Monte Carlo simulation of water diffusion through cardiac tissue models.

Monte Carlo diffusion simulations are commonly used to establish a reliable ground truth of tissue microstructure, including for the validation of diffusion-weighted MRI. However, selecting simulation parameters is challenging and affects validity and reproducibility. We conducted experiments to investigate critical conditions in Monte Carlo simulations, such as tissue representation complexity, simulated molecules, update duration, and compartment size.

Measurement of local orientation of cardiomyocyte aggregates in human left ventricle free wall samples using X-ray phase-contrast microtomography.

Most cardiomyocytes in the left ventricle wall are grouped in aggregates of four to five units that are quasi-parallel to each other. When one or more "cardiomyocyte aggregates" are delimited by two cleavage planes, this defines a "sheetlet" that can be considered as a "work unit" that contributes to the thickening of the wall during the cardiac cycle. In this paper, we introduce the skeleton method to measure the local three-dimensional (3D) orientation of cardiomyocyte aggregates in the sheetlets in three steps: data segmentation; extraction of the skeleton of the sheetlets; and calculation of the local orientation of the cardiomyocyte aggregates inside the sheetlets.

Evaluation of noise and blur effects with SIRT-FISTA-TV reconstruction algorithm: Application to fast environmental transmission electron tomography.

Fast tomography in Environmental Transmission Electron Microscopy (ETEM) is of a great interest for in situ experiments where it allows to observe 3D real-time evolution of nanomaterials under operating conditions. In this context, we are working on speeding up the acquisition step to a few seconds mainly with applications on nanocatalysts. In order to accomplish such rapid acquisitions of the required tilt series of projections, a modern 4K high-speed camera is used, that can capture up to 100 images per second in a 2K binning mode.

Extraction of the 3D local orientation of myocytes in human cardiac tissue using X-ray phase-contrast micro-tomography and multi-scale analysis.

This paper presents a methodology to access the 3D local myocyte arrangements in fresh human post-mortem heart samples. We investigated the cardiac micro-structure at a high and isotropic resolution of 3.5 µm in three dimensions using X-ray phase micro-tomography at the European Synchrotron Radiation Facility.

A stochastic framework for spot-scanning particle therapy.

In spot-scanning particle therapy, inverse treatment planning is usually limited to finding the optimal beam fluences given the beam trajectories and energies. We address the much more challenging problem of jointly optimizing the beam fluences, trajectories and energies. For this purpose, we design a simulated annealing algorithm with an exploration mechanism that balances the conflicting demands of a small mixing time at high temperatures and a reasonable acceptance rate at low temperatures.

Cardiac fiber tracking using adaptive particle filtering based on tensor rotation invariant in MRI.

Diffusion magnetic resonance imaging (dMRI) is a non-invasive method currently available for cardiac fiber tracking. However, accurate and efficient cardiac fiber tracking is still a challenge. This paper presents a probabilistic cardiac fiber tracking method based on particle filtering.

Probabilistic models and numerical calculation of system matrix and sensitivity in list-mode MLEM 3D reconstruction of Compton camera images.

This paper addresses the problem of evaluating the system matrix and the sensitivity for iterative reconstruction in Compton camera imaging. Proposed models and numerical calculation strategies are compared through the influence they have on the three-dimensional reconstructed images. The study attempts to address four questions.

Cardiac fiber unfolding by semidefinite programming.

Diffusion-tensor imaging allows noninvasive assessment of the myocardial fiber architecture, which is fundamental in understanding the mechanics of the heart. In this context, tractography techniques are often used for representing and visualizing cardiac fibers, but their output is only qualitative. We introduce here a new framework toward a more quantitative description of the cardiac fiber architecture from tractography results.

Cardiac characteristics and long-term outcome in Andersen-Tawil syndrome patients related to KCNJ2 mutation.

Aims: Andersen-Tawil syndrome (ATS) is an uncommon form of channelopathy linked to mutations in the KCNJ2 gene. Currently, little is known about the long-term arrhythmic prognosis of this disease.

Methods And Results: We conducted a retrospective multicentre study in nine French hospitals.

Feature-preserving smoothing of diffusion weighted images using nonstationarity adaptive filtering.

Although promising for studying the microstructure of in vivo tissues, the performance and the potentiality of diffusion tensor magnetic resonance imaging are hampered by the presence of high-level noise in diffusion weighted (DW) images. This paper proposes a novel smoothing approach, called the nonstationarity adaptive filtering, which estimates the intensity of a pixel by averaging intensities in its adaptive homogeneous neighborhood. The latter is determined according to five constraints and spatiodirectional nonstationarity measure maps.

Human atlas of the cardiac fiber architecture: study on a healthy population.

Cardiac fibers, as well as their local arrangement in laminar sheets, have a complex spatial variation of their orientation that has an important role in mechanical and electrical cardiac functions. In this paper, a statistical atlas of this cardiac fiber architecture is built for the first time using human datasets. This atlas provides an average description of the human cardiac fiber architecture along with its variability within the population.

MRI reconstruction from 2D truncated k-space.

Purpose: To shorten acquisition time by means of both partial scanning and partial echo acquisition and to reconstruct images from such 2D partial k-space acquisitions.

Materials And Methods: We propose an approach to reconstructing magnetic resonance images from 2D truncated k-space in which the k-space is truncated in both phase- and frequency-encoding directions. Unlike conventional reconstruction techniques, the proposed approach is based on a newly developed 2D singularity function analysis (SFA) model and a sparse representation of an image whose parameters can be estimated from the 2D partial k-space data.

Feature-based interpolation of diffusion tensor fields and application to human cardiac DT-MRI.

Diffusion tensor interpolation is an important issue in the application of diffusion tensor magnetic resonance imaging (DT-MRI) to the human heart, all the more as the points representing the myocardium of the heart are often sparse. We propose a feature-based interpolation framework for the tensor fields from cardiac DT-MRI, by taking into account inherent relationships between tensor components. In this framework, the interpolation consists in representing a diffusion tensor in terms of two tensor features, eigenvalues and orientation, interpolating the Euler angles or the quaternion relative to tensor orientation and the logarithmically transformed eigenvalues, and reconstructing the tensor to be interpolated from the interpolated eigenvalues and tensor orientations.

Multiscale modeling and simulation of the cardiac fiber architecture for DMRI.

Cardiac fiber architecture plays an important role in the study of mechanical and electrical properties of the wall of the human heart, but still remains to be elucidated. This paper proposes to investigate, in a multiscale manner, how the arrangement patterns and morphological heterogeneity of cardiac myocytes influence the fibers orientation. To this end, different virtual cardiac fiber structures are modeled, and diffusion tensor imaging at multiple scales are simulated using the Monte Carlo method.

Automatic detection of abnormal vascular cross-sections based on density level detection and support vector machines.

Purpose: The goal is to automatically detect anomalous vascular cross-sections to attract the radiologist's attention to possible lesions and thus reduce the time spent to analyze the image volume.

Materials And Methods: We assume that both lesions and calcifications can be considered as local outliers compared to a normal cross-section. Our approach uses an intensity metric within a machine learning scheme to differentiate normal and abnormal cross-sections.

Denoising by averaging reconstructed images: application to magnetic resonance images.

A novel denoising approach is proposed that is based on averaging reconstructed images. The approach first divides the spectrum of the image to be denoised into different parts. From every such partial spectrum is then reconstructed an image using a 2-D singularity function analysis model.

Phase correction-based singularity function analysis for partial k-space reconstruction.

Partial k-space acquisition is a conventional method in magnetic resonance imaging (MRI) for reducing imaging time while maintaining image quality. In this field, image reconstruction from partial k-space is a key issue. This paper proposes an approach fundamentally different from traditional techniques for reconstructing magnetic resonance (MR) images from partial k-space.

SIMONE: a realistic neural network simulator to reproduce MEA-based recordings.

Contemporary multielectrode arrays (MEAs) used to record extracellular activity from neural tissues can deliver data at rates on the order of 100 Mbps. Such rates require efficient data compression and/or preprocessing algorithms implemented on an application specific integrated circuit (ASIC) close to the MEA. We present SIMONE (Statistical sIMulation Of Neuronal networks Engine), a versatile simulation tool whose parameters can be either fixed or defined by a probability distribution.

Stochastic nonlinear image restoration using the wavelet transform.

The dominant methodology for image restoration is to stabilize the problem by including a roughness penalty in addition to faithfulness to the data. Among various choices, concave stabilizers stand out for their boundary detection capabilities, but the resulting cost function to be minimized is generally multimodal. Although simulated annealing is theoretically optimal to take up this challenge, standard stochastic algorithms suffer from two drawbacks: i) practical convergence difficulties are encountered with second-order prior models and ii) it remains computationally demanding to favor the formation of smooth contour lines by taking the discontinuity field explicitly into account.

Analysis of cardiac diffusion tensor magnetic resonance images using sparse representation.

In cardiac diffusion tensor magnetic resonance imaging (DT-MRI), low signal-to-noise ratio (SNR) inherently hampers the measurement accuracy of myocardium fiber structures. This paper presents a new method for filtering diffusion weighted (DW) images in cardiac DT-MRI. The method is based on sparse representation through using basis pursuit denoising (BPDN) algorithm allowing seeking overall sparest solution.

Wavelet-based scale-dependent detection of neurological action potentials.

We study different wavelet-based algorithms for the detection of neurological action potentials recorded using micro-electrode arrays (MEA). We plan to develop a new family of ASIC-embedded low power algorithms close to the recording sites. We use the wavelet theory, not for previous-to-the-detection denoising stage (as it is usually used for) but for the detection itself.

Fast-marching contours for the segmentation of vessel lumen in CTA cross-sections.

This work deals with the segmentation of the arterial lumen in cross-sections of CT angiography (CTA) images, by means of active contours. Within the context of the fast-marching method, a new speed-control function is proposed in order to cope with strongly variable contrasts along the perimeter of the contour. This function was devised to guarantee the existence of a time T at which the fast-marching front fits the actual boundary of the vessel lumen, despite calcifications and other neighboring structures.

A stochastic continuation approach to piecewise constant reconstruction.

We address the problem of reconstructing a piecewise constant 3-D object from a few noisy 2-D line-integral projections. More generally, the theory developed here readily applies to the recovery of an ideal n-D signal (n > or =1) from indirect measurements corrupted by noise. Stabilization of this ill-conditioned inverse problem is achieved with the Potts prior model, which leads to a challenging optimization task.

MRI intensity nonuniformity correction using simultaneously spatial and gray-level histogram information.

A novel approach for correcting intensity nonuniformity in magnetic resonance imaging (MRI) is presented. This approach is based on the simultaneous use of spatial and gray-level histogram information. Spatial information about intensity nonuniformity is obtained using cubic B-spline smoothing.