Bibliography

Publications of the year

Doctoral Dissertations and Habilitation Theses

• 1M. Breuilly.
  
  Imagerie TEMP 4D du petit animal : estimation du mouvement respiratoire et de la biodistribution de l'iode, Université Nice Sophia Antipolis, November 2013.
  
  http://hal.inria.fr/tel-00908962
• 2E. Geremia.
  
  Spatial random forests for brain lesions segmentation in MRIs and model-based tumor cell extrapolation, Université Nice Sophia Antipolis, January 2013.
  
  http://hal.inria.fr/tel-00838795
• 3S. Marchesseau.
  
  Simulation de modèles personnalisés du coeur pour la prédiction de thérapies cardiaques, Ecole Nationale Supérieure des Mines de Paris, January 2013.
  
  http://hal.inria.fr/pastel-00820082
• 4N. Miolane.
  
  Defining a mean on Lie group, Imperial College London, September 2013.
  
  http://hal.inria.fr/hal-00938320
• 5A. Prakosa.
  
  Analysis and simulation of multimodal cardiac images to study the heart function, Université Nice Sophia Antipolis, January 2013.
  
  http://hal.inria.fr/tel-00837857

Articles in International Peer-Reviewed Journals

• 6M. Breuilly, G. Malandain, J. Guglielmi, R. Marsault, T. Pourcher, P. Franken, J. Darcourt.
  
  Amplitude-based data selection for optimal retrospective reconstruction in micro-SPECT, in: Physics in Medicine and Biology, April 2013, vol. 58, n^o 8, pp. 2657-2674. [ DOI : 10.1088/0031-9155/58/8/2657 ]
  
  http://hal.inria.fr/hal-00799381
• 7F. Chung, H. Delingette.
  
  Regional Appearance Modeling based on the Clustering of Intensity Profiles, in: Computer Vision and Image Understanding, 2013, vol. 117, n^o 6, pp. 705-717. [ DOI : 10.1016/j.cviu.2013.01.011 ]
  
  http://hal.inria.fr/hal-00813880
• 8M. De Craene, S. Marchesseau, B. Heyde, H. Gao, M. Allesandrini, O. Bernard, G. Piella, A. Porras, L. Tautz, A. Hennemuth, A. Prakosa, H. Liebgott, O. Somphone, P. Allain, S. M. Ebeid, H. Delingette, M. Sermesant, J. D'hooge, E. Saloux.
  
  3D strain assessment in ultrasound (straus): A synthetic comparison of five tracking methodologies, in: IEEE Transactions on Medical Imaging, 2013, vol. 32, n^o 9, pp. 1632 - 1646. [ DOI : 10.1109/TMI.2013.2261823 ]
  
  http://hal.inria.fr/hal-00840039
• 9S. Durrleman, X. Pennec, A. Trouvé, J. Braga, G. Gerig, N. Ayache.
  
  Toward a Comprehensive Framework for the Spatiotemporal Statistical Analysis of Longitudinal Shape Data, in: International Journal of Computer Vision, May 2013, vol. 103, n^o 1, pp. 22-59. [ DOI : 10.1007/s11263-012-0592-x ]
  
  http://hal.inria.fr/hal-00813825
• 10R. Guibert, K. Mcleod, A. Caiazzo, T. Mansi, M. Á. Fernández, M. Sermesant, X. Pennec, I. Vignon-Clementel, Y. Boudjemline, J.-F. Gerbeau.
  
  Group-wise Construction of Reduced Models for Understanding and Characterization of Pulmonary Blood Flows from Medical Images, in: Medical Image Analysis, October 2013, vol. 18, n^o 1, pp. 63-82. [ DOI : 10.1016/j.media.2013.09.003 ]
  
  http://hal.inria.fr/hal-00874545
• 11A. Jadidi, H. Cochet, A. Shah, S. Kim, E. Duncan, S. Miyazaki, M. Sermesant, H. Lehrmann, M. Lederlin, N. Linton, A. Forclaz, I. Nault, L. Rivard, M. Wright, X. Liu, D. Scherr, S. Wilton, L. Roten, P. Pascale, N. Derval, F. Sacher, S. Knecht, C. Keyl, M. Hocini, M. Montaudon, F. Laurent, M. Haïssaguerre, P. Jaïs.
  
  Inverse relationship between fractionated electrograms and atrial fibrosis in persistent atrial fibrillation: combined magnetic resonance imaging and high-density mapping, in: Journal of the American College of Cardiology, 2013, vol. 62, n^o 9, pp. 802-812. [ DOI : 10.1016/j.jacc.2013.03.081 ]
  
  http://hal.inria.fr/hal-00855926
• 12Y. Komatsu, H. Cochet, A. Jadidi, F. Sacher, A. Shah, N. Derval, D. Scherr, P. Pascale, L. Roten, A. Denis, K. Ramoul, S. Miyazaki, M. Daly, M. Riffaud, M. Sermesant, J. Relan, N. Ayache, S. Kim, M. Montaudon, F. Laurent, M. Hocini, M. Haïssaguerre, P. Jaïs.
  
  Regional myocardial wall thinning at multidetector computed tomography correlates to arrhythmogenic substrate in postinfarction ventricular tachycardia: assessment of structural and electrical substrate, in: Circulation Arrhythmia and Electrophysiology, 2013, vol. 6, n^o 2, pp. 342-350. [ DOI : 10.1161/CIRCEP.112.000191 ]
  
  http://hal.inria.fr/hal-00855932
• 13B. Leonardi, A. Taylor, T. Mansi, I. Voigt, M. Sermesant, X. Pennec, N. Ayache, Y. Boudjemline, G. Pongiglione.
  
  Computational modelling of the right ventricle in repaired tetralogy of Fallot: can it provide insight into patient treatment?, in: European Heart Journal - Cardiovascular Imaging, April 2013, vol. 14, n^o 4, pp. 381-6. [ DOI : 10.1093/ehjci/jes239 ]
  
  http://hal.inria.fr/hal-00813831
• 14M. Lorenzi, N. Ayache, G. Frisoni, X. Pennec.
  
  LCC-Demons: a robust and accurate symmetric diffeomorphic registration algorithm, in: NeuroImage, 2013, vol. 81, n^o 1, pp. 470-483. [ DOI : 10.1016/j.neuroimage.2013.04.114 ]
  
  http://hal.inria.fr/hal-00819895
• 15M. Lorenzi, X. Pennec.
  
  Efficient Parallel Transport of Deformations in Time Series of Images: from Schild's to Pole Ladder, in: Journal of Mathematical Imaging and Vision, October 2013.
  
  http://hal.inria.fr/hal-00870489
• 16M. Lorenzi, X. Pennec.
  
  Geodesics, Parallel Transport & One-parameter Subgroups for Diffeomorphic Image Registration, in: International Journal of Computer Vision, November 2013, vol. 105, n^o 2, pp. 111-127. [ DOI : 10.1007/s11263-012-0598-4 ]
  
  http://hal.inria.fr/hal-00813835
• 17S. Marchesseau, H. Delingette, M. Sermesant, R. Cabrera Lozoya, C. Tobon-Gomez, P. Moireau, R. M. Figueras I Ventura, K. Lekadir, A. Hernandez, M. Garreau, E. Donal, C. Leclercq, S. G. Duckett, K. Rhode, C. A. Rinaldi, A. F. Frangi, R. Razavi, D. Chapelle, N. Ayache.
  
  Personalization of a Cardiac Electromechanical Model using Reduced Order Unscented Kalman Filtering from Regional Volumes, in: Medical Image Analysis, May 2013, vol. 17, n^o 7, pp. 816-829. [ DOI : 10.1016/j.media.2013.04.012 ]
  
  http://hal.inria.fr/hal-00819806
• 18S. Marchesseau, H. Delingette, M. Sermesant, M. Sorine, K. Rhode, S. G. Duckett, C. A. Rinaldi, R. Razavi, N. Ayache.
  
  Preliminary Specificity Study of the Bestel-Clément-Sorine Electromechanical Model of the Heart using Parameter Calibration from Medical Images, in: Journal of the mechanical behavior of biomedical materials, 2013, vol. 20, pp. 259-271. [ DOI : 10.1016/j.jmbbm.2012.11.021 ]
  
  http://hal.inria.fr/hal-00813849
• 19B. Menze, G. Langs, Z. Tu, A. Criminisi.
  
  Whole-body anatomy localization via classification and regression forests, in: Medical Image Analysis, December 2013, vol. 17, n^o 8, 1282 p. [ DOI : 10.1016/j.media.2013.09.005 ]
  
  http://hal.inria.fr/hal-00917886
• 20K. Odening, B. Jung, C. Lang, R. Cabrera Lozoya, D. Ziupa, M. Menza, J. Relan, G. Franke, S. Perez Feliz, G. Koren, M. Zehender, C. Bode, M. Brunner, M. Sermesant, D. Föll.
  
  Spatial Correlation of Action Potential Duration and Diastolic Dysfunction in Transgenic and Drug-induced LQT2 Rabbits, in: Heart Rhythm, 2013, vol. 10, n^o 10, pp. 1533-1541, Focus Issue: Sudden Cardiac Death. [ DOI : 10.1016/j.hrthm.2013.07.038 ]
  
  http://hal.inria.fr/hal-00855929
• 21A. Prakosa, M. Sermesant, P. Allain, N. Villain, C. A. Rinaldi, K. Rhode, R. Razavi, H. Delingette, N. Ayache.
  
  Cardiac Electrophysiological Activation Pattern Estimation from Images using a Patient-Specific Database of Synthetic Image Sequences, in: IEEE Transactions on Biomedical Engineering, 2013, To appear. [ DOI : 10.1109/TBME.2013.2281619 ]
  
  http://hal.inria.fr/hal-00858891
• 22A. Prakosa, M. Sermesant, H. Delingette, S. Marchesseau, E. Saloux, P. Allain, N. Villain, N. Ayache.
  
  Generation of Synthetic but Visually Realistic Time Series of Cardiac Images Combining a Biophysical Model and Clinical Images, in: IEEE Transactions on Medical Imaging, 2013, vol. 32, n^o 1, pp. 99-109.
  
  http://hal.inria.fr/hal-00813861
• 23I. Rekik, S. Allassonnière, O. Clatz, E. Geremia, E. Stretton, H. Delingette, N. Ayache.
  
  Tumor Growth Parameters Estimation and Source Localization From a Unique Time Point: Application to Low-grade Gliomas, in: Computer Vision and Image Understanding, 2013, vol. 117, n^o 3, pp. 238–249. [ DOI : 10.1016/j.cviu.2012.11.001 ]
  
  http://hal.inria.fr/hal-00813881
• 24S. Sommer, F. Lauze, M. Nielsen, X. Pennec.
  
  Sparse Multi-Scale Diffeomorphic Registration: the Kernel Bundle Framework, in: Journal of Mathematical Imaging and Vision, 2013, vol. 46, n^o 3, pp. 292-308. [ DOI : 10.1007/s10851-012-0409-0 ]
  
  http://hal.inria.fr/hal-00813868
• 25S. Sommer, M. Nielsen, S. Darkner, X. Pennec.
  
  Higher-order momentum distributions and locally affine LDDMM registration, in: SIAM J. on Imaging Science (SIIMS), February 2013, vol. 6, n^o 1, pp. 341-367. [ DOI : 10.1137/110859002 ]
  
  http://hal.inria.fr/hal-00813869
• 26A. Suinesiaputra, B. Cowan, A. Al-Agamy, M. Alattar, N. Ayache, A. Fahmy, A. Khalifa, P. Medrano-Gracia, M.-P. Jolly, A. Kadish, D. Lee, J. Margeta, S. Warfield, A. Young.
  
  A Collaborative Resource to Build Consensus for Automated Left Ventricular Segmentation of Cardiac MR Images, in: Medical Image Analysis, 2014, vol. 18, n^o 1, pp. 50-62. [ DOI : 10.1016/j.media.2013.09.001 ]
  
  http://hal.inria.fr/hal-00857223
• 27H. Talbot, S. Marchesseau, C. Duriez, M. Sermesant, S. Cotin, H. Delingette.
  
  Towards an Interactive Electromechanical Model of the Heart, in: Journal of the Royal Society Interface Focus, April 2013, vol. 3, n^o 2. [ DOI : 10.1098/rsfs.2012.0091 ]
  
  http://hal.inria.fr/hal-00797354
• 28C. Tobon-Gomez, M. De Craene, K. Mcleod, L. Tautz, W. Shi, A. Hennemuth, A. Prakosa, H. Wang, G. Carr-White, S. Kapetanakis, A. Lutz, V. Rasche, T. Schaeffter, C. Butakoff, O. Friman, T. Mansi, M. Sermesant, X. Zhuang, S. Ourselin, H. O. Peitgen, X. Pennec, R. Razavi, D. Rueckert, A. F. Frangi, K. Rhode.
  
  Benchmarking framework for myocardial tracking and deformation algorithms: an open access database, in: Medical Image Analysis, 2013, vol. 17, n^o 6, pp. 632-648. [ DOI : 10.1016/j.media.2013.03.008 ]
  
  http://hal.inria.fr/hal-00855928
• 29C. Tobon-Gomez, N. Duchateau, R. Sebastian, S. Marchesseau, O. Camara, E. Donal, M. De Craene, A. Pashaei, J. Relan, M. Steghofer, P. Lamata, H. Delingette, S. G. Duckett, M. Garreau, A. Hernandez, K. Rhode, M. Sermesant, N. Ayache, C. Leclercq, R. Razavi, N. Smith, A. F. Frangi.
  
  Understanding the mechanisms amenable to CRT response: from pre-operative multimodal image data to patient-specific computational models, in: Medical and Biological Engineering and Computing, 2013, pp. 1–16. [ DOI : 10.1007/s11517-013-1044-7 ]
  
  http://hal.inria.fr/hal-00840037
• 30N. Toussaint, C. T. Stoeck, T. Schaeffter, S. Kozerke, M. Sermesant, P. G. Batchelor.
  
  In vivo human cardiac fibre architecture estimation using shape-based diffusion tensor processing, in: Medical Image Analysis, 2013, In press.
  
  http://hal.inria.fr/hal-00845062
• 31J. Unkelbach, B. Menze, E. Konukoglu, F. Dittmann, N. Ayache, H. Shi.
  
  Radiotherapy planning for glioblastoma based on a tumor growth model: implications for spatial dose redistribution, in: Physics in Medicine and Biology, December 2013.
  
  http://hal.inria.fr/hal-00917846
• 32J. Unkelbach, B. Menze, E. Konukoglu, F. Dittmann, M. Le, N. Ayache, H. Shi.
  
  Radiotherapy planning for glioblastoma based on a tumor growth model: improving target volume delineation, in: Physics in Medicine and Biology, December 2013.
  
  http://hal.inria.fr/hal-00917869
• 33I. Vidal-Migallón, O. Commowick, X. Pennec, J. Dauguet, T. Vercauteren.
  
  GPU & CPU implementation of Young - Van Vliet's Recursive Gaussian Smoothing Filter, in: Insight Journal (ITK), July 2013, Open peer-review journal.
  
  http://hal.inria.fr/inserm-00855958
• 34J. Weese, N. Ayache, N. Smith.
  
  Personalized Cardiac Modeling and Simulations in euHeart, in: Medical and Biological Engineering and Computing, 2013, Editorial. [ DOI : 10.1007/s11517-013-1103-0 ]
  
  http://hal.inria.fr/hal-00851239

International Conferences with Proceedings

• 35C. Audigier, T. Mansi, H. Delingette, S. Rapaka, V. Mihalef, P. Sharma, A. Kamen, D. Carnegie, E. Boctor, M. Choti, D. Comaniciu, N. Ayache.
  
  Lattice Boltzmann Method For Fast Patient-Specific Simulation of Liver Tumor Ablation from CT Images, in: MICCAI - Medical Image Computing and Computer Assisted Intervention - 2013, Nagoya, Japan, K. Mori, I. Sakuma, Y. Sato, C. Barillot, N. Navab (editors), Lecture Notes in Computer Science - LNCS, Springer, 2013, vol. 8151, pp. 323-330. [ DOI : 10.1007/978-3-642-40760-4_41 ]
  
  http://hal.inria.fr/hal-00804147
• 36T. Benseghir, G. Malandain, R. Vaillant.
  
  Iterative Closest Curve: a Framework for Curvilinear Structure Registration Application to 2D/3D Coronary Arteries Registration, in: MICCAI - Medical Image Computing and Computer Assisted Intervention, Nagoya, Japan, K. Mori, I. Sakuma, Y. Sato, C. Barillot, N. Navab (editors), Lecture Notes in Computer Science, Springer, 2013, vol. 8149, pp. 179-186. [ DOI : 10.1007/978-3-642-40811-3_23 ]
  
  http://hal.inria.fr/hal-00833196
• 37M. Breuilly, G. Malandain, N. Ayache, J. Guglielmi, T. Pourcher, P. Franken, J. Darcourt.
  
  Image-based motion detection in 4D images and application to respiratory motion suppression, in: ISBI - International Symposium on Biomedical Imaging, San Francisco, United States, IEEE, April 2013, pp. 792-795.
  
  http://hal.inria.fr/hal-00799368
• 38N. Cordier, B. Menze, H. Delingette, N. Ayache.
  
  Patch-based Segmentation of Brain Tissues, in: MICCAI Challenge on Multimodal Brain Tumor Segmentation, Nagoya, Japan, B. Menze, M. Reyes, A. Jakab, E. Gerstner, J. Kirby, K. Farahani (editors), IEEE, September 2013, pp. 6 - 17.
  
  http://hal.inria.fr/hal-00917084
• 39M. De Craene, P. Allain, H. Gao, A. Prakosa, S. Marchesseau, O. Somphone, L. Hilpert, A. Manrique, H. Delingette, S. Makram-Ebeid, N. Villain, J. D'hooge, M. Sermesant, E. Saloux.
  
  Computational and physical phantom setups for the second cardiac motion analysis challenge (cMAC2), in: MICCAI Workshop on Statistical Atlases and Computational Models of the Heart: Imaging and Modelling Challenge (STACOM12), Nice, France, O. Camara, T. Mansi, M. Pop, K. Rhode, M. Sermesant, A. Young (editors), Lecture Notes in Computer Science, Springer, 2013, vol. 7746, pp. 125–133. [ DOI : 10.1007/978-3-642-36961-2_15 ]
  
  http://hal.inria.fr/hal-00840040
• 40F. Dittmann, B. Menze, E. Konukoglu, J. Unkelbach.
  
  Use of Diffusion Tensor Images in Glioma Growth Modeling for Radiotherapy Target Delineation, in: Multimodal Brain Image Analysis, Nagoya, Japan, October 2013, vol. 8159, pp. 63-73. [ DOI : 10.1007/978-3-319-02126-3_7 ]
  
  http://hal.inria.fr/hal-00912667
• 41R. Donner, B. Menze, H. Bischof, G. Langs.
  
  Fast Anatomical Structure Localization Using Top-down Image Patch Regression, in: MICCAI Workshop on Medical Computer Vision (MCV), Nice, France, Lecture Notes in Computer Science, February 2013, vol. 7766, pp. 133-141. [ DOI : 10.1007/978-3-642-36620-8_14 ]
  
  http://hal.inria.fr/hal-00912929
• 42E. Geremia, B. Menze, N. Ayache.
  
  Spatially Adaptive Random Forest, in: 2013 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, San Francisco, CA, United States, IEEE, 2013, pp. 1332-35.
  
  http://hal.inria.fr/hal-00840035
• 43P. Gori, O. Colliot, Y. Worbe, L. Marrakchi-Kacem, S. Lecomte, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman.
  
  Bayesian Atlas Estimation for the Variability Analysis of Shape Complexes, in: MICCAI 2013 - 16th International Conference on Medical Image Computing and Computer Assisted Intervention, Nagoya, Japan, 2013, pp. 1-21, To appear.
  
  http://hal.inria.fr/hal-00846604
• 44P. Gori, O. Colliot, Y. Worbe, L. Marrakchi-Kacem, S. Lecomte, C. Poupon, A. Hartmann, N. Ayache, S. Durrleman.
  
  Towards joint morphometry of white matter tracts and gray matter surfaces, in: Human Brain Mapping, Seattle, United States, 2013, Organization for Human Brain Mapping 2013.
  
  http://hal.inria.fr/hal-00816138
• 45V. Gupta, N. Ayache, X. Pennec.
  
  Improving DTI Resolution from a Single Clinical Acquisition: A Statistical Approach using Spatial Prior, in: Proceedings of Medical Image Computing and Computer Assisted Intervention 2013 (MICCAI), Nagoya, Japan, K. Mori, I. Sakuma, Y. Sato, C. Barillot, N. Navab (editors), Lecture Notes in Computer Science - LNCS, Springer, 2013, vol. 8151, pp. 477-484. [ DOI : 10.1007/978-3-642-40760-4_60 ]
  
  http://hal.inria.fr/hal-00845927
• 46M. Lorenzi, M. Bochetta, N. Ayache, X. Pennec, G. Frisoni.
  
  Conversion to MCI in healthy individuals with abnormal CSF Ab42 levels is associated with specific longitudinal morphological changes, in: Alzheimer's Association International Conference 2013, Boston, United States, July 2013, vol. 9, issue 4 (supplement), 596 p. [ DOI : 10.1016/j.jalz.2013.05.1189 ]
  
  http://hal.inria.fr/hal-00874722
• 47M. Lorenzi, B. Menze, M. Niethammer, N. Ayache, X. Pennec.
  
  Sparse Scale-Space Decomposition of Volume Changes in Deformations Fields, in: Medical Image Computing and Computer Aided Intervention (MICCAI), Nagoya, Japan, K. Mori, I. Sakuma, Y. Sato, C. Barillot, N. Navab (editors), Lecture Notes in Computer Science - LNCS, Springer, 2013, vol. 8150, pp. 328-335. [ DOI : 10.1007/978-3-642-40763-5_41 ]
  
  http://hal.inria.fr/hal-00845758
• 48M. Lorenzi, X. Pennec.
  
  Parallel Transport with Pole Ladder: Application to Deformations of time Series of Images, in: GSI2013 - Geometric Science of Information, Paris, France, F. Nielsen, F. Barbaresco (editors), Lecture Notes in Computer Science - LNCS, Springer, 2013, vol. 8085, pp. 68-75. [ DOI : 10.1007/978-3-642-40020-9_6 ]
  
  http://hal.inria.fr/hal-00819898
• 49J. Margeta, K. Mcleod, A. Criminisi, N. Ayache.
  
  Decision forests for segmentation of left atrium from 3D MRI, in: 4th International Workshop on Statistical Atlases and Computational Models of the Heart, Nagoya, Japan, 2013.
  
  http://hal.inria.fr/hal-00860580
• 50K. Mcleod, C. Seiler, M. Sermesant, X. Pennec.
  
  A Near-Incompressible Poly-Affine Motion Model for Cardiac Function Analysis, in: Proc. MICCAI Workshop on Statistical Atlases and Computational Models of the Heart: Mapping Structure and Function + a Cardiac Electrophysiological Simulation Challenge (STACOM+CESC'12), Nice, France, Lecture Notes in Computer Science - LNCS, Springer, 2013, vol. 7746, pp. 288-297. [ DOI : 10.1007/978-3-642-36961-2_33 ]
  
  http://hal.inria.fr/hal-00813852
• 51K. Mcleod, C. Seiler, M. Sermesant, X. Pennec.
  
  Spatio-Temporal Dimension Reduction of Cardiac Motion for Group-Wise Analysis and Statistical Testing, in: MICCAI - Medical Image Computing and Computer Assisted Intervention - 2013, Nagoya, Japan, K. Mori, I. Sakuma, Y. Sato, C. Barillot, N. Navab (editors), Lecture Notes in Computer Science, Springer, Heidelberg, 2013, vol. 8150, pp. 501-508. [ DOI : 10.1007/978-3-642-40763-5_62 ]
  
  http://hal.inria.fr/hal-00840041
• 52K. Mcleod, C. Seiler, N. Toussaint, M. Sermesant, X. Pennec.
  
  Regional Analysis of Left Ventricle Function using a Cardiac-Specific Polyaffine Motion Model, in: Functional Imaging and Modeling of the Heart 2013 (FIMH), London, United Kingdom, S. Ourselin, D. Rueckert, N. Smith (editors), Lecture Notes in Computer Science, Springer, 2013, vol. 7945, pp. 483-490. [ DOI : 10.1007/978-3-642-38899-6_57 ]
  
  http://hal.inria.fr/hal-00840042
• 53X. Pennec.
  
  Bi-invariant means on Lie groups with Cartan-Schouten connections, in: Geometric Science of Information (GSI 2013), Paris, France, F. Nielsen, F. Barbaresco (editors), Lecture Notes in Computer Science - LNCS, Springer, July 2013, vol. 8085, pp. 59-67. [ DOI : 10.1007/978-3-642-40020-9_5 ]
  
  http://hal.inria.fr/hal-00846373
• 54M. Schneider, S. Hirsch, G. Szekely, B. Weber, B. Menze.
  
  Oblique Random Forests for 3-D Vessel Detection Using Steerable Filters and Orthogonal Subspace Filtering, in: MICCAI Workshop on Medical Computer Vision (MCV), Nice, France, February 2013, vol. 7766, pp. 142-154. [ DOI : 10.1007/978-3-642-36620-8_15 ]
  
  http://hal.inria.fr/hal-00912932
• 55C. Seiler, X. Pennec, S. Holmes.
  
  Random Spatial Structure of Geometric Deformations and Bayesian Nonparametrics, in: GSI - Geometric Science of Information - 2013, Paris, France, Lecture Notes in Computer Science - LNCS, Springer, July 2013, vol. 8085, pp. 120-127. [ DOI : 10.1007/978-3-642-40020-9_12 ]
  
  http://hal.inria.fr/hal-00847185
• 56O. Somphone, M. De Craene, R. Ardon, B. Mory, P. Allain, H. Gao, J. D'hooge, S. Marchesseau, M. Sermesant, E. Saloux.
  
  Fast Myocardial Motion and Strain Estimation in 3D Cardiac Ultrasound with Sparse Demons, in: International Symposium on Biomedical Imaging (ISBI), 2013, San Francisco, United States, IEEE, 2013, pp. 1182-1185. [ DOI : 10.1109/ISBI.2013.6556691 ]
  
  http://hal.inria.fr/hal-00840038
• 57E. Stretton, E. Geremia, B. Menze, H. Delingette, N. Ayache.
  
  Importance of patient DTI's to accurately model glioma growth using the reaction diffusion equation, in: 2013 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, San Francisco, CA, United States, IEEE, 2013, pp. 1130-32.
  
  http://hal.inria.fr/hal-00840036
• 58H. Talbot, M. Lekkal, R. Béssard-Duparc, S. Cotin.
  
  Interactive Planning of Cryotherapy Using Physically-Based Simulation, in: MMVR 21 - Medicine Meets Virtual Reality - 2014, Manhattan Beach, California, United States, February 2014.
  
  http://hal.inria.fr/hal-00918200
• 59Y. Tarabalka, G. Charpiat, L. Brucker, B. Menze.
  
  Enforcing Monotonous Shape Growth or Shrinkage in Video Segmentation, in: BMVC - British Machine Vision Conference, Bristol, United Kingdom, September 2013.
  
  http://hal.inria.fr/hal-00856634
• 60B. Tunç, A. Smith, D. Wasserman, X. Pennec, W. M. Wells, R. Verma, K. M. Pohl.
  
  Multinomial Probabilistic Fiber Representation for Connectivity Driven Clustering, in: IPMI 2013 - Information Processing in Medical Imaging, Asilomar, United States, J. C. Gee, S. Joshi, K. M. Pohl, W. M. Wells, L. Zollei (editors), LNCS, Springer, 2013, vol. 7917, pp. 730-741. [ DOI : 10.1007/978-3-642-38868-2_61 ]
  
  http://hal.inria.fr/hal-00846431
• 61A. S. Vemuri, S. Nicolau, N. Ayache, J. Marescaux, L. Soler.
  
  Inter-Operative Trajectory Registration for Endoluminal Video Synchronization: Application to Biopsy Site Re-localization, in: International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI), Nagoya, Japan, September 2013.
  
  http://hal.inria.fr/hal-00841712

Scientific Books (or Scientific Book chapters)

• 62E. Geremia, D. Zikic, O. Clatz, B. Menze, B. Glocker, E. Konukoglu, J. Shotton, O. M. Thomas, S. J. Price, T. Das, R. Jena, N. Ayache, A. Criminisi.
  
  Classification Forests for Semantic Segmentation of Brain Lesions in Multi-channel MRI, in: Decision Forests for Computer Vision and Medical Image Analysis, A. Criminisi, J. Shotton (editors), Advances in Computer Vision and Pattern Recognition, Springer London, 2013, pp. 245-260. [ DOI : 10.1007/978-1-4471-4929-3_17 ]
  
  http://hal.inria.fr/hal-00931809
• 63M. Lorenzi, X. Pennec.
  
  Discrete Ladders for Parallel Transport in Transformation Groups with an Affine Connection Structure, in: Geometric Theory of Information, F. Nielsen (editor), Springer, 2014.
  
  http://hal.inria.fr/hal-00933229
• 64K. Mcleod, T. Mansi, M. Sermesant, G. Pongiglione, X. Pennec.
  
  Statistical Shape Analysis of Surfaces in Medical Images Applied to the Tetralogy of Fallot Heart, in: Modeling in Computational Biology and Biomedicine, F. Cazals, P. Kornprobst (editors), Lectures Notes in Mathematical and Computational Biology, Springer, 2013, pp. 165-191. [ DOI : 10.1007/978-3-642-31208-3_5 ]
  
  http://hal.inria.fr/hal-00813850
• 65B. Menze, G. Langs, L. Lu, A. Montillo, Z. Tu, A. Criminisi.
  
  Medical Computer Vision: Recognition techniques and applications in medical imaging. Proceedings of the MICCAI 2012 Workshop on Medical Computer Vision (MCV 2012), Lecture Notes in Computer Science, Springer, February 2013, vol. 7766, 294 p. [ DOI : 10.1007/978-3-642-36620-8 ]
  
  http://hal.inria.fr/hal-00912655
• 66X. Pennec, P. Fillard.
  
  Statistical Computing On Non-Linear Spaces For Computational Anatomy, in: Biomedical Image Analysis: Methodologies And Applications, N. Paragios, J. Duncan, N. Ayache (editors), Springer, 2013, To Appear.
  
  http://hal.inria.fr/inria-00616201

Books or Proceedings Editing

• 67B. Menze, M. Reyes, A. Jakab, E. Gerstner, J. Kirby, K. Farahani (editors)
  
  Proceedings of the MICCAI Challenge on Multimodal Brain Tumor Image Segmentation (BRATS) 2013, MICCAI, September 2013, 57 p.
  
  http://hal.inria.fr/hal-00912934
• 68N. Paragios, J. Duncan, N. Ayache (editors)
  
  Biomedical Image Analysis: Methodologies And Applications, Springer, 2013, 590 p.
  
  http://hal.inria.fr/inria-00616178
• 69X. Pennec, S. Joshi, M. Nielsen, T. P. Fletcher, S. Durrleman, S. Sommer (editors)
  
  Proceedings of the Fourth International Workshop on Mathematical Foundations of Computational Anatomy - Geometrical and Statistical Methods for Biological Shape Variability Modeling (MFCA 2013), Nagoya, Japan, Inria, August 2013, 132 p.
  
  http://hal.inria.fr/hal-00873631

Internal Reports

• 70H. Talbot, F. Spadoni, M. Sermesant, N. Ayache, H. Delingette.
  
  Deliverable D10.4.2, January 2013, 22 p.
  
  http://hal.inria.fr/hal-00918211

Other Publications

• 71H. Delingette, P. Golland, K. Mori.
  
  Editorial for the MEDIA special issue on MICCAI 2012, 2013, Editorial of the Medical Image Analysis journal 17 (2013) 711.
  
  http://hal.inria.fr/hal-00848523
• 72B. Menze, A. Jakab, S. Bauer, J. Kalpathy-Cramer, K. Farahani, J. Kirby, Y. Burren, N. Porz, J. Slotboom, R. Wiest, L. Lanczi, E. Gerstner, M.-A. Weber, T. Arbel, B. Avants, N. Ayache, P. Buendia, L. Collins, N. Cordier, J. Corso, A. Criminisi, T. Das, H. Delingette, C. Demiralp, C. Durst, M. Dojat, S. Doyle, J. Festa, F. Forbes, E. Geremia, B. Glocker, P. Golland, X. Guo, A. Hamamci, K. Iftekharuddin, R. Jena, N. John, E. Konukoglu, D. Lashkari, J. Antonio Mariz, R. Meier, S. Pereira, D. Precup, S. J. Price, T. Riklin-Raviv, S. Reza, M. Ryan, L. Schwartz, H.-C. Shin, J. Shotton, C. Silva, N. Sousa, N. Subbanna, G. Szekely, T. Taylor, O. Thomas, N. Tustison, G. Unal, F. Vasseur, M. Wintermark, D. Hye Ye, L. Zhao, B. Zhao, D. Zikic, M. Prastawa, M. Reyes, K. Van Leemput.
  
  The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS), January 2014.
  
  http://hal.inria.fr/hal-00935640
• 73X. Pennec, S. Joshi, M. Nielsen.
  
  Mathematical Methods for Medical Imaging, August 2013, Editorial of the special issue following the Mathematical Foundations of Computational Anatomy (MFCA) 2011 workshop. International Journal of Computer Vision: Volume 105, Issue 2 (2013), Page 109-110.
  
  http://hal.inria.fr/hal-00858908

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• 98P. Hunter, T. Borg.
  
  Integration from proteins to organs: the Physiome project, in: Nature Reviews - Molecular Cell Biology, 2003, vol. 4, pp. 237–243.
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• 105A. Quarteroni, L. Formaggia.
  
  Mathematical Modeling and Numerical Simulation of the Cardiovascular System, in: Computational Models for the Human Body, N. Ayache (editor), Elsevier, 2004, pp. 3–128.
• 106P. 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.
  
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• 107P. M. Thompson, M. I. Miller, J. T. Ratnanather, R. A. Poldrack, T. E. Nichols.
  
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