Development and optimization of tools for the study of human brain anatomical connectivity using high angular resolution diffusion MRI

Project Type: FONDECYT Initiation #11121644
Position: Principal Researcher
Award Year: 2012. Ending Year: 2015.

Descripción

This project sought to develop and optimize tools for the study and analysis of brain connectivity, using Difussion Magnetic Resonance Imaging (dMRI) data.

The studies are based on High Angular Resolution Difussion Imaging (HARDI) images.

These present very high quality, due to the advancement of acquisition technologies, as well as the acquisition itself (long duration, dedicated to research) and the performed post-processing, which seek to provide a solid base for the study of the healthy adult human brain.

The main results of this project contemplate:

  • The analysis of the reproducibility of short association fascicles of the brain, using data clustering tools and cortical parcellations.

  • The optimization of an algorithm for the segmentation of brain fibers, achieving times that allow an interactive segmentation (Principal Researcher: Professor Miguel Figueroa T.).

  • The development of a tool for the optimized visualization and manipulation of brain tracts.

Other interesting results are:

  • Development of a tool for the optimized visualization of tracts for Android devices (iFiber).

  • Creation of an atlas of short brain fascicles.

  • Development of algorithms for the comparison of brain tracts, between subjects and between hemispheres.

Undergraduate Theses related to the project

Student Thesis Defense Date
Ignacio Osorio W. Electronic Civil Engineering Thesis: “Software for the Interactive Visualization and Extraction of Brain Fibers” December 31st, 2015.
Danilo Bonometti B. Electronic Civil Engineering Thesis: “Visualization of Brain Fibers” April 1st, 2015.
Daniel Seguel B. Biomedical Civil Engineering Thesis: “Automatic Algorithm for the Segmentation of Short Association Fibers of the Human Brain” March 17th, 2015.
Claudio Román G. Biomedical Civil Engineering Thesis: “Short Brain Fibers Clustering Calculated from Difussion Magnetic Resonance Imaging Images” January 16th, 2015.
Miguel Guevara O. Biomedical Civil Engineering Thesis: “Algorithm for the Automatic Segmentation of Short Brain Fibers of the Fronto-Parietal Region and the Insular Cortex” January 16th, 2015.
Pablo L. Silva P. Biomedical Civil Engineering Thesis: “Parcellation of the Brain Cortex Based on the Anatomical Connectivity” May 29th, 2014.
Eduardo Venegas A. Electronic Civil Engineering Thesis: “Development of a software for the interactive manipulation of brain fibers” July 18th, 2014.
Nicole A. Labra A. Biomedical Civil Engineering Thesis: “Optimization of Algorithm for the Classification of White Matter Fibers based on the Brain Fascicles Atlas” April 30th, 2013.
Edison Pardo R. Electronic Civil Engineering Thesis: “Study of the Variability of the Connections of Short Association of the Human Brain” April 4th, 2013.
Gabriel E. Varela M. Biomedical Civil Engineering Thesis: “Calculation of Diffusion Tensor Indices from the Westin Algorithm” April 4th, 2013.

Postgraduate Theses related to the project

Student Thesis Defense Date
Claudio Román G. Master of Engineering Sciences w/m in Electrical Engineering.
“Segmentation of brain short brain fibers based on hierarchical Clustering from HARDI database”		 November 30th, 2016.
Miguel Guevara O. Master of Engineering Sciences w/m in Electrical Engineering.
“Parcellation of the brain cortex based on fiber atlas calculated from tractography”		 January 30th, 2016.
Nicole Labra A. Master of Engineering Sciences w/m in Electrical Engineering, (co-director)
“Quick segmentation of white substance brain fibers”		 January 28th, 2015.

Publications

3010, 2013

The CONNECT project: Combining macro- and micro-structure.

Y Assaf, DC Alexander, DK Jones, A Bizzi, TE Behrens, CA Clark, Y Cohen, TB Dyrby, PS Huppi, TR Knoesche, D Le Bihan, GJ Parker, C Poupon; CONNECT consortium, D Anaby, A Anwander, L Bar, D Barazany, T Blumenfeld-Katzir, S De-Santis, D Duclap, M Figini, E Fischi, P Guevara, P Hubbard, S Hofstetter, S Jbabdi, N Kunz N, F Lazeyras, A Lebois, MG Liptrot, H Lundell, JF Mangin, DM Dominguez, D Morozov, J Schreiber, K Seunarine, S Nava, T Riffer, E Sasson, B Schmitt, N Shemesh, SN Sotiropoulos, I Tavor, HG Zhang, FL Zhou. The CONNECT project: Combining macro- and micro-structure. NeuroImage. vol. 80, p273-282, 2013. DOI: https://dx.doi.org/10.1016/j.neuroimage.2013.05.055

3007, 2013

IEEE EMBS Conference at Osaka, Japan

  From July 3rd to the 7th, 2013, the 35th Anual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC’13) was held at Osaka, Japan.   The master's student Nicole Labra presented the paper “ GPU-Based acceleration of an automatic white matter segmentation algorithm using CUDA”. The work consists of an algorithm able to label known tracts on a tractography datasets in a very short time, enabling interactive applications.   FONDECYT 11121644  

307, 2013

GPU-Based acceleration of an automatic white matter segmentation algorithm using CUDA.

N. Labra, M. Figueroa, P. Guevara, D. Duclap, J. Houenou, C. Poupon and J.-F. Mangin. GPU-Based acceleration of an automatic white matter segmentation algorithm using CUDA. In 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2013 , pp 89-92, Osaka, Japón, 2013. DOI: http://dx.doi.org/10.1109/EMBC.2013.6609444

1606, 2013

Brain image and fiber Log-Demons registration with currents.

V. Siless, J. Glaunes, P. Guevara, J.-F. Mangin, C. Poupon, D. Le Bihan, P. Fillard and B. Thirion. Brain image and fiber Log-Demons registration with currents. 19th Annual Meeting of the Organization for Human Brain Mapping, HBM 2013, Seattle, USA, 2013.

306, 2013

Study of the variability of short association bundles on a HARDI database.

E. Pardo, P. Guevara, D. Duclap, J. Houenou, A. Lebois, B. Schmitt, D. Le Bihan, J.-F. Mangin and C. Poupon. Study of the variability of short association bundles on a HARDI database. In 35th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2013, pp 77-80, Osaka, Japón, 2013. DOI : http://dx.doi.org/10.1109/EMBC.2013.6609441

News

3010, 2017

Researcher Jean-François Mangin dictates inaugural session at X Biomedical Civil Engineering Congress – UdeC

More than a hundred students from different national universities and the host career, reunited at the X Anual Biomedical Engineering Congress (CAIB), which took place at [...]

2018-11-10T18:32:47-03:00

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