SearcharxivSearch

arXiv subjects

Marc-Antoine Fortin

Publications and source records attributed to Marc-Antoine Fortin.

5 recordsLinked to original sources

7 Tesla Quantitative MRI and Machine Learning for Exploratory Motor Subtype Stratification and Diagnosis in Parkinson's Disease

Parkinson's disease (PD) is a highly heterogeneous disease, including which motor symptoms are dominating. Imaging biomarkers that support subtype stratification could also improve biological understanding and study design, and enable personalized treatment strategies. This study evaluates whether deep-learning based automatic brain segmentation, in addition to quantitative maps from 7 Tesla MRI, can highlight differences between Healthy Controls (HC), Postural Instability and Gait Difficulty (PIGD) and Tremor Dominant (TD), and subsequently be used for objective PD stratification. The performance of machine learning classifiers may be improved with feature selection. 21 HC, and 24 people with PD (PwP) were included. The U-Net training was assessed with DSC. Two classification approaches using 5-fold cross-validation were defined across three tasks: (1) HC vs PwP; (2) PIGD vs TD; (3) multiclass, HC vs PIGD vs TD. Approach A used all extracted features. Approach B found the optimal subset of features for the classification tasks. The U-Net achieved mean DSC of 0.86 for all ROIs during training. Approach A: Task 1 best accuracy of 0.69 and best AUC of 0.73. Task 2 accuracy 0.69, AUC 0.90. Task 3 accuracy 0.62, AUC 0.66. Approach B: Task 1 accuracy of 0.82 and AUC of 0.93. Task 2 accuracy 1.00, AUC 1.00. Task 3 accuracy 0.73, AUC 0.91. DL-based segmentation combined with qMRI feature selection improved classification relative to using all features, supporting the potential of interpretable, low-dimensional imaging signatures for PD diagnosis support and phenotype stratification. Larger, multi-site studies are warranted to assess generalizability and stability.

eess.IV

GOUHFI 2.0: A Next-Generation Toolbox for Brain Segmentation and Cortex Parcellation at Ultra-High Field MRI

Ultra-High Field MRI (UHF-MRI) is increasingly used in large-scale neuroimaging studies, yet automatic brain segmentation and cortical parcellation remain challenging due to signal inhomogeneities, heterogeneous contrasts and resolutions, and the limited availability of tools optimized for UHF data. Standard software packages such as FastSurferVINN and SynthSeg+ often yield suboptimal results when applied directly to UHF images, thereby restricting region-based quantitative analyses. To address this need, we introduce GOUHFI 2.0, an updated implementation of GOUHFI that incorporates increased training data variability and additional functionalities, including cortical parcellation and volumetry. GOUHFI 2.0 preserves the contrast- and resolution-agnostic design of the original toolbox while introducing two independently trained 3D U-Net segmentation tasks. The first performs whole-brain segmentation into 35 labels across contrasts, resolutions, field strengths and populations, using a domain-randomization strategy and a training dataset of 238 subjects. Using the same training data, the second network performs cortical parcellation into 62 labels following the Desikan-Killiany-Tourville (DKT) protocol. Across multiple datasets, GOUHFI 2.0 demonstrated improved segmentation accuracy relative to the original toolbox, particularly in heterogeneous cohorts, and produced reliable cortical parcellations. In addition, the integrated volumetry pipeline yielded results consistent with standard volumetric workflows. Overall, GOUHFI 2.0 provides a comprehensive solution for brain segmentation, parcellation and volumetry across field strengths, and constitutes the first deep-learning toolbox enabling robust cortical parcellation at UHF-MRI.

eess.IV

GOUHFI: a novel contrast- and resolution-agnostic segmentation tool for Ultra-High Field MRI

Recently, Ultra-High Field MRI (UHF-MRI) has become more available and one of the best tools to study the brain. One common step in quantitative neuroimaging is to segment the brain into several regions, which has been done using software packages like FreeSurfer , FastSurferVINN or SynthSeg. However, the differences between UHF-MRI and 1.5T or 3T images are such that the automatic segmentation techniques optimized at these field strengths usually produce unsatisfactory segmentation results for UHF images. Thus, it has been particularly challenging to perform region-based quantitative analyses as typically done with 1.5-3T data, underscoring the crucial need for developing new automatic segmentation techniques designed to handle UHF images. Hence, we propose a novel Deep Learning (DL)-based segmentation technique called GOUHFI: Generalized and Optimized segmentation tool for Ultra-High Field Images, designed to segment UHF images of various contrasts and resolutions. For training, we used a total of 206 label maps from datasets acquired at 3T, 7T and 9.4T. In contrast to most DL strategies, we used a domain randomization approach, where synthetic images were used to train a 3D U-Net. GOUHFI was tested on seven different datasets and compared to existing techniques like FastSurferVINN,SynthSeg and CEREBRUM-7T. GOUHFI was able to segment the six contrasts and seven resolutions tested at 3T, 7T and 9.4T. Average Dice scores of 0.90, 0.90 and 0.93 were computed against the ground truth segmentations at 3T, 7T and 9.4T, respectively. Ultimately, GOUHFI is a promising new segmentation tool, being the first of its kind proposing a contrast- and resolution-agnostic alternative for UHF-MRI without requiring fine-tuning or retraining, making it the forthcoming alternative for neuroscientists working with UHF-MRI or even lower field strengths.

eess.IV

Mapping fat-water separated R1, R2*, and proton density fat fraction with the multi-echo MP2RAGE sequence

Purpose: To develop a technique for joint measurement of fat and water-specific longitudinal relaxation rates (R1f and R1w), effective transverse relaxation rate (R2*), and proton density fat fraction (PDFF) combining the Multi-Echo Magnetization Prepared Two Rapid Acquisition of Gradient Echoes (ME-MP2RAGE) sequence and fat-water separation. Theory and Methods: R1f and R1w were calculated with fat-specific and water-specific MP2RAGE signals. R2* and PDFF maps were obtained from fat-water separation applied to the second RAGE block. Sequence parameters optimization was performed via Cram\'er-Rao lower bounds theory, and we designed four protocols with different combinations of number of echoes and readout gradient schemes (I: 3 echoes unipolar, II: 6 echoes unipolar, III: 6 echoes bipolar, and IV: 10 echoes bipolar). We tested and validated these protocols with numerical simulations, phantom and in vivo experiments. In phantoms, we compared ME-MP2RAGE measurements with inversion recovery spin-echo (IR-SE) global R1 and 3D Fast Low Angle Shot (3D FLASH) R2* and PDFF. In vivo, we scanned the lower leg and neck of a healthy volunteer. Results: Numerical simulations showed accurate quantification of relaxation rates with mean relative bias < 3% and PDFF with mean bias < 0.003 using protocol ME-MP2RAGE IV (10 echoes bipolar). Phantom experiments showed excellent agreement with IR-SE and 3D FLASH measurements. In vivo, measurements in the lower leg and neck were consistent with literature values. Conclusion: We proposed an accurate method for simultaneous quantification of R1f, R1w, R2*, and PDFF from a single acquisition with the ME-MP2RAGE sequence.

physics.med-ph

Lava World: Exoplanet Surfaces

The recent first measurements of the reflection of the surface of a lava world provides an unprecedented opportunity to investigate different stages of rocky planet evolution. The spectral features of the surfaces of rocky lava world exoplanets give insights into their evolution, mantle composition and inner workings. However, no database exists yet that contains spectral reflectivity and emission of a wide range of potential exoplanet surface materials. Here we first synthesized 16 potential exoplanet surfaces, spanning a wide range of chemical compositions based on potential mantle material guided by the metallicity of different host stars. Then we measured their infrared reflection spectrum (2.5 - 28 μm, 350 - 4000 cm^{-1}), from which we can obtain their emission spectra and establish the link between the composition and a strong spectral feature at 8 μm, the Christiansen feature (CF). Our analysis suggests a new multi-component composition relationship with the CF, as well as a correlation with the silica content of the exoplanet mantle. We also report the mineralogies of our materials as possibilities for that of lava worlds. This database is a tool to aid in the interpretation of future spectra of lava worlds that will be collected by the James Webb Space Telescope and future missions

astro-ph.EP