Publications de Jonathan Rafael Patino Lopez

Cellular EXchange Imaging (CEXI): Evaluation of a diffusion model including water exchange in cells using numerical phantoms of permeable spheres

Jean-Philippe Thiran, Erick Jorge Canales Rodriguez, Gabriel Girard, Jonathan Rafael Patino Lopez, Ileana Ozana Jelescu, Juan Luis Villarreal Haro, Rémy Marc M Gardier

Purpose Biophysical models of diffusion MRI have been developed to characterize microstructure in various tissues, but existing models are not suitable for tissue composed of permeable spherical cells. In this study we introduce Cellular Exchange Imaging ( ...

Wiley2023

Molecular Imaging with Aquaporin-Based Reporter Genes: Quantitative Considerations from Monte Carlo Diffusion Simulations

Jean-Philippe Thiran, Jonathan Rafael Patino Lopez, Rémy Marc M Gardier

Aquaporins provide a unique approach for imaging genetic activity in deep tissues by increasing the rate of cellular water diffusion, which generates a magnetic resonance contrast. However, distinguishing aquaporin signals from the tissue background is cha ...

Amer Chemical Soc2023

Microstructure estimation from diffusion-MRI: Compartmentalized models in permeable cellular tissue

Jean-Philippe Thiran, Erick Jorge Canales Rodriguez, Gabriel Girard, Jonathan Rafael Patino Lopez, Juan Luis Villarreal Haro, Rémy Marc M Gardier

Diffusion-weighted magnetic resonance imaging (DW-MRI) is used to characterize brain tissue microstructure employing tissue-specific biophysical models. A current limitation, however, is that most of the proposed models are based on the assumption of negli ...

2022

Insights from the IronTract challenge: Optimal methods for mapping brain pathways from multi-shell diffusion MRI

Jean-Philippe Thiran, Erick Jorge Canales Rodriguez, Gabriel Girard, Elda Fischi Gomez, Jonathan Rafael Patino Lopez, Thomas Yu, Marco Pizzolato, Gaëtan Olivier D Rensonnet

Limitations in the accuracy of brain pathways reconstructed by diffusion MRI (dMRI) tractography have received considerable attention. While the technical advances spearheaded by the Human Connectome Project (HCP) led to significant improvements in dMRI da ...

ACADEMIC PRESS INC ELSEVIER SCIENCE2022

Simulation-based Microstructure Imaging: From Forward Signal Modeling to Machine Learning

Jonathan Rafael Patino Lopez

This thesis focuses on the signal modelling of Diffusion-Weighted Magnetic Resonance Imaging (DW-MRI) in the brain's white matter (WM). DW-MRI a non-invasive technique with enormous potential for the study of the brain's microstructure by measuring the dif ...

EPFL2021

Tractography dissection variability: What happens when 42 groups dissect 14 white matter bundles on the same dataset?

Jonathan Rafael Patino Lopez, Thomas Yu

White matter bundle segmentation using diffusion MRI fiber tractography has become the method of choice to identify white matter fiber pathways in vivo in human brains. However, like other analyses of complex data, there is considerable variability in segm ...

ACADEMIC PRESS INC ELSEVIER SCIENCE2021

Multi-Compartment Diffusion Mri, T2 Relaxometry And Myelin Water Imaging As Neuroimaging Descriptors For Anomalous Tissue Detection

Jean-Philippe Thiran, Erick Jorge Canales Rodriguez, Elda Fischi Gomez, Gian Franco Piredda, Jonathan Rafael Patino Lopez, Marco Pizzolato

Multiple sclerosis (MS) is an inflammatory and neurodegenerative disease characterized by diffuse and focal areas of tissue loss. Conventional MRI techniques such as T1-weighted and T2-weighted scans are generally used in the diagnosis and prognosis of the ...

IEEE2021

A Signal Peak Separation Index for axisymmetric B-tensor encoding

Jean-Philippe Thiran, Gabriel Girard, Jonathan Rafael Patino Lopez, Marco Pizzolato, Gaëtan Olivier D Rensonnet, Benoît Macq

Diffusion-weighted MRI (DW-MRI) has recently seen a rising interest in planar, spherical and general B-tensor encodings. Some of these sequences have aided traditional linear encoding in the estimation of white matter microstructural features, generally by ...

Springer2021

The Microstructural Features of the Diffusion-Simulated Connectivity (DiSCo) Dataset

Jean-Philippe Thiran, Gabriel Girard, Jonathan Rafael Patino Lopez, Marco Pizzolato

We present a detailed description of the structural characteristics of the MICCAI 2021 Diffusion Simulated Connectivity (DiSCo) Challenge synthetic dataset. The DiSCo dataset are one of a kind numerical phantoms for the simulation of the diffusion-weighted ...

SPRINGER INTERNATIONAL PUBLISHING AG2021

The diffusion-simulated connectivity (DiSCo) dataset

Jean-Philippe Thiran, Gabriel Girard, Jonathan Rafael Patino Lopez, Marco Pizzolato

The methodological development in the mapping of the brain structural connectome from diffusion-weighted mag-netic resonance imaging (DW-MRI) has raised many hopes in the neuroscientific community. Indeed, the knowledge of the connections between different ...

ELSEVIER2021