Team Asclepios

Members
Overall Objectives
Scientific Foundations
Software
New Results
Contracts and Grants with Industry
Other Grants and Activities
Dissemination
Bibliography

Bibliography

Major publications by the team in recent years

[1]
N. Ayache (editor)
Computational Models for the Human Body, Handbook of Numerical Analysis (Ph. Ciarlet series editor), Elsevier, 2004.
[2]
N. 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.
[3]
N. Ayache.
Epidaure: a Research Project in Medical Image Analysis, Simulation and Robotics at INRIA, in: IEEE Trans. on Medical Imaging, October 2003, vol. 22, no 10, p. 1185–1201
ftp://ftp-sop.inria.fr/epidaure/Publications/Ayache/Ayache-editorial-ieee-tmi.pdf.
[4]
N. Ayache.
L'analyse automatique des images medicales, etat de l'art et perspectives, in: Annales de l'Institut Pasteur, Numero special sur les progres recents de l'imagerie medicale, avril-juin 1998, vol. 9, no 1, p. 13-21.
[5]
C. 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, no 11, p. 2197–2208
ftp://ftp-sop.inria.fr/epidaure/Publications/Malandain/blondel-pmb-2004.pdf.
[6]
P. Cachier, E. 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, no 2-3, p. 272–298
ftp://ftp-sop.inria.fr/epidaure/Publications/Cachier/Cachier_CVIU_2003.pdf.
[7]
H. 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.
[8]
H. Delingette.
General Object Reconstruction based on Simplex Meshes, in: International Journal of Computer Vision, 1999, vol. 32, no 2, p. 111-146.
[9]
J. 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, no 1, p. 85-106.
[10]
M. A. González Ballester, X. Pennec, M. G. Linguraru, N. Ayache.
Generalized Image Models and Their Application as Statistical Models of Images, in: Medical Image Analysis, MICCAI 2003 Special Issue, September 2004, vol. 8, no 3, p. 361–369
ftp://ftp-sop.inria.fr/epidaure/Publications/Gonzalez/Gonzalez:MedIA:2004.pdf.
[11]
K. 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, no 2, p. 130–171
ftp://ftp-sop.inria.fr/epidaure/Publications/Malandain/krissian-cviu-2000.pdf.
[12]
G. 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, no 1, p. 111–127
ftp://ftp-sop.inria.fr/epidaure/Publications/Malandain/malandain-neuroimage-2004.pdf.
[13]
J. Montagnat, H. Delingette, N. Ayache.
A review of deformable surfaces: topology, geometry and deformation, in: Image and Vision Computing, December 2001, vol. 19, no 14, p. 1023-1040
ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/ivc00.montagnat.pdf.
[14]
J. Montagnat, H. Delingette.
4D Deformable Models with temporal constraints : application to 4D cardiac image segmentation, in: Medical Image Analysis, February 2005, vol. 9, no 1, p. 87–100
ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/montagnat-Media04.pdf.
[15]
X. Pennec, N. Ayache, J.-P. Thirion.
Landmark-based registration using features identified through differential geometry, in: Handbook of Medical Imaging, I. Bankman (editor), Academic Press, September 2000, chap. 31, p. 499-513
ftp://ftp-sop/epidaure/Publications/Pennec/Pennec.HMIP.pdf.
[16]
X. Pennec, P. Cachier, N. Ayache.
Tracking Brain Deformations in Time-Sequences of 3D US Images, in: Pattern Recognition Letters - Special Issue on Ultrasonic Image Processing and Analysis, February 2003, vol. 24, no 4-5, p. 801–813
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Pennec.Cachier.Ayache.PattRecLetters02.pdf.
[17]
G. Picinbono, H. Delingette, N. Ayache.
Non-Linear Anisotropic Elasticity for Real-Time Surgery Simulation, in: Graphical Models, September 2003, vol. 65, no 5, p. 305–321
ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/Picinbono-GM03.pdf.
[18]
S. 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, no 2, p. 122–138
ftp://ftp-sop.inria.fr/epidaure/Publications/Prima/tmi.final.pdf.
[19]
D. 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, no 2, p. 163-179
ftp://ftp-sop.inria.fr/epidaure/Publications/Rey/rey-media-2002.pdf.
[20]
A. 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, no 1, p. 71–80
ftp://ftp-sop.inria.fr/epidaure/Publications/Roche/ijist00.pdf.
[21]
A. 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, no 10, p. 1038–1049
ftp://ftp-sop.inria.fr/epidaure/Publications/Roche/Roche_MR_US_TMI_2001.pdf.
[22]
M. Sermesant, H. Delingette, N. Ayache.
An Electromechanical Model of the Heart for Image Analysis and Simulation, in: IEEE Transactions in Medical Imaging, 2006, vol. 25, no 5, p. 612–625
ftp://ftp-sop.inria.fr/asclepios/Publications/Maxime.Sermesant/TMI2006Sermesant.pdf.
[23]
M. 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, no 4, p. 475–488
http://authors.elsevier.com/sd/article/S1361841503000689.

Publications of the year

Books and Monographs

[24]
H. Delingette, A. Frangi (editors)
Proceedings of the MICCAI Workshop - From Statistical Atlases to Personalized Models: Understanding Complex Diseases in Populations and Individuals, 2006.
[25]
X. Pennec, S. Joshi (editors)
Proceedings of the First International Workshop on Mathematical Foundations of Computational Anatomy - Geometrical and Statistical Methods for Modelling Biological Shape Variability, October 1st, 2006 Copenhagen, Denmark, 2006
ftp://ftp-sop.inria.fr/asclepios/Publications/Xavier.Pennec/Pennec.MFCA06.pdf.

Doctoral dissertations and Habilitation theses

[26]
V. Arsigny.
Processing Data in Lie Groups: An Algebraic Approach. Application to Non-Linear Registration and Diffusion Tensor MRI, Thèse de sciences (PhD Thesis), École polytechnique, November 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_phd.pdf.
[27]
O. Clatz.
Modèles biomécaniques et physio-pathologiques pour l'analyse d'images cérébrales, Thèse de sciences, École des Mines de Paris, February 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Clatz/These_clatz.pdf.
[28]
H. Delingette.
Modélisation de structures déformables, Habilitation à diriger des recherches, Université Nice Sophia-Antipolis, March 2006
ftp://ftp-sop.inria.fr/asclepios/Publications/Herve.Delingette/hdr.pdf.
[29]
G. Dugas-Phocion.
Segmentation d'IRM Cérébrales Multi-Séquences et Application à la Sclérose en Plaques, Thèse de sciences, École des Mines de Paris, March 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Misc/dugas-phd.pdf.
[30]
G. Malandain.
Les mesures de similarité pour le recalage des images médicales, Habilitation à diriger des recherches, Université Nice Sophia-Antipolis, March 2006
ftp://ftp-sop.inria.fr/asclepios/Publications/Gregoire.Malandain/malandain-hdr-2006.pdf.
[31]
X. Pennec.
Statistical Computing on Manifolds for Computational Anatomy, Habilitation à diriger des recherches, Université Nice Sophia-Antipolis, December 2006
ftp://ftp-sop.inria.fr/asclepios/Publications/Xavier.Pennec/Pennec_HDR.pdf.

Articles in refereed journals and book chapters

[32]
N. Archip, O. Clatz, S. Whalen, D. Kacher, A. Fedorov, A. Kot, N. Chrisochoides, F. Jolesz, A. Golby, P. Black, S. Warfield.
Non-rigid alignment of preoperative MRI, fMRI, and DT-MRI with intra-operative MRI for enhanced visualization and navigation in image-guided neurosurgery, in: Neuroimage, In press, 2006.
[33]
V. Arsigny, P. Fillard, X. Pennec, N. Ayache.
Geometric Means in a Novel Vector Space Structure on Symmetric Positive-Definite Matrices, in: SIAM Journal on Matrix Analysis and Applications, In press., 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_siam_tensors.pdf.
[34]
V. 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, no 2, p. 411-421
ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_mrm_2006.pdf.
[35]
C. Blondel, G. Malandain, R. Vaillant, N. Ayache.
Reconstruction of Coronary Arteries from a Single Rotational X-Ray Projection Sequence, in: IEEE Transactions on Medical Imaging, In press, May 2006, vol. 25, no 5, p. 653–663
ftp://ftp-sop.inria.fr/asclepios/Publications/Gregoire.Malandain/blondel-tmi-2006.pdf.
[36]
F. Cassot, F. Lauwers, C. Fouard, S. Prohaska, V. Lauwers-Cances.
A novel three-dimensional computer-assisted method for a quantitative study of microvascular networks of the human cerebral cortex, in: Microcirculation, January 2006, vol. 13, no 1, p. 1-18.
[37]
O. Clatz, S. Litrico, H. Delingette, N. Ayache.
Dynamic Model of Communicating Hydrocephalus for Surgery Simulation, in: IEEE Transactions on Biomedical Engineering, In press, 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Clatz/hydrocephalus_clatz.pdf.
[38]
H. Delingette, N. Ayache.
La simulation de Chirurgie Hépatique, in: Pour la Science, July 2006, vol. 52, no 52, p. 106-109
ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/Simulation-Pour-La-Science.pdf.
[39]
H. 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, no 9, p. 1678- 1688
ftp://ftp-sop.inria.fr/epidaure/Publications/Delingette/IEEE-proceedings-Robotics.pdf.
[40]
D. Ducreux, F. Dhermain, P. Fillard.
Functional MRI in Brain Tumours, in: Cancer Radiotherapy, In press, September 2006.
[41]
D. Ducreux, J.-F. Lepeintre, P. Fillard, C. Loureiro, M. Tadié, P. Lasjaunias.
MR Diffusion Tensor Imaging and Fiber Tracking in 5 Spinal Cord Astrocytomas, in: American Journal of Neuroradiology (AJNR), 2006, vol. 27, p. 214-216.
[42]
P. Fillard, V. Arsigny, X. Pennec, Kiralee M. Hayashi, Paul M. Thompson, N. Ayache.
Measuring Brain Variability by Extrapolating Sparse Tensor Fields Measured on Sulcal Lines, in: Neuroimage, Also as INRIA Research Report 5887, April 2006, January 2006, vol. 34, no 2, p. 639–650
ftp://ftp-sop.inria.fr/asclepios/Publications/Pierre.Fillard/Fillard.Neuroimage.2006.pdf.
[43]
C. Fouard, G. Malandain, S. Prohaska, M. Westerhoff.
Blockwise Processing Applied to Brain Microvascular Network Study, in: IEEE Transactions on Medical Imaging, 2006, vol. 25, no 10, p. 1319-1328
ftp://ftp-sop.inria.fr/asclepios/Publications/Gregoire.Malandain/fouard-tmi-2006.pdf.
[44]
T. Glatard, J. Montagnat, D. Lingrand, X. Pennec.
Flexible and efficient workflow deployment of data-intensive applications on GRIDS with MOTEUR, in: International Journal of High Performance Computing Applications, To appear in the special issue on Workflow Systems in Grid Environments, 2006
http://www.i3s.unice.fr/~glatard/docs/ijhpca.pdf.
[45]
M. Liberatore, C. Denier, P. Fillard, M. Petit-Lacour, F. Benoudiba, P. Lasjaunias, D. Ducreux.
Diffusion Tensor Imaging and Tractography of Central Pontine Myelinolysis, in: Journal of Neuroradiology, June 2006, vol. 33, no 3, p. 189-193.
[46]
M. Linguraru, N. Ayache, E. Bardinet, M. G. Ballester, D. Galanaud, S. Haïk, B. Faucheux, J. Hauw, P. Cozzone, D. Dormont, J. Brandel.
Differentiation of sCJD and vCJD Forms by Automated Analysis of Basal Ganglia Intensity Distribution in Multisequence MRI of the Brain - Definition and Evaluation of New MRI-based Ratios, in: IEEE Transactions on Medical Imaging, 2006, vol. 25, no 8, p. 1052-1067
ftp://ftp-sop.inria.fr/epidaure/Publications/Linguraru/Linguraru:TMI:2006.pdf.
[47]
Marius G. Linguraru, Miguel A. González Ballester, N. Ayache.
Deformable Atlases for the Segmentation of Internal Brain Nuclei in Magnetic Resonance Imaging, in: Acta Universitatis Cibiniensis, Technical Series, in press, 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Gonzalez/Linguraru:Acta:2004.pdf.
[48]
M. Linguraru, K. Marias, R. English, J. Brady.
A Biologically Inspired Algorithm for Microcalcification Cluster Detection, in: Medical Image Analysis, In press, 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Linguraru/Linguraru:MEDIA:2006.pdf.
[49]
V. Moreau-Villéger, H. Delingette, M. Sermesant, H. Ashikaga, O. Faris, E. McVeigh, N. Ayache.
Building Maps of Local Apparent Conductivity of the Epicardium with a 2D Electrophysiological Model of the Heart, in: IEEE Transactions on Biomedical Engineering, August 2006, vol. 53, no 8, p. 1457-1466
ftp://ftp-sop.inria.fr/epidaure/Publications/Moreau/moreauIEEETBME05.pdf.
[50]
X. Pennec, P. Fillard, N. Ayache.
A Riemannian Framework for Tensor Computing, in: International Journal of Computer Vision, A preliminary version appeared as INRIA Research Report 5255, July 2004., January 2006, vol. 66, no 1, p. 41–66
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Pennec.IJCV05.pdf.
[51]
X. Pennec.
Intrinsic Statistics on Riemannian Manifolds: Basic Tools for Geometric Measurements, in: Journal of Mathematical Imaging and Vision, A preliminary appeared as INRIA RR-5093, January 2004., July 2006, vol. 25, no 1, p. 127-154
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Pennec.JMIV06.pdf.
[52]
A. Pitiot, E. Bardinet, P. M. Thompson, G. Malandain.
Piecewise Affine Registration of Biological Images for Volume Reconstruction, in: Medical Image Analysis, June 2006, vol. 10, no 3, p. 465–483
ftp://ftp-sop.inria.fr/epidaure/Publications/Malandain/MedIA-WBIR-pitiot-etal.pdf.
[53]
G. Scarella, O. Clatz, S. Lanteri, G. Beaume, S. Oudot, J.-P. Pons, S. Piperno, P. Joly, J. Wiart.
Realistic numerical modelling of human head tissue exposure to electromagnetic waves from cellular phones, in: Comptes Rendus de l'Académie des Sciences - Physics, June 2006, vol. 7, no 5, p. 501-508.
[54]
M. Sermesant, H. Delingette, N. Ayache.
An Electromechanical Model of the Heart for Image Analysis and Simulation, in: IEEE Transactions in Medical Imaging, 2006, vol. 25, no 5, p. 612–625
ftp://ftp-sop.inria.fr/asclepios/Publications/Maxime.Sermesant/TMI2006Sermesant.pdf.
[55]
M. Sermesant, P. Moireau, O. Camara, J. Sainte-Marie, R. Andriantsimiavona, R. Cimrman, Derek L. Hill, D. Chapelle, R. Razavi.
Cardiac function estimation from MRI using a heart model and data assimilation: Advances and difficulties, in: Medical Image Analysis, 2006, vol. 10, no 4, p. 642–656
ftp://ftp-sop.inria.fr/asclepios/Publications/Maxime.Sermesant/MEDIA2006Sermesant.pdf.
[56]
L. Thiberville, S. Moreno-Swirc, T. Vercauteren, E. Peltier, C. Cavé, G. Bourg Heckly.
In Vivo Imaging of the Bronchial Wall Microstructure Using Fibered Confocal Fluorescence Microscopy, in: Am. J. Respir. Crit. Care Med., Published ahead of print, 2006
http://ajrccm.atsjournals.org/cgi/reprint/200605-684OCv1.
[57]
T. Vercauteren, A. Perchant, G. Malandain, X. Pennec, N. Ayache.
Robust Mosaicing with Correction of Motion Distortions and Tissue Deformation for In Vivo Fibered Microscopy, in: Medical Image Analysis, Annual Medical Image Analysis (MedIA) Best Paper Award 2006, October 2006, vol. 10, no 5, p. 673-692
ftp://ftp-sop.inria.fr/epidaure/Publications/Vercauteren/RobustMosaicingMotionDistoTissueDefInVivoFCM-MedIA06-Vercauteren.pdf.

Publications in Conferences and Workshops

[58]
V. Arsigny, O. Commowick, X. Pennec, N. Ayache.
A Log-Euclidean Framework for Statistics on Diffeomorphisms, in: Proc. of the 9th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI'06), Part I, LNCS, 2-4 October 2006, no 4190, p. 924–931
ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_miccai06.pdf.
[59]
V. Arsigny, O. Commowick, X. Pennec, N. Ayache.
A Log-Euclidean Polyaffine Framework for Locally Rigid or Affine Registration, in: Proceedings of the Third International Workshop on Biomedical Image Registration (WBIR'06), Utrecht, The Netherlands, J. Pluim, B. Likar, F. Gerritsen (editors), LNCS, To appear., Springer Verlag, 9 - 11 July 2006, vol. 4057, p. 120-127
ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_wbir.pdf.
[60]
V. Arsigny, O. Commowick, X. Pennec, N. Ayache.
Statistics on Diffeomorphisms in A Log-Euclidean Framework, in: Proc. of the International Workshop on the Mathematical Foundations of Computational Anatomy (MFCA-2006), X. Pennec, S. Joshi (editors), 1st of October 2006, p. 16-17
ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_mfca.pdf.
[61]
N. Ayache, T. Vercauteren, G. Malandain, F. Oberrietter, N. Savoire, A. Perchant.
Processing and Mosaicing of Fibered Confocal Images, in: MICCAI Workshop on Microscopic Image Analysis with Applications in Biology (MIAAB'06), Invited talk, October 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Ayache/ExAbstractMIIAB06-Ayache-light.pdf.
[62]
A. Azar, C. Xu, X. Pennec, N. Ayache.
An interactive Intensity- and Feature-Based Non-Rigid Registration Framework for 3D Medical Images, in: Proceedings of the Third IEEE International Symposium on Biomedical Imaging (ISBI 2006), Crystal Gateway Marriott, Arlington, Virginia, USA, April 2006, p. 824–827
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Azar.ISBI06.pdf.
[63]
J. Boisvert, F. Cheriet, X. Pennec, N. Ayache, H. Labelle.
A Novel Framework for the 3D Analysis of Spine Deformation Modes, in: Research into Spinal Deformities, Studies in Health Technology and Informatics, 2006, vol. 123, p. 176–182
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Boisvert.IRSSD_spine.pdf.
[64]
J. Boisvert, F. Cheriet, X. Pennec, N. Ayache, H. Labelle.
Assessment of Brace Local Action on Vertebrae Relative Poses, in: Research into Spinal Deformities, Studies in Health Technology and Informatics, 2006, vol. 123, p. 372–378
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Boisvert.IRSSD_brace.pdf.
[65]
J. Boisvert, X. Pennec, N. Ayache, H. Labelle, F. Cheriet.
3D Anatomic Variability Assesment of the Scoliotic Spine Using Statistics on Lie Groups, in: Proceedings of the Third IEEE International Symposium on Biomedical Imaging (ISBI 2006), Crystal Gateway Marriott, Arlington, Virginia, USA, IEEE, April 2006, p. 750–753
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Boisvert.ISBI06.pdf.
[66]
J. Boisvert, X. Pennec, H. Labelle, F. Cheriet, N. Ayache.
Principal Spine Shape Deformation Modes Using Riemannian Geometry and Articulated Models, in: Proc of the IV Conference on Articulated Motion and Deformable Objects, Andratx, Mallorca, Spain, 11-14 July, LNCS, Springer, 2006, vol. 4069, p. 346–355
ftp://ftp-sop.inria.fr/asclepios/Publications/Pennec/Boisvert.AMDO06.pdf.
[67]
N. Chrisochoides, A. Fedorov, A. Kot, N. Archip, P. Black, O. Clatz, A. Golby, R. Kikinis, S. K. Warfield.
Toward Real-Time, Image Guided Neurosurgery Using Distributed and Grid Computing, in: SuperComputing06, Tampa, Florida, USA, November 2006.
[68]
D. Chung, M. Pop, M. Sermesant, G. Wright.
Stereo Reconstruction of the Epicardium for Optical Fluorescence Imaging, in: MICCAI Workshop on Biophotonics Imaging for Diagnostics and Treatment, 2006, p. 33-40.
[69]
O. Commowick, V. Arsigny, J. Costa, N. Ayache, G. Malandain.
An Efficient Locally Affine Framework for the Registration of Anatomical Structures, in: Proceedings of the Third IEEE International Symposium on Biomedical Imaging (ISBI 2006), Crystal Gateway Marriott, Arlington, Virginia, USA, April 2006, p. 478-481
ftp://ftp-sop.inria.fr/epidaure/Publications/Commowick/CommowickIsbi2006.pdf.
[70]
O. Commowick, G. Malandain.
Evaluation of Atlas Construction Strategies in the Context of Radiotherapy Planning, in: Proceedings of the SA2PM Workshop (From Statistical Atlases to Personalized Models), Copenhagen, held in conjunction with MICCAI 2006, October 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Commowick/CommowickMiccai2006.pdf.
[71]
P. Fillard, V. Arsigny, X. Pennec, N. Ayache.
Clinical DT-MRI estimation, smoothing and fiber tracking with log-Euclidean metrics, in: Proceedings of the Third IEEE International Symposium on Biomedical Imaging (ISBI 2006), Crystal Gateway Marriott, Arlington, Virginia, USA, LNCS, April 2006, p. 786-789
ftp://ftp-sop.inria.fr/epidaure/Publications/Fillard/Fillard.ISBI.06.pdf.
[72]
J. Freund, D. Comaniciu, Y. Ioannis, P. Liu, R. McClatchey, E. Moley-Fletcher, X. Pennec, G. Pongiglione, X. Zhou.
Health-e-Child: An Integrated Biomedical Platform for Grid-Based Pediatrics, in: Proc of Health-Grid 2006, Valancia, Spain, 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Health-e-Child_HG06.pdf.
[73]
T. Glatard, D. Emsellem, J. Montagnat.
Generic web service wrapper for efficient embedding of legacy codes in service-based workflows, in: Grid-Enabling Legacy Applications and Supporting End Users Workshop (GELA'06), Paris, France, June 2006
http://www.i3s.unice.fr/~johan/publis/GELA06.pdf.
[74]
T. Glatard, J. Montagnat, X. Pennec.
An experimental comparison of Grid5000 clusters and the EGEE grid, in: Proc of the Workshop on Experimental Grid testbeds for the assessment of large-scale distributed applications and tools (EXPGRID'06), Paris, France, 19-23 june, 2006
http://www.i3s.unice.fr/~johan/publis/EXPGRID06.pdf.
[75]
T. Glatard, J. Montagnat, X. Pennec.
Efficient services composition for grid-enabled data-intensive applications, in: Proceedings of the IEEE International Symposium on High Performance Distributed Computing (HPDC'06), Paris, France, June 19, 2006
http://www.i3s.unice.fr/~johan/publis/HPDC06.pdf.
[76]
T. Glatard, J. Montagnat, X. Pennec.
Medical image registration algorithms assessment: Bronze Standard application enactment on grids using the MOTEUR workflow engine, in: Proc. of the HealthGrid conference (HealthGrid'06), Valencia, Spain, June 7-9, 2006
http://www.i3s.unice.fr/~johan/publis/HealthGrid06b.pdf.
[77]
T. Glatard, J. Montagnat, X. Pennec.
Probabilistic and dynamic optimization of job partitioning on a grid infrastructure, in: 14th euromicro conference on Parallel, Distributed and network-based Processing (PDP06), Montbéliard-Sochaux, IEEE, February 2006, p. 231-238
http://www.i3s.unice.fr/~johan/publis/PDP06.pdf.
[78]
T. Glatard, X. Pennec, J. Montagnat.
Performance evaluation of grid-enabled registration algorithms using bronze-standards, in: Proc. of the 9th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI'06), Part II, LNCS, Springer, 2-4 October 2006, no 4191, p. 152–160
ftp://ftp-sop.inria.fr/epidaure/Publications/Pennec/Glatard.MICCAI06.pdf.
[79]
A. Isambert, G. Bonniaud, R. Lery, R. Comtat, J.-C. Diaz, G. Malandain, D. Lefkopoulos.
Evaluation sur fantôme d'un logiciel de recalage d'images multimodal automatique pour la radiothérapie, in: 17ème Congrès de la Société Française de Radiothérapie Oncologique (SFRO), Paris, November 2006.
[80]
A. Isambert, F. Dhermain, F. Bidault, G. Bonniaud, R. Lery, G. Malandain, O. Commowick, J.-C. Diaz, J. Bourhis, D. Lefkopoulos.
Evaluation of Multimodality Image Registration Software and Atlas-based Automatic Segmentation for Delineation of Organs at Risk (OAR) in the Brain in Conformal Radiotherapy (CRT), in: 48th Annual Meeting of the American Society for Therapeutic Radiology and Oncology (ASTRO), Philadelphia, Pennsylvania, November 2006.
[81]
A. Isambert, F. Dhermain, G. Bonniaud, F. Bidault, A. Beaudre, G. Malandain, O. Commowick, J.-C. Diaz, M. Ricard, J. Bourhis, D. Lefkopoulos.
Evaluation d'un logiciel de recalage d'images multimodal et d'un outil de segmentation automatique des organes à risque (OAR) intra-crâniens en situation clinique d'une radiothérapie conformationnelle 3D (RTC3D), in: Congrès annuel de la Société Française des Physiciens Médicaux (SFPM), June 2006.
[82]
E. Konukoglu, O. Clatz, P.-Y. Bondiau, H. Delingette, N. Ayache.
Extrapolating Tumor Invasion Margins for Physiologically Determined Radiotherapy Regions, in: Proc. of the 9th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI'06), Part I, LNCS, 2-4 October 2006, no 4190, p. 338–346
ftp://ftp-sop.inria.fr/asclepios/Publications/Ender.Konukoglu/41900338.pdf.
[83]
M. Linguraru, R. Howe.
Texture-based Segmentation of Instruments in 3D Ultrasound, in: SPIE Medical Imaging '06, E. Siegel, E. Krupinski, M. Sonka (editors), SPIE Publishing, 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Linguraru/Linguraru:SPIE:2006.pdf.
[84]
M. Linguraru, N. Vasilyev, P. del Nido, R. Howe.
Atrial Septal Defect Tracking in 3D Cardiac Ultrasound, in: Medical Image Computing and Computer-Assisted Intervention - MICCAI'06, R. Larsen, M. Nielsen, M. Sporring (editors), LNCS, Springer, 2006, vol. 4190, p. 596-603
ftp://ftp-sop.inria.fr/epidaure/Publications/Linguraru/Linguraru:MICCAI:2006.pdf.
[85]
J. Montagnat, T. Glatard, D. Lingrand.
Data composition patterns in service-based workflows, in: Workshop on Workflows in Support of Large-Scale Science (WORKS'06), Paris, France, June 2006
http://www.i3s.unice.fr/~johan/publis/WORKS06.pdf.
[86]
X. Pennec.
Left-Invariant Riemannian Elasticity: a distance on Shape Diffeomorphisms?, in: Proc. of the International Workshop on the Mathematical Foundations of Computational Anatomy (MFCA-2006), X. Pennec, S. Joshi (editors), 2006, p. 1–13
ftp://ftp-sop.inria.fr/asclepios/Publications/Xavier.Pennec/Pennec.MFCA06.pdf.
[87]
J.-M. Peyrat, M. Sermesant, H. Delingette, X. Pennec, C. Xu, E. McVeigh, N. Ayache.
Towards a Statistical Atlas of Cardiac Fiber Structure, in: Proc. of the 9th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI'06), Part I, LNCS, 2-4 October 2006, no 4190, p. 297–304
ftp://ftp-sop.inria.fr/epidaure/Publications/Peyrat/Peyrat_MICCAI_2006.pdf.
[88]
M. Pop, M. Sermesant, Y. Coudière, J. Graham, M. Bronskill, A. Dick, G. Wright.
A theoretical model of ventricular reentry and its radiofrequency ablation therapy, in: 3rd IEEE International Symposium on Biomedical Imaging: Macro to Nano (ISBI'06), 2006, p. 33-36.
[89]
M. Pop, M. Sermesant, A. Dick, J. Graham, Y. Coudière, G. Wright.
Aid of Computer Modelling to Identify Ventricular Reentries due to Infarct Scars, in: 15th World Congress in Cardiac Electrophysiology and Cardiac Techniques (Cardiostim'06), 2006.
[90]
M. Pop, M. Sermesant, A. Dick, J. Graham, Y. Coudière, G. Wright.
Assessment of Radio-frequency Ablation of Ventricular Arrhythmias Via Magnetic Resonance Imaging and Computer Modelling, in: 15th World Congress in Cardiac Electrophysiology and Cardiac Techniques (Cardiostim'06), 2006.

Internal Reports

[91]
V. Arsigny, O. Commowick, X. Pennec, N. Ayache.
A Fast and Log-Euclidean Polyaffine Framework for Locally Affine Registration, Research Report RR-5865, INRIA Sophia-Antipolis, March 2006
http://hal.inria.fr/inria-00070161.
[92]
V. Arsigny, X. Pennec, N. Ayache.
Bi-invariant Means in Lie Groups. Application to Left-invariant Polyaffine Transformations, Research Report RR-5885, INRIA Sophia-Antipolis, April 2006
ftp://ftp-sop.inria.fr/epidaure/Publications/Arsigny/arsigny_rr_biinvariant_mean.pdf.
[93]
P. Fillard, V. Arsigny, X. Pennec, Kiralee M. Hayashi, Paul M. Thompson, N. Ayache.
Measuring Brain Variability by Extrapolating Sparse Tensor Fields Measured on Sulcal Lines, Research Report, INRIA, April 2006, no 5887
http://hal.inria.fr/inria-00071381.
[94]
T. Glatard, J. Montagnat, X. Pennec, D. Emsellem, D. Lingrand.
MOTEUR: a data-intensive service-based workflow manager, Technical report, I3S RAINBOW team, Univ. Nice-Sophia-Antipolis, March 2006, no I3S/RR-2006-07-FR
http://www.i3s.unice.fr/~mh/RR/2006/RR-06.07-T.GLATARD.pdf.
[95]
T. Glatard, J. Montagnat, X. Pennec.
Optimizing jobs timeouts on clusters and production grids, Technical report, I3S, 2006, no I3S/RR-2006-35-FR
http://www.i3s.unice.fr/~mh/RR/2006/RR-06.35-T.GLATARD.pdf.
[96]
J.-M. Peyrat, M. Sermesant, H. Delingette, X. Pennec, C. Xu, E. McVeigh, N. Ayache.
Towards a Statistical Atlas of Cardiac Fiber Architecture, Research Report, INRIA, May 2006, no 5906
http://hal.inria.fr/inria-00071359.

Miscellaneous

[97]
N. Ayache, J.-P. Boissel, S. Brunak, G. Clapworthy, G. Lonsdale, J. Fingberg, A. Frangi, G. Deco, P. Hunter, P. Nielsen, M. Halstead, R. Hose, I. Magnin, F. Martin-Sanchez, P. Sloot, J. Kaandorp, A. Hoekstra, S. V. S. Jan, M. Viceconti.
EC - DG INFSO, DG JRC (editors), Towards Virtual Physiological Human: Multilevel Modelling and Simulation of the Human Anatomy and Physiology, 2006
http://europa.eu.int/information_society/activities/health/docs/events/barcelona2005/ec-vph-white-paper2005nov.pdf, Virtual Physiological Human: White paper.
[98]
E. Konukoglu, O. Clatz, P.-Y. Bondiau, H. Delingette, N. Ayache.
Extrapolating tumor invasion margins for physiologically determined radiotherapy regions, 2006, Presented in DIMACS Workshop: Computational Tumor Modeling.
[99]
R. Vauchelles.
Mise en place d'un programme d'analyse d'images en wound healing et mise en évidence du rôle de l'activiation de Arf 1 par le GEF ARNO dans la migration cellulaire, Technical report, Master Imagerie pour la Biologie, Université de Rouen, 2006.

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H. Hufnagel, X. Pennec, J. Ehrhardt, H. Handels, N. Ayache.
Point-Based Statistical Shape Models with Probabilistic Correspondences and Affine EM-ICP, in: Bildverarbeitung fuer die Medizin 2007, To appear, 2007.
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P. Hunter, T. Borg.
Integration from proteins to organs: the Physiome project, in: Nature Reviews - Molecular Cell Biology, 2003, vol. 4, p. 237–243.
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Computational Physiology and the Physiome Project, 2004
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N. Lepore, C. A. Brun, M.-C. Chiang, Y.-Y. Chou, O. L. Lopez, H. J. Aizenstein, A. W. Toga, J. T. Becker, P. M. Thompson.
Multivariate Statistics of the Jacobian Matrices in Tensor Based Morphometry and their application to HIV/AIDS, in: Medical Image Computing and Computer-Assisted Intervention - MICCAI'06, R. Larsen, M. Nielsen, M. Sporring (editors), LNCS, Springer, 2006, vol. 4190.
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C. 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.
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D. Metaxas, J. Kayes, F. Primanio.
A 3-D virtual environment for modeling mechanical cardiopulmonary interactions, in: Medical Image Analysis, 1997, vol. 3, no 1, p. 1–26.
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M. I. Miller.
Computational anatomy: shape, growth, and atrophy comparison via diffeomorphisms, in: NeuroImage, Special Issue : Mathematics in Brain Imaging, 2004, vol. 23, no Supplement 1, p. S19–S33.
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V. 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, Research Report, INRIA, July 2004, no 5269
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S. 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, no 1, p. 1–10
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S. 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
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Image Formation and Analysis in Microscopy, 2004.
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Mathematical Modeling and Numerical Simulation of the Cardiovascular System, in: Computational Models for the Human Body, N. Ayache (editor), Elsevier, 2004, p. 3–128.
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M. 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, INRIA Sophia Antipolis, 2003, vol. 2673, p. 230–243
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J.-C. Souplet, C. Lebrun, P. Clavelou, W. Camu, J. Pelletier, S. Chanalet, N. Ayache, G. Malandain.
A comparative study of skull stripping methods in relapsing-remitting multiple sclerosis: Emergence of a new automatic segmentation algorithm, in: Proceedings of the American Academy of Neurology 59th Annual Meeting, 2007.
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R. Stefanescu, X. Pennec, N. Ayache.
Grid Powered Nonlinear Image Registration with Locally Adaptive Regularization, in: Medical Image Analysis, MICCAI 2003 Special Issue, September 2004, vol. 8, no 3, p. 325–342
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