vol. 30, n^o 9, p. 1605 - 1616.
  
  http://hal.inria.fr/inria-00616185/en
• 39K. Murphy, B. Van Ginneken, J. Reinhardt, S. Kabus, K. Ding, X. Deng, K. Cao, K. Du, G. Christensen, V. Garcia, T. Vercauteren, N. Ayache, O. Commowick, G. Malandain, B. Glocker, N. Paragios, N. Navab, V. Gorbunova, J. Sporring, M. De Bruijne, X. Han, M. Heinrich, J. Schnabel, M. Jenkinson, C. Lorenz, M. Modat, J. Mcclelland, S. Ourselin, S. Muenzing, M. A. Viergever, D. De Nigris, L. Collins, T. Arbel, M. Peroni, R. Li, G. Sharp, A. Schmidt-Richberg, J. Ehrhardt, R. Werner, D. Smeets, D. Loeckx, G. Song, N. Tustison, B. Avants, J. Gee, M. Staring, S. Klein, B. Stoel, M. Urschler, M. Werlberger, J. Vandemeulebroucke, S. Rit, D. Sarrut, J. P. Pluim.
  
  Evaluation of Registration Methods on Thoracic CT: The EMPIRE10 Challenge., in: IEEE Trans Med Imaging, May 2011, vol. 30, n^o 11, p. 1901-1920. [ DOI : 10.1109/TMI.2011.2158349 ]
  
  http://hal.inria.fr/inserm-00607794/en
• 40E. Pernod, M. Sermesant, E. Konukoglu, J. Relan, H. Delingette, N. Ayache.
  
  A Multi-Front Eikonal Model of Cardiac Electrophysiology for Interactive Simulation of Radio-Frequency Ablation, in: Computers and Graphics, 2011, vol. 35, p. 431–440.
  
  http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/CG-VCBM-2011.pdf, http://hal.inria.fr/inria-00616180/en
• 41K. Pohl, E. Konukoglu, S. Novellas, N. Ayache, A. Fedorov, I.-F. Talos, A. Golby, W. M. Wells, R. Kikinis, P. Black.
  
  A New Metric for Detecting Change in Slowly Evolving Brain Tumors: Validation in Meningioma Patients, in: Neurosurgery, 2011, vol. 68(1 Suppl Operative), p. 225-33.
  
  http://www.inria.fr/sophia/asclepios/Publications/Kilian.Pohl/pohl-Neurosurgery-2011.pdf, http://hal.inria.fr/inria-00616196/en
• 42J. Relan, P. Chinchapatnam, M. Sermesant, K. Rhode, M. Ginks, H. Delingette, C. A. Rinaldi, R. Razavi, N. Ayache.
  
  Coupled Personalization of Cardiac Electrophysiology Models for Prediction of Ischaemic Ventricular Tachycardia, in: Journal of the Royal Society Interface Focus, 2011, vol. 1, n^o 3, p. 396–407.
  
  http://www.inria.fr/sophia/asclepios/Publications/Jatin.Relan/RSFS-2010-0041_Manuscript.pdf, http://hal.inria.fr/inria-00616188/en
• 43J. Relan, M. Pop, H. Delingette, G. Wright, N. Ayache, M. Sermesant.
  
  Personalisation of a Cardiac Electrophysiology Model using Optical Mapping and MRI for Prediction of Changes with Pacing, in: IEEE Transactions on Biomedical Engineering, 2011, vol. 58, n^o 12, p. 3339-3349.
  
  http://www.inria.fr/sophia/asclepios/Publications/Jatin.Relan/TBME-00761-2010-R2-preprint.pdf, http://hal.inria.fr/inria-00616184/en
• 44K. Rhode, M. Sermesant.
  
  Modeling and Registration for Electrophysiology Procedures Based on Three-Dimensional Imaging, in: Current Cardiovascular Imaging Reports, 2011, vol. 4, p. 116-126.
  
  http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/ModelRegistrationEP.pdf, http://hal.inria.fr/inria-00616181/en
• 45N. Smith, A. De Vecchi, M. Mccormick, D. Nordsletten, O. Camara, A. Frangi, H. Delingette, M. Sermesant, J. Relan, N. Ayache, M. W. Krueger, W. Schulze, R. Hose, I. Valverde, P. Beerbaum, C. Staicu, M. Siebes, J. Spaan, P. Hunter, J. Weese, H. Lehmann, D. Chapelle, R. Razavi.
  
  euHeart: Personalized and integrated cardiac care using patient-specific cardiovascular modelling, in: Journal of the Royal Society Interface Focus, 2011, vol. 1, n^o 3, p. 349–364.
  
  http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/FOCUSsmith2011.pdf, http://hal.inria.fr/inria-00616189/en
• 46C. Öhman, D. Espino, T. Heimann, M. Baleani, H. Delingette, M. Viceconti.
  
  Subject-specific knee joint model: Design of an experiment to validate a multi-body finite element model, in: The Visual Computer, 2011, vol. 27, p. 153–159, To appear.
  
  http://www.inria.fr/sophia/asclepios/Publications/Delingette/Ohman_et_al_Vis_comput_11.pdf, http://hal.inria.fr/inria-00616200/en

Articles in National Peer-Reviewed Journal

• 47N. Ayache, O. Clatz, H. Delingette, G. Malandain, X. Pennec, M. Sermesant.
  
  Vers un patient numérique personnalisé pour le diagnostic et la thérapie guidés par l'image, in: Médecine / Sciences, 2011, vol. 27, p. 208–213.
  
  http://www.inria.fr/sophia/asclepios/Publications/Delingette/Asclepios-Medecine-sciences2011.pdf, http://hal.inria.fr/inria-00616192/en
• 48N. Ayache, H. Delingette, M. Sermesant.
  
  Le cœur numérique personnalisé, in: Bulletin de l'Académie Nationale de Médecine, November 2011, vol. 195, n^o 8.
  
  http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/Ayache-et-al-Academie-Medecine-24Oct2011.pdf

Invited Conferences

• 49B. André, T. Vercauteren, N. Ayache.
  
  Content-Based Retrieval in Endomicroscopy: Toward an Efficient Smart Atlas for Clinical Diagnosis, in: Proceedings of the MICCAI Workshop - Medical Content-based Retrieval for Clinical Decision (MCBR-CDS'11), LNCS, Springer, 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Barbara.Andre/BarbaraANDRE_MCBR-CDS_11.pdf, http://hal.inria.fr/
• 50H. Delingette.
  
  De l'imagerie médicale à la modélisation numérique personnalisée du corps humain, in: 10e colloque national en calcul des structures, Giens, France, 2011.
  
  http://hal.inria.fr/hal-00623148/en
• 51X. Pennec, M. Lorenzi.
  
  Which parallel transport for the statistical analysis of longitudinal deformations?, in: Colloque GRETSI '11, Bordeaux, France, 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/GRETSI11_Pennec_Lorenzi.pdf, http://hal.inria.fr/inria-00616204/en

International Conferences with Proceedings

• 52B. André, T. Vercauteren, A. M. Buchner, M. B. Wallace, N. Ayache.
  
  Retrieval evaluation and distance learning from perceived similarity between endomicroscopy videos, in: Medical Image Computing and Computer-Assisted Intervention - MICCAI 2011, Toronto, Canada, 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Barbara.Andre/Barbara_ANDRE_MICCAI11_CameraReadyFinal.pdf, http://hal.inria.fr/inria-00598301/en
• 53H. Cochet, A. S. Jadidi, F. Sacher, N. Derval, M. Sermesant, J. Relan, S. J. Kim, P. Bordachar, P. Ritter, M. Hocini, M. Montaudon, F. Laurent, N. Ayache, M. Haïssaguerre, P. Jaïs.
  
  Ventricular Scar At Cardiac CT Correlates To Critical Isthmuses Of Ventricular Tachycardia Circuits And Sites Of Slow Conduction During Sinus Rhythm - Evidence For Clinical Use Of CT Integration Into 3D Mapping Systems, in: Heart Rhythm Society '11, San Francisco, United States, 2011.
  
  http://hal.inria.fr/inria-00616206/en
• 54H. Delingette, S. Marchesseau, K. C. L. Wong, M. Sermesant, K. Rhode, M. Ginks, C. A. Rinaldi, R. Razavi, N. Ayache.
  
  Personalization of Cardiac Motion and Contractility from Times Series of Images, in: Proceedings of the Livim Symposium, December 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/LIVIM_Herve.pdf
• 55A. S. Jadidi, H. Cochet, F. Sacher, S. J. Kim, M. Sermesant, J. Relan, N. Derval, S. Miyazaki, A. Shah, D. Scherr, S. Wilton, P. Pascale, L. Roten, M. Pederson, S. Knecht, P. Bordachar, P. Ritter, M. Hocini, M. Montaudon, F. Laurent, N. Ayache, M. Haïssaguerre, P. Jaïs.
  
  Ventricular Scar imaging at MRI Correlates to Critical Isthmuses of Ventricular Tachycardia Circuits and Sites of Slow Conduction during Sinus Rhythm - Utility of integrating MR-data into 3D Mapping Systems, in: Heart Rhythm Society '11, San Francisco, United States, 2011.
  
  http://hal.inria.fr/inria-00616207/en
• 57H. Lombaert, J.-M. Peyrat, L. Fanton, F. Cheriet, H. Delingette, N. Ayache, P. Clarysse, I. Magnin, P. Croisille.
  
  Statistical Atlas of Human Cardiac Fibers: Comparison with Abnormal Hearts, in: Proceedings of STACOM Workshop at MICCAI 2011, Springer, September 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Delingette/MICCAI-STACOM-Lombaert-Abnormal-Hearts.pdf, http://hal.inria.fr/inria-00616208/en/
• 58H. Lombaert, J.-M. Peyrat, L. Fanton, F. Cheriet, H. Delingette, N. Ayache, P. Clarysse, I. Magnin, P. Croisille.
  
  Variability of the Human Cardiac Laminar Structure, in: Proceedings of STACOM Workshop at MICCAI 2011, Springer, September 2011.
  
  http://www.inria.fr/sophia/asclepios/Publications/Delingette/MICCAI-STACOM-Lombaert-Laminar-Sheet.pdf, http://hal.inria.fr/inria-00616208/en/
• 59H. Lombaert, J.-M. Peyrat, S. Rapacchi, L. Fanton, H. Delingette, N. Ayache, P. Croisille.
  
  Human Statistical Atlas of Cardiac Fiber Architecture from DT-MRI, in: Proceedings of Intl. Soc. Mag. Reson. Med. (ISMRM) 2011, Montreal, Canada, 2011, vol. 19, 280 p.
  
  http://www.inria.fr/sophia/asclepios/Publications/Delingette/ISMRM-lombaert.pdf, http://hal.inria.fr/inria-00616212/en
• 60M. Lorenzi, N. Ayache, G. Frisoni, X. Pennec.
  
  Mapping the effects of Ab142 levels on the longitudinal changes in healthy aging: hierarchical modeling based on stationary velocity filds., in: Proceedings of Medical Image Computing and Computer Assisted Intervention (MICCAI), Toronto, Canada, LNCS, Springer, Heidelberg, 2011, 8 p.
  
  http://www.inria.fr/sophia/asclepios/Publications/Marco.Lorenzi/LorenziMICCAI2011.pdf, http://hal.inria.fr/inria-00616213/en
• 62M. Lorenzi, X. Pennec.
  
  Geodesics, Parallel Transport & One-parameter Subgroups for Diffeomorphic Image Registration, in: Proceedings of the Third International Workshop on Mathematical Foundations of Computational Anatomy - Geometrical and Statistical Methods for Modelling Biological Shape Variability, Toronto, Canada, X. Pennec, S. Joshi, M. Nielsen (editors), September 2011, p. 64-74.
  
  http://hal.inria.fr/inria-00623919/en
• 63J. Margeta, E. Geremia, A. Criminisi, N. Ayache.
  
  Layered Spatio-temporal Forests for Left Ventricle Segmentation from 4D Cardiac MRI Data, in: Proceedings of STACOM Workshop at MICCAI 2011, Springer, September 2011.
  
  http://hal.inria.fr/hal-00646674/en/
• 65B. H. Menze, K. Van Leemput, A. Honkela, E. Konukoglu, M.-A. Weber, N. Ayache, P. Golland.
  
  A Generative Approach for Image-Based Modeling of Tumor Growth, in: Proceedings of Information Processing in Medical Imaging (IPMI'11), Irsee, Germany, G. Szekely, H. Hahn (editors), LNCS 6801, 2011, 13 p.
  
  http://people.csail.mit.edu/menze/papers/menze_11_generative.pdf, http://hal.inria.fr/inria-00616211/en
• 66M. Pop, M. Sermesant, J.-M. Peyrat, E. Crystal, S. Ghate, T. Mansi, I. Lashevsky, B. Qiang, E. McVeigh, N. Ayache, G. Wright.
  
  A 3D MRI-Based Cardiac Computer Model to Study Arrhythmia and Its In-vivo Experimental Validation, in: FIMH, New-York, United States, 2011, p. 195-205.
  
  http://www.inria.fr/sophia/asclepios/Publications/Maxime.Sermesant/Pop-FIMH2011.pdf, http://hal.inria.fr/inria-00616205/en
• 67A. Prakosa, M. Sermesant, H. Delingette, E. Saloux, P. Allain, P. Cathier, P. Etyngier, N. Villain, N. Ayache.
  
  Synthetic Echocardiographic Image Sequences for Cardiac Inverse Electro-Kinematic Learning, in: Proceedings of Medical Image Computing and Computer Assisted Intervention (MICCAI), Toronto, Canada, Canada, LNCS, Springer, Heidelberg, 2011, 8 p.
  
  http://www.inria.fr/sophia/asclepios/Publications/Adityo.Prakosa/PrakosaMICCAI11.pdf, http://hal.inria.fr/inria-00616214/en
• 69C. Seiler, X. Pennec, L. Ritacco, M. Reyes Aguirre.
  
  Femur Specific Polyaffine Model to Regularize the Log-Domain Demons Registration, in: Proceedings of SPIE Medical Imaging '11, San Diego, United States, B. M. Dawant, D. R. Haynor (editors), SPIE Publishing, 2011, vol. 7962, Paper 7962-15.
  
  http://www.inria.fr/sophia/asclepios/Publications/Christof.Seiler/SeilerFemurPolyaffineLogDemonsSPIE2011.pdf, http://hal.inria.fr/inria-00616216/en
• 70V. Siless, P. Guevara, X. Pennec, P. Fillard.
  
  Joint T1 and Brain Fiber Diffeomorphic Registration Using the Demons, in: Multimodal Brain Image Analysis, T. Liu, D. Shen, L. Ibanez, X. Tao (editors), Lecture Notes in Computer Science, Springer Berlin / Heidelberg, 2011, vol. 7012, p. 10-18. [ DOI : 10.1007/978-3-642-24446-9_2 ]
  
  http://hal.inria.fr/inria-00627971/en
• 71S. Sommer, F. Lauze, M. Nielsen, X. Pennec.
  
  A Multi-scale Kernel Bundle for LDDMM: Towards Sparse Deformation Description Across Space and Scales, in: Proceedings of Information Processing in Medical Images IPMI'11, Irsee, Germany, G. Szekely, H. Hahn (editors), Springer, 2011, vol. 6801, p. 624–635.
  
  http://www.inria.fr/sophia/asclepios/Publications/Xavier.Pennec/Sommer.IPMI11.pdf, http://hal.inria.fr/inria-00616209/en
• 72S. Sommer, F. Lauze, M. Nielsen, X. Pennec.
  
  Kernel Bundle EPDiff: Evolution Equations for Multi-Scale Diffeomorphic Image Registration, in: Scale Space and Variational Methods in Computer Vision, Ein-Gedi, Israël, A. Bruckstein, B. ter Haar Romeny, A. Bronstein, M. Bronstein (editors), Lecture Notes in Computer Science, Springer, June 2011, vol. 6667.
  
  http://hal.inria.fr/hal-00644965/en/

Conferences without Proceedings

• 73H. Cochet, A. S. Jadidi, F. Sacher, N. Derval, M. Sermesant, J. Relan, S. J. Kim, P. Bordachar, P. Ritter, M. Hocini, M. Montaudon, F. Laurent, N. Ayache, M. Haïssaguerre, P. Jaïs.
  
  Ventricular Scar At Cardiac CT Correlates To Critical Isthmuses Of Ventricular Tachycardia Circuits And Sites Of Slow Conduction During Sinus Rhythm - Evidence For Clinical Use Of CT Integration Into 3D Mapping Systems, in: Heart Rhythm Society '11, May 2011.
  
  http://hal.inria.fr/inria-00616206/en/
• 74B. Gibaud, F. Ahmad, C. Barillot, F. Michel, B. Wali, B. Batrancourt, M. Dojat, P. Girard, A. Gaignard, D. Lingrand, J. Montagnat, J. R. Balderrama, G. Malandain, X. Pennec, D. Godard, G. Kassel, M. Pélégrini-Issac.
  
  A federated system for sharing and reuse of images and image processing tools in neuroimaging, in: Proc. of Computer Assisted Radiology and Surgery 2011 (CARS 2011), June 2011.
• 75M. Lorenzi, X. Pennec, G. Frisoni.
  
  Monitoring the brain's longitudinal changes in clinical trials for Alzheimers disease: a robust and reliable non-rigid registration framework, in: Alzheimer's Association 2011 International Conference on Alzheimer's Disease (AAICAD), Paris, France, 2011.
  
  http://hal.inria.fr/inria-00616203/en

Scientific Books (or Scientific Book chapters)

• 76T. Heimann, H. Delingette.
  
  Model-based segmentation, in: Biomedical Image Processing, T. M. Deserno (editor), Springer, 2011, p. 279-303.
  
  http://hal.inria.fr/inria-00616063/en

Books or Proceedings Editing

• 77X. Pennec, S. Joshi, M. Nielsen (editors)
  
  Proceedings of the Third International Workshop on Mathematical Foundations of Computational Anatomy - Geometrical and Statistical Methods for Modelling Biological Shape Variability, September 2011.
  
  http://www-sop.inria.fr/asclepios/events/MFCA11/Proceedings/MFCA11_Proceedings.pdf, http://hal.inria.fr/

Internal Reports

• 78B. André, T. Vercauteren, A. M. Buchner, M. B. Wallace, N. Ayache.
  
  Learning Semantic and Visual Similarity for Endomicroscopy Video Retrieval, INRIA, August 2011, n^o RR-7722.
  
  http://hal.inria.fr/inria-00618057/en
• 79M. W. Krueger, J. Relan, H. Delingette, W. Schulze, G. Seemann, O. Dössel.
  
  Model Personalization for AF and VT simulations, European project euHeart, January 2011.
  
  http://hal.inria.fr/

Other Publications

• 80B. André, T. Vercauteren, A. M. Buchner, M. W. Shahid, M. B. Wallace, N. Ayache.
  
  Toward a structured training system for probe-based Confocal Laser Endomicroscopy (pCLE) on Barrett's Esophagus: a video retrieval approach to estimate diagnosis difficulty, 2011, Gastroenterology (DDW 2011), To appear.
  
  http://www.inria.fr/sophia/asclepios/Publications/Barbara.Andre/ANDRE_DDW11_Abstract.pdf, http://hal.inria.fr/
• 81M. Dojat, M. Pélégrini-Issac, F. Ahmad, C. Barillot, B. Batrancourt, A. Gaignard, B. Gibaud, P. Girard, D. Godard, G. Kassel, D. Lingrand, G. Malandain, F. Michel, J. Montagnat, X. Pennec, J. R. Balderrama, B. Wali.
  
  NeuroLOG: A framework for the sharing and reuse of distributed tools and data in neuroimaging, 2011, 17th Annual Meeting of the Organization for Human Brain Mapping (OHBM), June 26-30.
  
  http://neurolog.i3s.unice.fr/_media/public_namespace/hbm11-def.pdf, http://hal.inria.fr/

• 82N. Ayache, J. Duncan (editors)
  
  Medical Image Analysis, Elsevier.
• 83M. Gazzaniga (editor)
  
  The Cognitive Neurosciences, MIT Press, 1995.
• 84International Symposium on Biomedical Imaging: From Nano to Macro, IEEE, Rotterdam, 2010.
• 85T. Jiang, N. Navab, J. P. Pluim, M. A. Viergever (editors)
  
  Medical Image Computing and Computer-Assisted Intervention (MICCAI'10), Part I, Lecture Notes in Computer Science, Springer, Beijing, China, September 2010, vol. 6361.
• 86T. Jiang, N. Navab, J. P. Pluim, M. A. Viergever (editors)
  
  Medical Image Computing and Computer-Assisted Intervention (MICCAI'10), Part II, Lecture Notes in Computer Science, Springer, Beijing, China, September 2010, vol. 6362.
• 87R. H. Taylor, S. Lavallée, G. S. Burdea, R. Mösges (editors)
  
  Computer-Integrated Surgery: Technology and Clinical Applications, MIT Press, 1995.
• 88W. Vannier, M. A. Viergever (editors)
  
  Transactions on Medical Imaging, IEEE.
• 89S. Webb (editor)
  
  The Physics of Medical Imaging, Institute of Physics Publishing, 1988.
• 90The international journal of Medical Robotics + Computer Assisted Surgery, Wiley.
• 91R. Acharya, R. Wasserman, J. Stevens, C. Hinojosa.
  
  Biomedical Imaging modalities: a tutorial, in: Computerized Medical Imaging and Graphics, 1995, vol. 19, n^o 1, p. 3–25.
• 92M. J. Ackerman.
  
  The Visible Human Project, in: Proceedings of the IEEE : Special Issue on Surgery Simulation, March 1998, vol. 86, n^o 3, p. 504–511.
• 93P. Allen.
  
  Brain Atlas Project, 2003.
  
  http://brain-map.org/welcome.do;jsessionid=1DB51DDFDE6BEC143CE5005682B62003
• 94L. Axel, A. Montillo, D. Kim.
  
  Tagged magnetic resonance imaging of the heart: a survey, in: Medical Image Analysis, 2005, vol. 9, n^o 4, p. 376–393.
• 95N. Ayache.
  
  L'analyse automatique des images médicales, état de l'art et perspectives, in: Annales de l'Institut Pasteur, avril–juin 1998, vol. 9, n^o 1, p. 13–21, numéro spécial sur les progrès récents de l'imagerie médicale.
• 96N. Ayache, O. Clatz, H. Delingette, G. Malandain, X. Pennec, M. Sermesant.
  
  Asclepios: a Research Project-Team at INRIA for the Analysis and Simulation of Biomedical Images, in: From semantics to computer science: essays in honor of Gilles Kahn, Y. Bertot, G. Huet, J.-J. Lévy, G. Plotkin (editors), Cambridge University Press, 2009.
  
  http://www.inria.fr/sophia/asclepios/Publications/Nicholas.Ayache/Colloquium-Gilles-Kahn-NA-2007-v5.pdf
• 97M. Belik, T. Usyk, A. McCulloch.
  
  Computational Methods for Cardiac Electrophysiology, in: Computational Models for the Human Body, N. Ayache (editor), Elsevier, 2004, p. 129–187.
• 98H. Delingette, X. Pennec, L. Soler, J. Marescaux, N. Ayache.
  
  Computational Models for Image Guided, Robot-Assisted and Simulated Medical Interventions, in: Proceedings of the IEEE, September 2006, vol. 94, n^o 9, p. 1678- 1688.
  
  http://www.inria.fr/sophia/asclepios/Publications/Herve.Delingette/IEEE-proceedings-Robotics.pdf
• 99I. L. Dryden, K. V. Mardia.
  
  Statistical Shape Analysis, John Wiley and Sons, 1998.
• 100J. Duncan, N. Ayache.
  
  Medical Image Analysis: Progress over two decades and the challenges ahead, in: IEEE Transactions on Pattern Analysis and Machine Intelligence, 2000, vol. 22, n^o 1, p. 85–106.
• 101N. C. Fox, J. M. Schott.
  
  Imaging cerebral atrophy: normal ageing to Alzheimer's disease, in: Lancet, 2004, vol. 363, n^o 9406.
• 102A. Frangi, W. J. Niessen, M. A. Viergever.
  
  Three-dimensional modeling for functional analysis of cardiac images: a review, in: IEEE Trans Med Imaging, January 2001, vol. 20, n^o 1, p. 2-25.
• 103P. C. Franzone, L. Guerri, M. Pennachio, B. Taccardi.
  
  Spread of excitation in 3-D models of the anisotropic cardiac tissue, in: Mathematical Biosciences, 1988, vol. 151, p. 51–98.
• 104E. Haug, H.-Y. Choi, S. Robin, M. Beaugonin.
  
  Human Models for crash and impact Simulation, in: Computational Models for the Human Body, N. Ayache (editor), Elsevier, 2004, p. 231–452.
• 105P. Hunter, T. Borg.
  
  Integration from proteins to organs: the Physiome project, in: Nature Reviews - Molecular Cell Biology, 2003, vol. 4, p. 237–243.
• 106P. Hunter.
  
  Computational Physiology and the Physiome Project, 2004.
• 107C. MacAulay, P. Lane, R. Richards-Kortum.
  
  In vivo pathology: microendoscopy as a new endoscopic imaging modality, in: Gastrointestinal Endoscopy Clinics of North America, 2004, vol. 14, p. 595–620.
• 108D. Metaxas, J. Kayes, F. Primanio.
  
  A 3-D virtual environment for modeling mechanical cardiopulmonary interactions, in: Medical Image Analysis, 1997, vol. 3, n^o 1, p. 1–26.
• 109M. I. Miller.
  
  Computational anatomy: shape, growth, and atrophy comparison via diffeomorphisms, in: NeuroImage, 2004, vol. 23, n^o Supplement 1, p. S19–S33, Special Issue : Mathematics in Brain Imaging.
• 110V. Moreau-Villéger, H. Delingette, M. Sermesant, O. Faris, E. McVeigh, N. Ayache.
  
  Global and Local Parameter Estimation of a Model of the Electrical Activity of the Heart, INRIA, July 2004, n^o 5269.
  
  http://hal.inria.fr/inria-00070729
• 111S. Nicolau, A. Garcia, X. Pennec, L. Soler, N. Ayache.
  
  An augmented reality system to guide radio-frequency tumour ablation, in: Computer Animation and Virtual World (previously the Journal of Visualization & Computer Animation), 2005, vol. 16, n^o 1, p. 1–10.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Nicolau.CAVW.pdf
• 112S. Nicolau, X. Pennec, L. Soler, N. Ayache.
  
  A complete Augmented Reality Guidance System for Liver Punctures: First Clinical Evaluation, in: Proceedings of the 8th Int. Conf. on Medical Image Computing and Computer-Assisted Intervention - MICCAI 2005, Part I, Palm Springs, CA, USA, October 26-29, J. Duncan, G. Gerig (editors), LNCS, Springer Verlag, 2005, vol. 3749, p. 539–547.
  
  http://springerlink.metapress.com/openurl.asp?genre=article&issn=0302-9743&volume=3749&spage=539
• 113D. Noble.
  
  Modeling the Heart, from genes to cells to the whole organ, in: Science, 2002, vol. 295, p. 1678–1682.
• 114J. Olivo-Marin.
  
  Image Formation and Analysis in Microscopy, june 2004, Invited Session at Int. Symp. on Biomedical Imaging (ISBI).
• 115A. Quarteroni, L. Formaggia.
  
  Mathematical Modeling and Numerical Simulation of the Cardiovascular System, in: Computational Models for the Human Body, N. Ayache (editor), Elsevier, 2004, p. 3–128.
• 116M. Sermesant, O. Faris, F. Evans, E. McVeigh, Y. Coudière, H. Delingette, N. Ayache.
  
  Preliminary validation using in vivo measures of a macroscopic electrical model of the heart, in: International Symposium on Surgery Simulation and Soft Tissue Modeling (IS4TM'03), Juan-les-Pins, France, N. Ayache, H. Delingette (editors), Lecture Notes in Computer Science, Springer-Verlag, 2003, vol. 2673, p. 230–243.
  
  ftp://ftp-sop.inria.fr/epidaure/Publications/Sermesant/IS4TM2003Sermesant.pdf
• 117P. M. Thompson, K. Hayashi, E. Sowell, N. Gogtay, J. Giedd, J. Rapoport, G. de Zubicaray, A. Janke, S. Rose, J. Semple, D. Doddrell, Y. Wang, T. van Erp, T. Cannon, A. W. Toga.
  
  Mapping Cortical Change in Alzheimer's Disease, Brain Development, and Schizophrenia, in: NeuroImage, 2004, vol. 23, n^o supplement 1, p. S2–S18, Special Issue : Mathematics in Brain Imaging.
• 118P. M. Thompson, M. I. Miller, J. T. Ratnanather, R. A. Poldrack, T. E. Nichols.
  
  Guest Editorial, in: NeuroImage, 2004, vol. 23, n^o Supplement 1, p. S1–S1, Special Issue : Mathematics in Brain Imaging.
• 119D. W. Thompson.
  
  On Growth and Form, Cambridge Univ. Pr., 1917.
• 120K. Van Leemput, F. Maes, D. Vandermeulen, P. Suetens.
  
  A unifying framework for partial volume segmentation of brain MR images, in: IEEE Trans Med Imaging, January 2003, vol. 22, n^o 1, p. 105-19.
• 121R. Weissleder, U. Mahmood.
  
  Molecular Imaging, in: Radiology, 2001, vol. 219, p. 316–333, Special Review.