Research

My research interests are focused on medical image analysis, a general list of topics include (in no specific order):

Supervision of PhD Theses:

 

Nina Kozic (2009) "Statistical shape space analysis based on level sets for optimization of orthopaedic implant design"

Hyungmin Kim (2011) "Computer-Assistance in Cranio-Maxillofacial Surgery: A Clinically-Driven Approach"

Thiago Oliveira dos Santos (2011) "A Soft Tissue Image Guidance System for Percutaneous Needle Interventions Based on Multimodal Images"

Serena Bonaretti (2012) "Statistical Finite Element Modeling: Application to Orthopaedic Implant Design"

Christof Seiler (2012) "Trees on Geometrical Deformations to Model the Statistical Variability of Organs in Medical Images"

Huanxiang Lu (2012) "Multi-modal Deformable Registration for Magnetic Resonance Image"

Habib Bou-Sleiman (2012) "A Computational Anatomy Approach to Orthopaedic Research"

Stefan Bauer (2013) "Medical Image Analysis and Image-based Modeling for Brain Tumor Studies"

Elham Taghizadeh (2016) "Statistical Shape Model of the Leg to Improve the Treatment of Patella Pathology in Total Knee Arthroplasty"

Waldo Valenzuela (2016) "Effective Human Machine Interfaces for Medical Image Analysis"

Carlos Correa Schokiche (2016) “MicroCT based kidney morphometry: A machine learning approach”

Vimal Chandran (2017) “Comprehensive and Effective Machine Learning based Computational Modelling of the Human Proximal Femur”

Raphael Meier (2017) “Towards Automatic Segmentation of Longitudinal Brain Tumor Imaging Data”

 

Publications

For a Google Scholar version, please click here

Journal Articles

Meier R., Porz N., Knecht U., Loosli T., Schucht P., Beck J., Slotboom J., Wiest R., and Reyes M.Automatic estimation of extent of resection and residual tumor volume of patients with glioblastomaJournal of Neurosurgery, 1--9, 2017.
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Porz N., Habegger S., Meier R., Verma R.K., Jilch A., Fichtner J., Knecht U., Radina C., Schucht P., Jürgen B., Raabe A., Slotboom J., Reyes M., and Wiest R.Fully Automated Enhanced Tumor Compartmentalization: Man vs. Machine ReloadedPLoS ONE, 11, 1-16, 2016.
http://dx.doi.org/10.1371%2Fjournal.pone.0165302 Bibtex-Entry
Meier R., Knecht U., Loosli T., Bauer S., Slotboom J., Wiest R., and Reyes M.Clinical Evaluation of a Fully-automatic Segmentation Method for Longitudinal Brain Tumor VolumetryNature Scientific Reports, 6, 2016.
http://dx.doi.org/10.1038/srep23376 Bibtex-Entry
Oskar Maier, Bjoern H Menze, Janina von der Gablentz, Levin H\"ani, Mattias P Heinrich, Matthias Liebrand, Stefan Winzeck, Abdul Basit, Paul Bentley, Liang Chen, Daan Christiaens, Francis Dutil, Karl Egger, Chaolu Feng, Ben Glocker, Michael G\"otz, Tom Haeck, Hanna-Leena Halme, Mohammad Havaei, Khan M Iftekharuddin, Pierre-Marc Jodoin, Konstantinos Kamnitsas, Elias Kellner, Antti Korvenoja, Hugo Larochelle, Christian Ledig, Jia-Hong Lee, Frederik Maes, Qaiser Mahmood, Klaus H Maier-Hein, Richard McKinley, John Muschelli, Chris Pal, Linmin Pei, Janaki Raman Rangarajan, Syed M S Reza, David Robben, Daniel Rueckert, Eero Salli, Paul Suetens, Ching-Wei Wang, Matthias Wilms, Jan S Kirschke, Ulrike M Kr\"amer, Thomas F M\"unte, Peter Schramm, Roland Wiest, Heinz Handels, and Mauricio ReyesISLES 2015 - A public evaluation benchmark for ischemic stroke lesion segmentation from multispectral MRIMedical Image Analysis, 35, 250--269, 2016.
http://dx.doi.org/10.1016/j.media.2016.07.009 Bibtex-Entry
McKinley R., Haeni L., Gralla J., El-Koussy M., Bauer S., Arnold M., Fischer U., Jung S., Mattmann K., Reyes M., and Wiest R.Fully automated stroke tissue estimation using random forest classifiers (FASTER)Journal of Cerebral Blood Flow & Metabolism, 2016.
http://jcb.sagepub.com/content/early/2016/10/18/0271678X16674221.abstract Bibtex-Entry
Valenzuela W., Ferguson S., Ignasiak D., Diserens G., Haeni L., Wiest R., Vermathen P., Boesch C., and Reyes M.FISICO: Fast Image SegmentatIon COrrectionPLoS ONE, 11, 1-17, 2016.
http://dx.doi.org/10.1371%2Fjournal.pone.0156035 Bibtex-Entry
Seif M., Mani L., Lu H., Boesch C., Reyes M., Vogt B., and Vermathen P.Diffusion tensor imaging of the human kidney: Does image registration permit scanning without respiratory triggering?J Magn Reson Imaging, 2016.
http://dx.doi.org/10.1002/jmri.25176 Bibtex-Entry
Taghizadeh E., Reyes M., Zysset P., Latypova A., Terrier A., and Buchler P.Biomechanical Role of Bone Anisotropy Estimated on Clinical CT Scans by Image Registration.Ann Biomed Eng, 2016.
http://dx.doi.org/10.1007/s10439-016-1551-4 Bibtex-Entry
Rios-Velazquez E., Meier R., Dunn W., Alexander B., Wiest R., Bauer S., Gutmann D., Reyes M., and Aerts H.Fully automatic GBM segmentation in the TCGA-GBM dataset: Prognosis and correlation with VASARI featuresNature Scientific Reports, 5, 2015.
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Menze B., Reyes M., and Van Leemput K.The Multimodal Brain Tumor Image Segmentation Benchmark (BRATS).IEEE Trans Med Imaging, 34, 2015.
http://dx.doi.org/10.1109/TMI.2014.2377694 Bibtex-Entry
Cerrolaza J.J., Reyes M., Summers R.M., González-Ballester M.A., and Linguraru M.G.Automatic multi-resolution shape modeling of multi-organ structuresMedical Image Analysis, 25, 11-21, 2015.
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V. Chappuis, O. Engel, K. Shahim, M. Reyes, C. Katsaros, and D. BuserSoft Tissue Alterations in Esthetic Postextraction Sites: A 3-Dimensional AnalysisJournal of Dental Research, 94, 187S-193S, 2015.
http://dx.doi.org/10.1177/0022034515592869 Bibtex-Entry
Seif M., Lu H., Boesch C., Reyes M., and Vermathen P.Image registration for triggered and non-triggered DTI of the human kidney: Reduced variability of diffusion parameter estimation.J Magn Reson Imaging, 41, 1228-1235, 2014.
http://dx.doi.org/10.1002/jmri.24671 Bibtex-Entry
Porz N., Bauer S., Pica A., Schucht P., Beck J., Verma R.K., Slotboom J., Reyes M., and Wiest R.Multi-Modal Glioblastoma Segmentation: Man versus MachinePLoS ONE, 9, e96873, 2014.
http://dx.doi.org/10.1371%2Fjournal.pone.0096873 Bibtex-Entry
Bonaretti S., Seiler C., Boichon C., Reyes M., and Buechler P.Image-based vs. mesh-based statistical appearance models of the human femur: Implications for finite element simulationsMedical Engineering \& Physics, 36, 1626 - 1635, 2014.
http://dx.doi.org/10.1016/j.medengphy.2014.09.006 Bibtex-Entry
Bou-Sleiman H., Paul L., Nolte L.P., and Reyes M.Comparative Evaluation of Pelvic Allograft Selection Methods.Annals of Biomedical Engineering, 41, 931-938, 2013.
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Oliveira-Santos T., Baumberger C., Constantinescu M., Olariu R., Nolte L.P., Alaraibi S., and Reyes M.3D Face Reconstruction from 2D Pictures: First Results of a Web-Based Computer Aided System for Aesthetic Procedures.Annals of Biomedical Engineering, 41, 952--966, 2013.
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Lu H., Beisteiner R., Nolte L.P., and Reyes M.Hierarchical segmentation-assisted multimodal registration for MR brain imagesComputerized Medical Imaging and Graphics, 37, 234--244, 2013.
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Bauer S., Lu H., May C., Nolte L.P., Buechler P., and Reyes M.Integrated Segmentation of Brain Tumor Images for Radiotherapy and NeurosurgeryInternational Journal of Imaging Systems and Technology, 23, 59--63, 2013.
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Bou Sleiman H., Iizuka T., Nolte L.P., and Reyes M.Population-Based Design of Mandibular Fixation Plates with Bone Quality and Morphology ConsiderationsAnnals of Biomedical Engineering, 41, 377--384, 2013.
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Bauer S., Wiest R., Nolte L.P., and Reyes M.A survey of MRI-based medical image analysis for brain tumor studiesPhysics in Medicine and Biology, 58, R97, 2013.
http://stacks.iop.org/0031-9155/58/i=13/a=R97 Bibtex-Entry
Chappuis V., Engel O., Reyes. M., Shahim K., Nolte L.P., and Buser D.Ridge Alterations Post-extraction in the Esthetic Zone A 3D Analysis with CBCTJournal of Dental Research, 92, 195S--201S, 2013.
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Kim B.R., Oh K.M., Cevidanes L.H.S., Park J.E., Sim H.S., Seo S.K., Reyes M., Kim Y.J., and Park Y.H.Analysis of 3D Soft Tissue Changes After 1-and 2-Jaw Orthognathic Surgery in Mandibular Prognathism PatientsJournal of Oral and Maxillofacial Surgery, 71, 151--161, 2013.
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Seiler C., Pennec X., Nolte L.P., and Reyes M.Capturing the Multiscale Anatomical Shape Variability with Polyaffine Transformation TreesMedical Image Analysis, 16, 1371-1384, 2012.
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Bauer S., Ritacco L.E., Boesch C., Nolte L.P., and Reyes M.Automatic Scan Planning for Magnetic Resonance Imaging of the Knee JointAnnals of Biomedical Engineering, 40, 2033-2042, 2012.
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Blanc R., Seiler C., Székely G., Nolte L.P., and Reyes M.Statistical Model Based Shape Prediction from a Combination of Direct Observations and Various Surrogates. Application to Orthopaedic ResearchMedical Image Analysis, 16, 1156-1166, 2012.
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Seiler C., Gazdhar A., Reyes M., Benneker L.M., Geiser T., Siebenrock K.A., and Gantenbein-Ritter B.Time-Lapse Microscopy and Classification of 2D Human Mesenchymal Stem Cells Based on Cell Shape Picks Up Myogenic from Osteogenic and Adipogenic DifferentiationJournal of Tissue Engineering and Regenerative Medicine, In Press, 2012.
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Ritacco L.E., Seiler C., Farfalli G.L., Nolte L., Reyes M., Muscolo D.L., and Tinao L.A.Validity of an automatic measure protocol in distal femur for allograft selection from a three-dimensional virtual bone bank system.Cell Tissue Bank, 1, 1--8, 2012.
http://dx.doi.org/10.1007/s10561-012-9307-3 Bibtex-Entry
de Heras Ciechomski P., Constantinescu M., Garcia J., Olariu R., Dindoyal I., Le Huu S., and Reyes M.Development and Implementation of a Web-Enabled 3D Consultation Tool for Breast Augmentation Surgery Based on 3D-Image Reconstruction of 2D PicturesJournal of Medical Internet Research, 14, e21, 2012.
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Lu H., Nolte L.P., and Reyes M.Interest points localization for brain image using landmark-annotated atlasInternational Journal of Imaging Systems and Technology, 22, 145--152, 2012.
http://dx.doi.org/10.1002/ima.22015 Bibtex-Entry
Schulz A.P, Reimers N. Nils, Wipf F., Vallotton M., Bonaretti S., Kozic N., Reyes M., and Kienast B.J.Evidence Based Development of a Novel Lateral Fibula Plate (VariAx Fibula) Using a Real CT Bone Data Based Optimization Process During Device Development.Open Orthop J, 6, 1--7, 2012.
http://dx.doi.org/10.2174/1874325001206010001 Bibtex-Entry
Kim Y.J., Oh K.M., Hong J.S., Lee J.H., Kim H.M., Reyes M., Cevidanes L.H.S., and Park Y.H.Do Patients Treated With Bimaxillary Surgery Have More Stable Condylar Positions Than Those Who Have Undergone Single-Jaw Surgery?Journal of Oral and Maxillofacial Surgery, 70, 2143--52, 2011.
http://dx.doi.org/10.1016/j.joms.2011.08.028 Bibtex-Entry
Bauer S., May C., Dionysiou D., Stamatakos G., Buechler P., and Reyes M.Multi-Scale Modeling for Image Analysis of Brain Tumor Studies.IEEE Trans Biomed Eng, 59, 25--29, 2011.
http://dx.doi.org/10.1109/TBME.2011.2163406 Bibtex-Entry
Jürgens P., Klug C., Krol Z., Beinemann J., Kim H., Reyes M., Guevara-Rojas G., Zeilhofer H. F, Ewers R., and Schicho K.Navigation-Guided Harvesting of Autologous Iliac Crest Graft for Mandibular ReconstructionJ Oral Maxillofac Surg, 69, 2915--2923, 2011.
http://dx.doi.org/10.1016/j.joms.2010.12.045 Bibtex-Entry
Bou Sleiman H., Ritacco L.E., Aponte-Tinao L., Muscolo D.L., Nolte L.P., and Reyes M.Allograft Selection for Transepiphyseal Tumor Resection Around the Knee Using Three-Dimensional Surface RegistrationAnnals of Biomedical Engineering, 39, 1720--7, 2011.
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Marias K., Dionysiou D., Sakkalis V., Graf N., Bohle RM, Coveney PV, Wan S., Folarin A., Büchler P., Reyes M., and othersClinically driven design of multi-scale cancer models: the ContraCancrum project paradigmInterface Focus, 1, 450--461, 2011.
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Kim H., Jürgens P., Weber S., Nolte L.P., and Reyes MA New Soft-Tissue Simulation Strategy for Cranio-Maxillofacial Surgery Using Facial Muscle Template ModelProgress in Biophysics and Molecular Biology. Special Issue on Soft Tissue Modelling, 103, 284--291, 2010.
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Tucker S., Cevidanes L., Styner M., Kim H., Reyes M., Proffit W., and Turvey T.Comparison of actual surgical outcomes and 3-dimensional surgical simulations.J Oral Maxillofac Surg, 68, 2412--2421, 2010.
http://dx.doi.org/10.1016/j.joms.2009.09.058 Bibtex-Entry
Kozic N., Weber S., Büchler P., Lutz C., Reimers N., González Ballester MA., and Reyes M.Optimisation of orthopaedic implant design using statistical shape space analysis based on level setsMedical Image Analysis, 14, 265--275, 2010.
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Cevidanes L., Tucker S., Styner M., Kim H., Chapuis J., Reyes M., Proffit W., Turvey T., and Jaskolka M.Three-dimensional surgical simulationAmerican Journal of Orthodontics and Dentofacial Orthopedics, 138, 361 - 371, 2010.
http://dx.doi.org/10.1016/j.ajodo.2009.08.026 Bibtex-Entry
Kozic N., Weber S., González-Ballester M.A., Abdo G., Rufenacht D.A., Ferguson S., and Reyes M.Automated cement segmentation in vertebroplasty.Comput Aided Surg, 15, 49--55, 2010.
http://dx.doi.org/10.3109/10929088.2010.496176 Bibtex-Entry
Reyes M., Malandain G., Koulibaly P.M., González-Ballester M.A., and Darcourt J.Model-based respiratory motion compensation for emission tomography image reconstructionPhysics in Medicine and Biology, 52, 3579-3600, 2007.
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Linguraru M.G., Vercauteren T., Reyes M., González-Ballester M.A., and Ayache N.Segmentation propagation from deformable atlases for brain mapping and analysisBrain Research Journal, 1, 269-287, 2007.
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Reyes M., González-Ballester M.A., and Linguraru M.G.Statistical Bone Shape Analysis for Image Free SurgeryActa Universitatis Cibiniensis, Technical Series, Vol, LV, 121-129, 2007.
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Malandain G. and Reyes M.La tomographie en mouvementPour la science, 338, 132-137, 2005.
http://www.pourlascience.fr/ewb_pages/f/fiche-article-la-tomographie-en-mouvement-20411.php Bibtex-Entry
Reyes M. and Pereda J.Reconstrucción Virtual de la Mano de un Embrión Humano, Evaluación ExperimentalTeoría y Metodologías. Clínica y Ciencia magazine, 1, 2001.
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Peer-reviewed Conference Articles

 

Shokiche C., Baumann P., Ruslan H., Djonov V., and Reyes M.High-Throughput Glomeruli Analysis of micro-CT Kidney Images Using Tree Priors and Scalable Sparse ComputationMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2016: 19th International Conference, Athens, Greece, October 17-21, 2016, Proceedings, Part II, 370--378, 2016.
http://dx.doi.org/10.1007/978-3-319-46723-8_43 Bibtex-Entry
Chandran V., Zysset P., and Reyes M.Prediction of Trabecular Bone Anisotropy from Quantitative Computed Tomography using Supervised Learning and a Novel Morphometric Feature DescriptorMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2015, Lecture Notes in Computer Science, In Press, 2015.
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Cerrolaza J.J., Villanueva A., M.A. Reyes M. Cabeza R. Gonzalez Ballester, and Linguraru M.G.Generalized Multiresolution Hierarchical Shape Models via Automatic Landmark ClusterizationMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2014, Lecture Notes in Computer Science, 17, 1-8, 2014.
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Guerig T., Shahim K., Reyes M., Vetter T., and Lüthi M.Spatially Varying Registration using Gaussian Processes.Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2014, Lecture Notes in Computer Science, 17, 413-20, 2014.
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Meier R., Bauer S., Slotboom J., Wiest R., and Reyes M.Patient-Specific Semi-Supervised Learning for Postoperative Brain Tumor SegmentationMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2014, Lecture Notes in Computer Science, 17, 714-21, 2014.
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Bauer S., Gratz P., Gralla J., Reyes M., and Wiest R.Towards Automatic MRI Volumetry for Treatment Selection in Acute Ischemic Stroke PatientsProceedings of the 36th Annual International Conference of the IEEE EMBS Chicago, USA, Aug. 26-30, 1521 - 1524, 2014.
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Bauer S., Porz N., Meier R., Pica A., Slotboom J., Wiest R., and Reyes M.Interactive Segmentation of MR Images from Brain Tumor PatientsISBI 2014: Proceedings of the 2014 IEEE international conference on Biomedical imaging, 862 -- 865, 2014.
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Shahim K., Cattin P., Jürgens P., Nolte L.P., and Reyes MPrediction of Cranio-Maxilofacial Surgical Planning using an Inverse Soft Tissue Modelling ApproachMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2013, Lecture Notes in Computer Science, 8149, 18--25, 2013.
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Bauer S., Tessier J., Krieter O., Nolte L.P., and Reyes M.Integrated Spatio-Temporal Segmentation of Longitudinal Brain Tumor Imaging StudiesMedical Computer Vision. Large Data in Medical Imaging, Lecture Notes in Computer Science, 74-83, 2013.
http://dx.doi.org/10.1007/978-3-319-05530-5_8 Bibtex-Entry
Shahim K., Goksel O., Jürgens P., and Reyes M.Accuracy Improvement In Cranio-Maxillofacial Soft Tissue Simulation Using A Muscle Embedded Meshing ApproachProceedings of the 35th Annual International Conference of the IEEE EMBS Osaka, Japan, July 3-7, 7156-9, 2013.
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Bou Sleiman H., Iizuka T., Nolte L.P., and Reyes M.Population-Based Design of Mandibular Plates Based on Bone Quality and MorphologyMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2012, Lecture Notes in Computer Science, 66--73, 2012.
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Seiler C., Pennec X., and Reyes M.Simultaneous Multiscale Polyaffine Registration by Incorporating Deformation StatisticsMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2012, Lecture Notes in Computer Science, 130--137, 2012.
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Bauer S., Nolte L.P., and Reyes M.Fully Automatic Segmentation of Brain Tumor Images using Support Vector Machine Classiffication in Combination with Hierarchical Conditional Random Field Regularization.Medical Image Computing and Computer-Assisted Intervention -- MICCAI 2011, 354--361, 2011.
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Bou Sleiman H., Ritacco L.E., Nolte L.P., and Reyes M.Minimization of Intra-Operative Shaping of Orthopaedic Fixation Plates: A Population-Based DesignMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2011, 409--416, 2011.
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Seiler C., Pennec X., and Reyes M.Geometry-Aware Multiscale Image Registration Via OBBTree-Based Polyaffine Log-DemonsMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2011, 631--638, 2011.
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Bauer S., Nolte L.P., and Reyes M.Segmentation of brain tumor images based on atlas-registration combined with a Markov-Random-Field lesion growth modelISBI 2011: Proceedings of the 2011 IEEE international conference on Biomedical imaging, 2018-2021, 2011.
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Lu H., Cattin P., Nolte L.P., and Reyes M.Diffusion weighted imaging distortion correction using hybrid multimodal image registrationISBI 2011: Proceedings of the 2011 IEEE international conference on Biomedical imaging, 594-597, 2011.
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Seiler C., Pennec X., Ritacco L.E., and Reyes M.Femur Specific Polyaffine Model to Regularize the Log-Domain Demons Registration10th SPIE Medical Imaging 2011, 7962, 2011.
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Kim H., Jürgens P., Nolte L.P., and Reyes MAnatomically-Driven Soft-Tissue Simulation Strategy for Cranio-Maxillofacial Surgery Using Facial Muscle Template ModelMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2010, Lecture Notes in Computer Science, 6361, 61-68, 2010.
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Lu H., Reyes M., Serifovic A., Weber S., Sakurai Y., Yamagata H., and Cattin P.Multi-modal diffeomorphic demons registration based on point-wise mutual informationISBI 2010: Proceedings of the 2010 IEEE international conference on Biomedical imaging, 372--375, 2010.
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Seiler C., Pennec X., and Reyes M.Parametric regression of 3D medical images through the exploration of non-parametric regression modelsISBI 2010: Proceedings of the 2010 IEEE international conference on Biomedical imaging, 452--455, 2010.
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Bauer S., Seiler C., Bardyn T., Büchler P., and Reyes M.Atlas-Based Segmentation of Brain Tumor Images Using a Markov Random Field-Based Tumor Growth Model and Non-Rigid RegistrationProceedings of the 32nd Annual International Conference of the IEEE EMBS Buenos Aires, Argentina, August 31 - September 4, 4080--4083, 2010.
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Lu H., Cattin P. C., and Reyes M.A Hybrid Multimodal Non-Rigid Registration of MR Images Based on Diffeomorphic DemonsProceedings of the 32nd Annual International Conference of the IEEE EMBS Buenos Aires, Argentina, August 31 - September 4, 5951--5954, 2010.
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Oliveira-Santos T., Peterhans M., Roth B., Reyes M., Nolte L.P., Thalmann G.N., and Weber S.Computer Aided Surgery for Percutaneous Nephrolithotomy: Clinical Requirement Analysis and System DesignProceedings of the 32nd Annual International Conference of the IEEE EMBS Buenos Aires, Argentina, August 31 - September 4, 1, 442--445, 2010.
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Oliveira-Santos T., Weitzel T., Klaeser B., Krause T., Nolte L.P., Weber S., and Reyes M.Multimodal Target Correction by Local Bone Registration: A PET/CT EvaluationProceedings of the 32nd Annual International Conference of the IEEE EMBS Buenos Aires, Argentina, August 31 - September 4, 5616--5619, 2010.
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Reyes M., González Ballester M.A., Kozic N., Sandberg J.K., Summers R.M., and Linguraru M.G.Hierarchical Patch Generation for Multi-level Statistical Shape Analysis by Principal Factor Analysis Decomposition9th SPIE Medical Imaging 2010, Biomedical Applications in Molecular, Structural, and Functional Imaging, 7626, 762617-762617-8, 2010.
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Blanc R., Reyes M., Seiler C., and Székely G.Conditional variability of statistical shape models based on surrogate variablesMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2009, 5762, 84--91, 2009.
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Kozic N., Buechler P., González-Ballester M.A., Reimers N., Nolte L.P., and Reyes M.Population-Specific Evaluation of Implant Bone Fitting Using PCA Shape Space and Level Sets.ISBI 2009: Proceedings of the Sixth IEEE international conference on Symposium on Biomedical Imaging, 883-886, 2009.
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Reyes M., González-Ballester M.A., Li Z., Kozic N., Chin S., Summers R.M., and Linguraru M.G.Anatomical Variability of Organs Via Principal Factor Analysis from the Construction of an Abdominal Probabilistic Atlas.ISBI 2009: Proceedings of the Sixth IEEE international conference on Symposium on Biomedical Imaging, 682--685, 2009.
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Kozic N. Reyes M., Tannast M., Nolte L.P., and González-Ballester M.A.Statistical Shape Space Analysis Based on Level Sets4th International Workshop on Medical Imaging and Augmented Reality, Tokyo, Japan, 160--167, 2008.
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Reyes M., Linguraru M.G., Nolte L.P., and González-Ballester M.A.Clusterization of deformation modes for quantitative evaluation on factor analysis techniques on statistical shape modeling4th International Workshop on Medical Imaging and Augmented Reality, Tokyo, Japan, 2008.
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Bonaretti S., Reimers N., Reyes M., Nikitsin A., Joensson A., Nolte L.P., and Buechler P.Assessment of Peri-Articular Implant Fitting Based on Statistical Finite Element ModelingComputational Biomechanics for Medicine III (Miccai 2008 Workshop), 2008.
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Reyes M., González-Ballester M.A., Li Z., Kozic N., Summers R.M., and Linguraru G.M.Interpretability of Anatomical Variability Analysis of Abdominal Organs via Clusterization of Decomposition Modes.30th Annual International IEEE EMBS Conference, Vancouver, British Columbia, Canada, 2008, 355--358, 2008.
http://dx.doi.org/10.1109/IEMBS.2008.4649163 Bibtex-Entry
Reyes M., Linguraru M.G., Marias K., Ayache N., Nolte L.P., and González-Ballester M.AStatistical shape analysis via principal factor analysisISBI 2007: Proceedings of the Fourth IEEE international conference on Symposium on Biomedical Imaging, 1216-1219, 2007.
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Reyes M., Malandain G., Darcourt J., and Koulibaly P.M.Respiratory motion correction in emission tomography imagingFully Three-Dimensional Image Reconstruction Meeting in Radiology and Nuclear Medicine, Salt Lake City, Utah, USA, 2005.
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González-Ballester M.A., Linguraru M.G., Reyes M., and Ayache N.On the adequacy of principal factor analysis for the study of shape variabilitySPIE Medical Imaging 2005, 5747, 1392-1399, 2005.
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Reyes M., Malandain G., Koulibaly P.M., González-Ballester M.A., and Darcourt J.Respiratory motion correction in emission tomography image reconstructionMedical Image Computing and Computer-Assisted Intervention -- MICCAI 2005, Lecture Notes in Computer Science, Palm Springs, California, 3750, 369-376, 2005.
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Book Chapters

 

Crimi A., Menze B., Maier O., Reyes M., and Handels H.Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries: First International Workshop, Brainles 2015, Held in Conjunction with MICCAI 2015, Munich, Germany, October 5, 2015, Revised Selected Papers 9556, 2016.
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Reyes M., Shahim K., and Jürgens P.Computer-Assisted Musculoskeletal Surgery: Thinking and Executing in 3D 43--56, 2016.
http://dx.doi.org/10.1007/978-3-319-12943-3_5 Bibtex-Entry
Bauer S., Wiest R., Slotboom J., and Reyes M.Atlas-based Segmentation of Tumor-bearing Brain Images 12, 159-169, 2014.
http://www.springer.com/series/8812 Bibtex-Entry
Kim H., Jürgens P., and Reyes M.Patient-Specific Modeling in Tomorrow's Medicine 9, 413--440, 2012.
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Bardyn T., Reyes M., Larrea X., and Buechler P.Influence of Smoothing on Voxel-Based Mesh Accuracy in Micro-Finite Element 78--86, 2009.
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Seiler C., Büchler P., Nolte L.P., Paulsen R., and Reyes M.Hierarchical Markov Random Fields Applied to Model Soft Tissue Deformations on Graphics Hardware 133--148, 2008.
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Conference Abstracts

 

Taghizadeh E., Kistler M., Büchler P., and Reyes M.Fast Prediction of Femoral Biomechanics Using Supervised Machine Learning and Statistical Shape ModelingComputational Biomechanics for Medicine X / MICCAI 2015, 115--127, 2015.
http://dx.doi.org/10.13140/RG.2.1.3290.1840 Bibtex-Entry
Lu P., Barazzetti L., Chandran V., Gavaghan K., Weber S., Gerber N., and Reyes M.Facial Nerve Image Enhancement from CBCT using Supervised Learning TechniqueProceedings of the 37th Annual International Conference of the IEEE EMBS Milan, Italy August 25-29, In Press, 2015.
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Meier R., Karamitsou V., Habegger S., Wiest R., and Reyes M.Parameter Learning for CRF-based Tissue Segmentation of Brain TumorsBrain Tumor Segmentation Challenge - BRATS / MICCAI 2015, In Press, 2015.
http://dx.doi.org/10.13140/RG.2.1.3290.1840 Bibtex-Entry
Valenzuela W., Ferguson S., Ignasiak D., Diserens G., Vermathen P., Boesch C., and Reyes M.Correction Tool for Active Shape Model Based Lumbar Muscle SegmentationProceedings of the 37th Annual International Conference of the IEEE EMBS Milan, Italy August 25-29, In Press, 2015.
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Waldo Valenzuela, Juan Cerrolaza, Ronald M. Summers, Marius {George Linguraru}, and Mauricio ReyesFast Correction Method for Abdominal Multi-Organ Segmentation Using 2D / 3D Free Form Deformation and Posterior Shape ModelsInteractive Medical Image Computing - IMIC / MICCAI 2015, In Press, 2015.
http://dx.doi.org/10.13140/RG.2.1.3290.1840 Bibtex-Entry
Valenzuela W., Vermathen P., Boesch C., Nolte L.P., and Reyes M.iSix - Image Segmentation in Osirix30th Annual Scientific Meeting of the European Society for Magnetic Resonance in Medicine and Biology, 2013.
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Jürgens P., Shahim K., Cattin P., Zeilhofer H.F., and Reyes M.Backward-planning for orthognatic surgery---a new inverse modelling algorithm to define the hard-tissue position from a desired soft-tissue surface 42, 1331--1331, 2013.
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Lu H., Van der Zwaag W., Nolte L.P., and Reyes M.Geometric and Intensity EPI Distortion Correction for 7T fMRI Using Simultaneous Classification and RegistrationProceedings of ESMRMB 2012, Lisbon, Portugal, 2012.
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Seif M., Lu H., Boesch C., Reyes M., and Vermathen P.Image co-registration for triggered and non-triggered DTI of the human kidney: Reduced variability of diffusion parameter estimationProceedings of ESMRMB 2012, Lisbon, Portugal, 2012.
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Bonaretti S., Seiler C., Boichon C., Buechler P., and Reyes M.Mesh-based vs. Image-based Statistical Appearance Model of the Human Femur: a Preliminary Comparison Study for the Creation of Finite Element MeshesMesh Processing in Medical Image Analysis, Lecture Notes in Computer Science, 2011.
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Jürgens P., Kim H., Forter S., Beinemann J., Zeilhofer H.F., Reyes M., and Schwenzer K.Three-dimensional control of maxillary position--validation of a 3-d real time navigational prototype system for routine application in orthognathic surgeryAbstracts of the 20th International Conference on Oral and Maxillofacial Surgery, 40, 1064, 2011.
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Jürgens P., Kim H., and Reyes M.Application of a new soft-tissue simulation strategy based on a mimic muscle template model to predict the outcome in orthognatic surgeryAbstracts of the 20th International Conference on Oral and Maxillofacial Surgery, 40, 1064, 2011.
http://dx.doi.org/10.1016/j.ijom.2011.07.130%22 Bibtex-Entry
Bonaretti S., Helgason B., Seiler C., Kistler M., Reyes M., and Buechler P.A Statistical Shape Model of Bone Anatomical Variability for Finite Element Assessment of Bone Mechanics17th Congress of the European Society of Biomechanics, Edinburgh, U.K., 2010.
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Kim H., Jürgens P., Cattin P., Weber S. Nolte L.P., and Reyes M.Patient-specific, Fast Soft-Tissue Simulation for Cranio-Maxillofacial Surgery17th Congress of the European Society of Biomechanics, Edinburgh, U.K. -Accepted for podium presentation, 2010.
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Seiler C., Gazdhar A., Geiser T., Reyes M., and Gantenbein-Ritter B.Mesenchymal Stem Cell Classification during Differentiation Based on Shape InformationTERMIS -- Tissue Engineering and Regenerative Medicine International Society -- EU Meeting, Galway, Ireland, 2010.
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Stefan Bauer and Mauricio ReyesA Markov-Random-Field-Based Biomechanical Tumor Growth Model for Atlas-Based Segmentation of Brain Tumor ImagesProceedings of the 4th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation Athens, Greece September 8-9, 2010.
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Bonaretti S., Kistler M., Seiler C., Reyes M., and Buechler P.Combined statistical model of bone shape and mechanical properties for bone and implant modeling9th International Symposium on Computer Methods in Biomechanics and Biomedical Engineering, Valencia/Spain, Feb 24-27, 2010.
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Bou-Sleiman H., Ritacco L.E., and Reyes M.Computer-assisted allograft selection for transepiphyseal tumor resection at the knee10th Annual Meeting of the International Society for Computer Assisted Surgery, Paris, France, June 16-19, 2010.
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X. Dong, H. Lu, Y. Sakurai, H. Yamagata, G. Zheng, and M. ReyesAutomated Intervertebral Disc Detection from Low Resolution, Sparse MRI Images for the Planning of Scan GeometriesMachine Learning in Medical Imaging, Lecture Notes in Computer Science, 6357, 10-17, 2010.
http://dx.doi.org/10.1007/978-3-642-15948-0_2 Bibtex-Entry
Kim H., Jürgens P., Cattin P., Weber S., Nolte L.P, and Reyes M.Fast soft-tissue simulation method for cranio-maxillofacial surgery using facial muscle template models14th Annual Conference of the International Society for Computer Aided Surgery, Geneva, Switzerland, June, 2010.
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K. Marias, V. Sakkalis, A. Roniotis, I. Karatzanis, G. Stamatakos, D. Dionysiou, S. Giatili, N. Uzunoglou, N. Graf, R. Bohle, E. Meese, H. Stenzhorn, Y.-J. Kim, P. Coveney, S. Zasada, S. Wan, A. Folarin, P. Büchler, T. Bardyn, S. Bauer, M. Reyes, G. Clapworthy, E. Liu, T. Bily, V. Bednar, Karasek. M., A. Franz, R. Grewer, and J. SabczynskiCONTRACANCRUM AT THE PROJECT LEVEL: Clinically Oriented Translational Cancer Multilevel ModellingProceedings of the 4th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation Athens, Greece September 8-9, 2010.
K. Marias, V. Sakkalis, A. Roniotis, I. Karatzanis, G. Stamatakos, D. Dionysiou, S. Giatili, N. Uzunoglou, N. Graf, R. Bohle, E. Meese, H. Stenzhorn, Y.-J. Kim, P. Coveney, S. Zasada, S. Wan, A. Folarin, P. Büchler, T. Bardyn, S. Bauer, M. Reyes, G. Clapworthy, E. Liu, T. Bily, V. Bednar, Karasek. M., A. Franz, R. Grewer, and J. SabczynskiClinically Oriented Translational Cancer Multilevel Modelling: The ContraCancrum projectProceedings of the Virtual Physiological Human Conference 2010 Brussels, Belgium September 30 - October 1, 2010.
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G. Stamatakos, D. Dionysiou, E. Kolokotroni, E. Georgiadi, A. Roniotis, V. Sakkalis, P. Coveney, S. Wan, S. Manos, S. Zasada, A. Folarin, P. Büchler, T. Bardyn, S. Bauer, M. Reyes, T. Bily, V. Bednar, M. Karasek., N. Graf, R.M. Bohle, E. Meese, Y.-J. Kim, H. Stenzhorn, G. Clapworthy, E. Liu, J. Sabczynski, and K. MariasCONTRA CANCRUM AT THE PROJECT LEVEL: The ContraCancrum Oncosimulator: Integrating Biomechanisms Across Scales in the Clinical ContextProceedings of the 4th International Advanced Research Workshop on In Silico Oncology and Cancer Investigation Athens, Greece September 8-9, 2010.
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Kim H., Jürgens P., Nolte L.P., Weber S., Zeilhofer H.F., and Reyes M.Anatomically considered, fast soft-tissue simulation for cranio-maxillofacial surgeryIn Proceedings of Computer Aided Surgery around the Head, Paris, France, 2009.
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Schmidt W., Reyes M., Fischer F., Geesink R., Nolte L.P., Racanelli J., and Reimers N.Quantifying human knee anthropometric differences between ethnic groups and gender using shape analysisAnnual Meeting of the American Society of Biomechanics, Penn State University, 26-29, 2009.
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Bonaretti S., Buechler P., Reimers N., Schmidt W., Seiler C., Weber S., and Reyes M.Automatic bone density evaluation from CT images9th Annual Meeting of the International Society for Computer Assisted Orthopaedic Surgery, Boston, U.S.A, June 17-20, 625-627, 2009.
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Oliveira-Santos T., Weitzel T., Klaeser B., Reyes M., and Weber S.Introducing Computer-Assisted Surgery into combined PET/CT image based Biopsy9th Annual Meeting of the International Society for Computer Assisted Orthopaedic Surgery, Boston, U.S.A, June 17-20, 308-311, 2009.
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Seiler C., Weber S., Schmidt W., Fischer F., Reimers N., and Reyes M.Automatic Landmark Propagation for Left and Right Symmetry Assessment of Tibia and Femur: A Computational Anatomy Based Approach9th Annual Meeting of the International Society for Computer Assisted Surgery, Boston, U.S.A, June 17-20, 195-198, 2009.
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Kozic N., Reyes M., Tannast M., Nolte L.P., and González Ballester M.A.Assesment of anatomical criteria across populations using statistical shape models and level sets8th Annual Meeting of the International Society for Computer Assisted Orthopaedic Surgery, Hong-Kong, China, 46-49, 2008.
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Kozic N. Reyes M., Nolte L.P., and González-Ballester M.A.Global optimisation in PCA shape space using level sets12th Annual Conference of the International Society for Computer Aided Surgery, Barcelona, Spain, S109--S110, 2008.
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Reyes M., Bonaretti S., Reimers N., Lutz C., and González-Ballester M.A.Evidence-based implant design using a statistical bone model and automated implant fitting8th Annual Meeting of the International Society for Computer Assisted Orthopaedic Surgery, Hong-Kong, China, 2008.
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Bonaretti S., Reimers N., Rueckert D., Reyes M., González-Ballester M.A., and Buechler P.Statistical Finite Element Analysis for Bone Modeling16th Congress of the European Society of Biomechanics, Lucerne, Switzerland, S369-S369, 2008.
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Larrea X., Reyes M., Boyd S., Buechler P., and González-Ballester M.A.Automatic mesh smoothing for finite element modelling from 3D image data.16th Congress of the European Society of Biomechanics, Lucerne, Switzerland, 2008.
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Reyes M., Larrea X., Boyd S., Buechler P., and González-Ballester M.A.Constrained hexahedral mesh smoothing for finite element modelling from 3D image dataComputer Methods in Biomechanics and Biomedical Engineering,Porto, Portugal, 2008.
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Reyes M., Nolte L.P., and González-Ballester M.A.Clustering of deformation modes for quantitative evaluation of statistical shape models7th Annual Meeting of the International Society for Computer Assisted Orthopaedic Surgery, Heidelberg, Germany, 271-273, 2007.
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Reyes M., Malandain G., Ayache N., Darcourt J., and Koulibaly P.M.Respiratory motion compensation within emission tomographic reconstruction52nd Annual Meeting of the Society of Nuclear Medicine, Toronto, Canada, 2005.
Pereda J. and Reyes M.Virtual Reconstruction: a new approach to the study of human embryologyXVIII Congress of Brazilian Microscopy and Microanalysis Society. Sao Paulo, Brazil, 2001.
Pereda J. and Reyes M.The Use of Computational Tools for the Design, and Elaboration of a Teaching Program on Fetal AnatomyXVII International Symposium on Morphological Sciences, Timisoara, Rumania, 11-15, 2001.
Pereda J. and Reyes M.Nuevas Tendencias Educacionales: Reconstrucción Tridimensional. Una Nueva Alternativa en la Enseñanza de la Embriología HumanaI Seminar of Universitary Teaching. Universidad de Santiago de Chile, Santiago, Chile, 26-28, 2001.
Reyes M. and Salinas R.Visualización Tridimensional en BioIngeniería a partir de Cortes SeriadosInternational Conference of Engineering Systems, Communications and Information Technologies (ICSECIT), Punta Arenas, Chile, 16-19, 2001.
Reyes M. and Moisan M.Controlador Difuso Experimental para Sistema ball and beam, usando Visión Artificial como RealimentaciónXIV Congress of Chilean Automatic Control Association (ACCA), Concepcion, Chile, 23-27, 2000.