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Publications of year 2014

Thesis

  1. Erin Stretton. Simulation of patient-specific glioma models for therapy planning. Theses, Ecole Nationale Supérieure des Mines de Paris, November 2014. Keyword(s): Ficher Kolmogorov Model, Medical Imaging, Patient-Specific, Computer Model, Glioma Modeling, Brain Tumor Modeling, Modélisation de Gliome, Modèlisation numérique, Modèle de Fisher Kolmogorov, Imagerie Médicale, Patient-Spécifique, Modélisation de Tumeur Cérébrale. [bibtex-entry]


  2. Hugo Talbot. Interactive Patient-Specific Simulation of Cardiac Electrophysiology. Theses, Université des Sciences et Technologies de Lille, July 2014. Keyword(s): Cardiac Electrophysiology Modeling, Real-Time Simulation, Arrhythmia Modeling, Cardiac Electromechanics, Nonlinear Optimisation, Model Personalization, Endovascular Navigation, Training Simulation, Radio- Frequency Ablation Planning, SOFA Framework, Modélisation de l'Électrophysiologie Cardiaque, Simulation Temps-Réel, Modélisation d'Arythmie, Électromécanique Cardiaque, Optimisation Non-linéaire, Personnalisation de Modèle, Navigation Endovasculaire, Simulation d'Entrainement, Ablation Radio-Fréquence, Planning d'Ablation, Framework de Simulation SOFA. [bibtex-entry]


Articles in journal, book chapters

  1. Romain Guibert, Kristin Mcleod, Alfonso Caiazzo, Tommaso Mansi, Miguel Angel Fernández, Maxime Sermesant, Xavier Pennec, Irene Vignon-Clementel, Younes Boudjemline, and Jean-Frédéric Gerbeau. Group-wise Construction of Reduced Models for Understanding and Characterization of Pulmonary Blood Flows from Medical Images. Medical Image Analysis, 18(1):63-82, 2014. Keyword(s): Proper orthogonal decomposition, Atlas construction, Pulmonary artery, Tetralogy of Fallot, Computational fluid dynamics. [bibtex-entry]


  2. Antoine Iannessi, Pierre Yves Marcy, Olivier Clatz, Nicholas Ayache, and Pierre Fillard. Touchless User Interface for Intraoperative Image Control: Almost There. Radiographics, 34(4), July 2014. [bibtex-entry]


  3. Y. Komatsu, A. Jadidi, F. Sacher, A. Denis, M. Daly, N. Derval, A. Shah, H. Lehrmann, C.-I. Park, R. Weber, T. Arentz, G. Pache, Maxime Sermesant, Nicholas Ayache, J. Relan, M. Montaudon, F. Laurent, M. Hocini, M. Haissaguerre, P. Jais, and Hubert Cochet. Relationship Between MDCT-Imaged Myocardial Fat and Ventricular Tachycardia Substrate in Arrhythmogenic Right Ventricular Cardiomyopathy. Journal of the American Heart Association, 3(4):10, 2014. [bibtex-entry]


  4. Herve Lombaert, Leo Grady, Xavier Pennec, Nicholas Ayache, and Farida Cheriet. Spectral Log-Demons: Diffeomorphic Image Registration with Very Large Deformations. International Journal of Computer Vision, 107(3):254-271, May 2014. [bibtex-entry]


  5. Bjoern Menze, Andras Jakab, Stefan Bauer, Jayashree Kalpathy-Cramer, Keyvan Farahani, Justin Kirby, Yuliya Burren, Nicole Porz, Johannes Slotboom, Roland Wiest, Levente Lanczi, Elisabeth Gerstner, Marc-Andre Weber, Tal Arbel, Brian Avants, Nicholas Ayache, Patricia Buendia, Louis Collins, Nicolas Cordier, Jason Corso, Antonio Criminisi, Tilak Das, Hervé Delingette, Cagatay Demiralp, Christopher Durst, Michel Dojat, Senan Doyle, Joana Festa, Florence Forbes, Ezequiel Geremia, Ben Glocker, Polina Golland, Xiaotao Guo, Andac Hamamci, Khan Iftekharuddin, Raj Jena, Nigel John, Ender Konukoglu, Danial Lashkari, Jose Antonio Mariz, Raphael Meier, Sergio Pereira, Doina Precup, S. J. Price, Tammy Riklin-Raviv, Syed Reza, Michael Ryan, Lawrence Schwartz, Hoo-Chang Shin, Jamie Shotton, Carlos Silva, Nuno Sousa, Nagesh Subbanna, Gabor Szekely, Thomas Taylor, Owen Thomas, Nicholas Tustison, Gozde Unal, Flor Vasseur, Max Wintermark, Dong Hye Ye, Liang Zhao, Binsheng Zhao, Darko Zikic, Marcel Prastawa, Mauricio Reyes, and Koen Van Leemput. The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS). IEEE Transactions on Medical Imaging, 34(10):1993-2024, October 2014. [bibtex-entry]


  6. Antonio Porras, Martino Alessandrini, Mathieu De Craene, Nicolas Duchateau, Marta Sitges, Bart Bijnens, Hervé Delingette, Maxime Sermesant, Jan D'Hooge, Alejandro Frangi, and Gemma Piella. Improved Myocardial Motion Estimation Combining Tissue Doppler and B-Mode Echocardiographic Images. IEEE Transactions on Medical Imaging, 33(11):2098 - 2106, June 2014. Keyword(s): motion estimation, image registration, Echocardiography, free form deformation (FFD). [bibtex-entry]


  7. Adityo Prakosa, Maxime Sermesant, Pascal Allain, Nicolas Villain, Christopher Aldo Rinaldi, Kawal Rhode, Reza Razavi, Hervé Delingette, and Nicholas Ayache. Cardiac Electrophysiological Activation Pattern Estimation from Images using a Patient-Specific Database of Synthetic Image Sequences. IEEE Transactions on Biomedical Engineering, 61(2):235 - 245, 2014. [bibtex-entry]


  8. Avan Suinesiaputra, Brett Cowan, Ahmed O. Al-Agamy, Mustafa A. Alattar, Nicholas Ayache, Ahmed S. Fahmy, Ayman M. Khalifa, Pau Medrano-Gracia, Marie-Pierre Jolly, Alan H. Kadish, Daniel C. Lee, Jan Margeta, Simon K. Warfield, and Alistair Young. A Collaborative Resource to Build Consensus for Automated Left Ventricular Segmentation of Cardiac MR Images. Medical Image Analysis, 18(1):50-62, 2014. [bibtex-entry]


  9. Yuliya Tarabalka, Guillaume Charpiat, Ludovic Brucker, and Bjoern Menze. Spatio-Temporal Video Segmentation with Shape Growth or Shrinkage Constraint. IEEE Transactions on Image Processing, 23(9):3829-3840, September 2014. [bibtex-entry]


  10. A. Frangi, Denis Friboulet, Nicholas Ayache, H. Delingette, T. Glatard, C. Hoogendoorn, L. Humbert, K. Lekadir, I. Larrabide, Y. Martelli, F. Peyrin, X. Planes, Maxime Sermesant, M.C. Villa-Uriol, T. Whitmarsh, and D. Atkinson. Image Based Modelling. In Peter Coveney, Vanessa Diaz, Peter Hunter, and Marco Viceconti, editors, Computational Biomedicine, pages 59 - 82. Oxford University Press, 2014. [bibtex-entry]


  11. Marco Lorenzi and Xavier Pennec. Discrete Ladders for Parallel Transport in Transformation Groups with an Affine Connection Structure. In Frank Nielsen, editor, Geometric Theory of Information, Signals and Communication Technology, pages 243-271. Springer, 2014. [bibtex-entry]


Conference articles

  1. Martino Alessandrini, Brecht Heyde, Szymon Cygan, Maxime Sermesant, Hervé Delingette, Olivier Bernard, De Craene, and Jan D'Hooge. Elastic registration vs. block matching for quantification of cardiac function with 3D ultrasound: Initial results of a direct comparison in silico based on a new evaluation pipeline. In IEEE International Ultrasonics Symposium, Chicago, United States, pages 608 - 611, September 2014. [bibtex-entry]


  2. Chloé Audigier, Tommaso Mansi, Hervé Delingette, Saikiran Rapaka, Viorel Mihalef, Daniel Carnegie, Emad Boctor, Michael Choti, Ali Kamen, Dorin Comaniciu, and Nicholas Ayache. Parameter Estimation For Personalization of Liver Tumor Radiofrequency Ablation. In MICCAI Workshop on Abdominal Imaging -- Computational and Clinical Applications, Boston, United States, September 2014. [bibtex-entry]


  3. Rocio Cabrera Lozoya, Jan Margeta, Loic Le Folgoc, Yuki Komatsu, Berte Benjamin, Jatin Relan, Hubert Cochet, Michel Haïssaguerre, Pierre Jais, Nicholas Ayache, and Maxime Sermesant. Confidence-based Training for Clinical Data Uncertainty in Image-based Prediction of Cardiac Ablation Targets. In bigMCV Workshop MICCAI 2014, Boston, United States, September 2014. [bibtex-entry]


  4. Hugo Darmanté, Benoit Bugnas, Regis Bernard De Dompsure, Laurent Barresi, Nina Miolane, Xavier Pennec, Fernand DE PERETTI, and Nicolas BRONSARD. Analyse biométrique de l'anneau pelvien en 3 dimensions - à propos de 100 scanners. In 89e Réunion annuelle de la SOFCOT, volume 100 of Revue de Chirurgie Orthopédique et Traumatologique, Paris, France, November 2014. [bibtex-entry]


  5. Mathieu De Craene, Martino Alessandrini, Pascal Allain, Stephanie Marchesseau, I Waechter-Stehle, J Weese, E Saloux, H. G. Morales, R Cuingnet, Hervé Delingette, M Sermesant, Olivier Bernard, and J D 'hooge. Generation of ultra-realistic synthetic echocardiographic sequences. In Biomedical Imaging (ISBI), 2014 IEEE 11th International Symposium on, Beijing, China, pages 73 - 76, April 2014. IEEE. Keyword(s): Ultra-sound imaging, Motion detection and tracking, Modeling of image formation. [bibtex-entry]


  6. Sophie Giffard-Roisin, Stéphanie Marchesseau, Loic Le Folgoc, Hervé Delingette, and Maxime Sermesant. Evaluation of Personalised Canine Electromechanical Models. In O. Camara, T. Mansi, M. Pop, K. Rhode, M. Sermesant, and A. Young, editors, Proceedings of the 5th international STACOM workshop (Boston, September 18, 2014), number 8896 of 5th International Workshop, STACOM 2014, Held in Conjunction with MICCAI 2014, Boston, MA, USA, September 18, 2014, Revised Selected Papers, Boston, United States, pages 74-82, September 2014. Pop M., Springer. Keyword(s): Cardiac Electrophisiology, Cardiac Electrophysiology modeling, Cardiac Modeling, Cardiac electrical activity, Personalized modeling, Personalised modelling, Modelling and Simulation, Mechanical modeling, Cardiac Modelling, Modelisation cardiaque. [bibtex-entry]


  7. Pietro Gori, Olivier Colliot, Linda Marrakchi-Kacem, Yulia Worbe, Fabrizio De Vico Fallani, Mario Chavez, Sophie Lecomte, Cyril Poupon, Andreas Hartmann, Nicholas Ayache, and Stanley Durrleman. A Prototype Representation to Approximate White Matter Bundles with Weighted Currents. In MICCAI 2014 - 17th International Conference on Medical Image Computing and Computer Assisted Intervention, Boston, United States, September 2014. [bibtex-entry]


  8. Bishesh Khanal, Marco Lorenzi, Nicholas Ayache, and Xavier Pennec. A Biophysical Model of Shape Changes due to Atrophy in the Brain with Alzheimer's Disease. In P. GOLLAND, N. HATA, C. BARILLOT, J. HORNEGGER, and R. HOWE, editors, MICCAI 2014 - 17th International Conference Medical Image Computing and Computer-Assisted Intervention, volume 8674 of LNCS - Lecture Notes in Computer Science, Springer, Boston, United States, pages 41-48, September 2014. Springer. Keyword(s): Alzheimer's disease, Biophysical model, Atrophy model, Atrophy simulation, Longitudinal modeling. [bibtex-entry]


  9. Marzieh Kohandani Tafreshi, Virendra Joshi, Alexander Meining, Charles Lightdale, Marc Giovannini, Julien Dauguet, Nicholas Ayache, and Barbara André. Smart Atlas for Supporting the Interpretation of probe-based Confocal Laser Endomicroscopy (pCLE) of Biliary Strictures: First Classification Results of a Computer-Aided Diagnosis Software based on Image Recognition. In Digestive Disease Week (DDW 2014), Chicago, United States, May 2014. [bibtex-entry]


  10. Marzieh Kohandani Tafreshi, Yan-Qing Li, Rapat Pittayanon, Douglas Pleskow, Virendra Joshi, Philip Chiu, Julien Dauguet, Nicholas Ayache, and Barbara André. Smart Atlas for Supporting the Interpretation of probe-based Confocal Laser Endomicroscopy (pCLE) of Gastric Lesions: First Classification Results of a Computer-Aided Diagnosis Software based on Image Recognition. In Digestive Disease Week (DDW 2014), Chicago, United States, May 2014. [bibtex-entry]


  11. Marzieh Kohandani Tafreshi, Nicolas Linard, Barbara André, Nicholas Ayache, and Tom Vercauteren. Semi-automated Query Construction for Content-based Endomicroscopy Video Retrieval. In Medical Image Computing and Computer Assisted Intervention (MICCAI), Boston, United States, September 2014. Keyword(s): Microscopic imaging, Biological Imaging, Abdominal imaging, Optical imaging, Machine learning, Database retrieval and data mining, Computer vision, Minimally invasive procedure, Pathology, Intraoperative imaging, Endoscopic imaging. [bibtex-entry]


  12. Marzieh Kohandani Tafreshi, Bertrand Napoléon, Anne-Isabelle Lemaistre, Marc Giovannini, Virendra Joshi, Julien Dauguet, Nicholas Ayache, and Barbara André. Smart Atlas for Supporting the Interpretation of needle-based Confocal Laser Endomicroscopy (nCLE) of Pancreatic Cysts: First Classification Results of a Computer-Aided Diagnosis Software based on Image Recognition. In Digestive Disease Week (DDW 2014), Chicago, United States, May 2014. [bibtex-entry]


  13. Loic Le Folgoc, Hervé Delingette, Antonio Criminisi, and Nicholas Ayache. Sparse Bayesian Registration. In Polina Golland, Nobuhiko Hata, Christian Barillot, Joachim Hornegger, and Robert Howe, editors, MICCAI - 17th International Conference on Medical Image Computing and Computer Assisted Intervention, volume 8673 of LNCS - Lecture Notes in Computer Science, Springer, Boston, United States, pages 235-242, September 2014. Springer. Keyword(s): Sparse, Bayesian, Registration, Automatic Relevance Determination, MRI. [bibtex-entry]


  14. Herve Lombaert, Darko Zikic, Antonio Criminisi, and Nicholas Ayache. Laplacian Forests: Semantic Image Segmentation by Guided Bagging. In Polina Golland, Nobuhiko Hata, Christian Barillot, Joachim Hornegger, and Robert Howe, editors, MICCAI 2014 - 17th International Conference Medical Image Computing and Computer-Assisted Intervention, volume 8674 of LNCS - Lecture Notes in Computer Science, Boston, United States, September 2014. Springer. [bibtex-entry]


  15. Marco Lorenzi, Xavier Pennec, Nicholas Ayache, and (ADNI) For The Alzheimer'S Disease Neuroimaging Initiative. Regional flux analysis of longitudinal atrophy in Alzheimer's disease. In Alzheimer's Association International Conference, Copenhagen, Denmark, July 2014. Note: Oral podium presentation. [bibtex-entry]


  16. Matthieu Lê, Hervé Delingette, Jayashree Kalpathy-Cramer, Elisabeth Gerstner, Helen A. Shih, Tracy Batchelor, Jan Unkelbach, and Nicholas Ayache. Multimodal Analysis of Vasogenic Edema in Glioblastoma Patients for Radiotherapy Planning. In Workshop Image-Guided Adaptive Radiation Therapy, Boston, United States, September 2014. [bibtex-entry]


  17. Jan Margeta, Antonio Criminisi, Daniel C. Lee, and Nicholas Ayache. Recognizing cardiac magnetic resonance acquisition planes. In MIUA - Medical Image Understanding and Analysis Conference - 2014, London, United Kingdom, July 2014. Reyes-Aldasoro, Constantino Carlos and Slabaugh, Gregory. Keyword(s): random forests, cardiac MR. [bibtex-entry]


  18. Nina Miolane and Xavier Pennec. Statistics on Lie groups : a need to go beyond the pseudo-Riemannian framework. In Bayesian inference and Maximum Entropy Methods in Science and Engineering (MaxEnt 2014), volume 1641 of AIP Conference Proceedings, Amboise, France, pages 59-66, September 2014. AIP Proceedings. Keyword(s): pseudo-Riemannian, Statistics, computational anatomy, Lie group, exponential barycenter, metric, manifold. [bibtex-entry]


  19. H Talbot, F Spadoni, Christian Duriez, M Sermesant, Stéphane Cotin, and Hervé Delingette. Interactive Training System for Interventional Electrocardiology Procedures. In 6th International Symposium on Biomedical Simulation - ISBMS 2014, Strabsourg, France, pages 11 - 19, October 2014. Keyword(s): Electrophysiology, Radio-Frequency Ablation, Arrhythmia, Training System. [bibtex-entry]


  20. Anant S. Vemuri, Adrien Sportes, Stéphane Nicolau, Jacques Marescaux, Nicholas Ayache, and Luc Soler. Video Synchronization: An Approach to Biopsy Site Re-localization. In Proceedings of Surgetica'2014 : Computer-Assisted Medical Interventions: scientific problems, tools and clinical applications, Chambéry, France, December 2014. Jocelyne TROCCAZ. Keyword(s): Inter operative Relocalization, Endoluminal surgery, Endoscopy. [bibtex-entry]


Internal reports

  1. Martin Bauer, Martins Bruveris, Philipp Harms, Boris Khesin, Stephen Marsland, Peter Michor, Klas Modin, Olaf Müller, Xavier Pennec, Stefan Sommer, and François-Xavier Vialard. Math in the Cabin - Shape Analysis Workshop in Bad Gastein. Research Report, Brunel University London ; University of Vienna, July 2014. [bibtex-entry]


Patents, standards

  1. Chloé Audigier, Tommaso Mansi, Viorel Mihalef, Ali Kamen, Dorin Comaniciu, Puneet Sharma, and Saikiran Rapaka. System and method for interactive patient specific simulation of radiofrequency ablation therapy. PCT/US2014/017886, United States, September 2014. [bibtex-entry]


  2. Chloé Audigier, Tommaso Mansi, Viorel Mihalef, Ali Kamen, Dorin Comaniciu, Puneet Sharma, Saikiran Rapaka, Hervé Delingette, and Nicholas Ayache. System and method for patient specific modeling of liver tumor ablation. US 2014/0136174 A1, United States, May 2014. [bibtex-entry]


Miscellaneous

  1. Jan L. Bruse, Kristin Mcleod, Giovanni Biglino, Tain-Yen Hsia, Xavier Pennec, Maxime Sermesant, Andrew M. Taylor, and Silvia Schievano. A Statistical Shape Atlas of the Surgically Reconstructed Aortic Arch in Patients With Hypoplastic Left Heart Syndrome. 7th World Congress of Biomechanics, Boston 2014, July 2014. Note: Poster. [bibtex-entry]


  2. Loic Le Folgoc, Hervé Delingette, Antonio Criminisi, and Nicholas Ayache. Technical Appendix on Sparse Bayesian Regression. MICCAI - 17th International Conference on Medical Image Computing and Computer Assisted Intervention, September 2014. Note: Technical appendix to a MICCAI 2014 conference paper. Loïc Le Folgoc, Hervé Delingette, Antonio Criminisi, and Nicholas Ayache: Sparse Bayesian Registration. Keyword(s): Sparse, Bayesian, Regression, RVM. [bibtex-entry]


  3. Adrien Sportes, Anant Vemuri, Stéphane Nicolau, Jerome Huppertz, Luc Soler, and Michel Delvaux. Development Of A Prototype Of Video Synchronisation For Relocalization Of Biopsy Sites During Endoscopic Evaluation Of Barrett's Oesophagus: Preliminary Experimental And Clinical Study. United European Gastroenterology (UEG) Week, 2014. Note: Poster. Keyword(s): Barrett Oesophagus, Gastroscopy, Relocalization. [bibtex-entry]


  4. A Sportes, Anant S. Vemuri, Stéphane Nicolau, J Huppertz, L Soler, and M Delvaux. Développement d'un système de relocalisation endoscopique de sites de biopsie dans le suivi de l'endobrachyoesophage : Résultats préliminaires d'un prototype de synchronisation video. Société Nationale Française de Gastro-Entérologie, 2014. Note: Poster. Keyword(s): Gastrointestinal endoscopy, Surgical navigation, Electromagnetic tracking. [bibtex-entry]


  5. Clair Vandersteen, Thomas Demarcy, Hervé Delingette, Charles Raffaelli, Jonathan Laudanski, Thierry Pourcher, Jacques Darcourt, Philippe Franken, Dan Gnansia, Nicholas Ayache, and Nicolas Guevara. Teaching tool for advanced visualization of temporal bone structures by fusion of $\mu$CT and CT scan images. 8th International Symposium on Objective Measures in Auditory Implants, October 2014. Note: Poster. [bibtex-entry]



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