Alonso Ramirez-Manzanares, Philip A. Cook, Matt Hall,  Manzar Ashtari  and James C. Gee. Resolving Axon Fiber Crossings at Clinical b-values: An Evaluation Study, Journal of Medical Physics, Volume 38, Issue 9, 5239-53 , Sep. 2011

A. Ramirez-Manzanares, M. Rivera, P. Kornprobst and F. Lauze. Variational multi-valued velocity field estimation for transparent sequences, Journal of Mathematical Imaging and Vision, Volume 40, Issue 3, 285-304 , July 2011.

P. Fillard, M. Descoteaux, A. Goh, S. Gouttard, B. Jeurissen, J. Malcolm, A. Ramirez-Manzanares, M. Reisert, K. Sakaie, F. Tensaouti, T. Yo, J. F. Mangin, C. Poupon. Quantitative Evaluation of 10 Tractography Algorithms on a Realistic Diffusion MR Phantom, Neuroimage, Volume 56, Issue 1, 220-234, May 2011

M. Rivera, O. Dalmau, W. Mio, and A. Ramírez-Manzanares, Spatial Sampling for Image Segmentation.  Oxford Journals: The computer Journal, Published online, DOI 10.1093/comjnl/bxr032, 2011

A. Ramirez-Manzanares, M. Rivera, B. C. Vemuri, P. Carney and T. Mareci. Diffusion Basis Functions Decomposition for Estimating White Matter Intra-voxel Fiber Geometry. IEEE Transactions on Medical Imaging, August, vol. 26, no. 8. Pp. 1091-1102, 2007
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A. Ramirez-Manzanares and M. Rivera. Basis Tensor Decomposition for Restoring Intra-Voxel Structure and Stochastic Walks for inferring Brain Connectivity DT-MRI. International Journal of Computer Vision 69(1), pp. 77-92, 2006.

A. Ramirez-Manzanares, A. Palafox-Gonzalez, M. Rivera: Robust Spatial Regularization and Velocity Layer Separation for Optical Flow Computation on Transparent Sequences. Advances in Artificial Intelligence, Lecture Notes in Computer Science, 2010, Volume 6437/2010 : 325-336 DOI: 10.1007/978-3-642-16761-4_29

Ramón Aranda, Mariano Rivera, Alonso Ramírez-Manzanares, Manzar Ashtari and James C. Gee,  Massive Particles for Brain Tractography, Advances in Artificial Intelligence, Lecture Notes in Computer Science, 2010, Volume 6437/2010, 446-457, DOI: 10.1007/978-3-642-16761-4_39

A. Ramírez-Manzanares, J. Rafael-Patiño, M. Ashtari, Single and Multi Diffusion-Tensor Based Kernels for Anisotropic Filtering of Brain DW-MR Images, IEEE Electronics, Robotics and Automotive Mechanics Conference, pp.399-404, 2010

E. Hernandez, T. Cordova, A. Ramírez-Manzanares, D. K. B. Li, M. F. Dvorak, A. Curt, E. L. MacMillan, B. Mädler, A. L. Mackay. Pitfalls of Spinal DTI in Cervical Spondylotic Myelopathy. Annual Meeting ISMRM, 1-7 May 2010, Stockholm, Sweden.

A. Ramirez-Manzanares, M. Rivera, and J. C. Gee. Denoising Intra-voxel Axon Fiber Orientations by Means of EC-QMMF Method. In 8th Mexican International Conference on Artificial Intelligence 11-Nov-2009, Guanajuato, LNCS. Pp. 303-311.

A. Ramirez-Manzanares, P. A. Cook, and J. C. Gee. A comparison of methods for recovering intra-voxel white matter fiber architecture from clinical diffusion imaging scans. In Med Image Comput Comput Assist Interv (New York, USA, Sep 2008), vol. 5241 of Lecture Notes in Computer Science, Springer Berlin / Heidelberg, pp. 305-312.

A. Ramirez-Manzanares, H. Zhang, M. Rivera, and J. C. Gee. Robust regularization for the estimation of intra-voxel axon fiber orientations. In Workshop Math Methods in Biomed Imag Anal (Anchorage, Alaska, Jun 2008), pp. 1-8.

A. Ramirez-Manzanares, M. Rivera, P. Kornprobst and F. Lauze. A Variational Approach for Multi-Valued Velocity Field Estimation in Transparent Sequences. In Proc. 1st International Conference on Scale Space and Variational Methods in Computer Vision. LNCS 4485, pp. 227-238. May. Ischia, Italy, 2007. PDF

A. Ramirez-Manzanares and  M. Rivera, "Basis Pursuit based algorithm for intra-voxel recovering information in DW-MR," Procc. IEEE Sixth Mexican International Conference on Computer Science (ENC'05), pp. 152-157, Puebla, México, 2005. PDF

A. Ramirez-Manzanares, M. Rivera, B.C. Vemuri and T. Mareci. Basis Functions for Estimating Intra–voxel Structure in DW–MRI. Procc. IEEE Medical Imaging Conference 2004, Rome, Italy, Pp 4207- 4211, October 2004. Digital Object Identifier 10.1109/NSSMIC.2004.1466819. PDF

A. Ramirez-Manzanares, M. Rivera. Brain Nerve Bundles Estimation by Restoring and Filtering Intra-Voxel Information in Diffusion Tensor MRI. VLSM 2003. Nice France, October 2003, pp. 71-80. PDF

A. Ramirez-Manzanares, M. Rivera, P. Kornprobst and F. Lauze. Multi-Valued Motion Fields Estimation for Transparent Sequences with a Variational Approach. Reporte Técnico del CIMAT, number 22.06.2006, I-06-12 (CC). 2006.

A. Ramirez-Manzanares, M. Rivera, P. Kornprobst, F. Lauze. Multi-Valued Motion Fields Estimation for Transparent Sequences with a Variational Approach. Rapport De Recherche Inria, number RR-5920. 2006.  [ Download Research Report ]

A. Ramirez-Manzanares, M. Rivera, B. C. Vemuri and T. Mareci. Basis functions for estimating intra-voxel structure in DW-MRI. Reporte Técnico del CIMAT, number 18.10.2004, I-04-10 (CC). 2004.

A. Ramirez-Manzanares For the degree of Doctor of Sciences at the Centro de Investigacion en Matematicas A.C., June 2007. PDF