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Register a new userDiffusion MRI microstructure models with in vivo human brain Connectom data: results from a multi-group comparison
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A large number of mathematical models have been proposed to describe the measured signal in diffusion-weighted (DW) magnetic resonance imaging (MRI) and infer properties about the white matter microstructure. However, a head-to-head comparison of DW-MRI models is critically missing in the field. To address this deficiency, we organized the White Matter Modeling Challenge during the International Symposium on Biomedical Imaging (ISBI) 2015 conference. This competition aimed at identifying the DW-MRI models that best predict unseen DW data. in vivo DW-MRI data was acquired on the Connectom scanner at the A.A.Martinos Center (Massachusetts General Hospital) using gradients strength of up to 300 mT/m and a broad set of diffusion times. We focused on assessing the DW signal prediction in two regions: the genu in the corpus callosum, where the fibres are relatively straight and parallel, and the fornix, where the configuration of fibres is more complex. The challenge participants had access to three-quarters of the whole dataset, and their models were ranked on their ability to predict the remaining unseen quarter of data. In this paper we provide both an overview and a more in-depth description of each evaluated model, report the challenge results, and infer trends about the model characteristics that were associated with high model ranking. This work provides a much needed benchmark for DW-MRI models. The acquired data and model details for signal prediction evaluation are provided online to encourage a larger scale assessment of diffusion models in the future.
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Purpose: To design a low-cost, portable permanent magnet-based MRI system capable of obtaining in vivo MR images within a reasonable scan time. Methods: A discretized Halbach permanent magnet array with a clear bore diameter of 27 cm was designed for operation at 50 mT. Custom built gradient coils, radiofrequency coil, gradient amplifiers and radiofrequency amplifier were integrated and tested on both phantoms and in vivo. Results: Phantom results showed that the gradient non-linearity in the y- and z-directions was less than 5% over a 15 cm field-of-view and did not need correcting. For the x-direction, it was significantly greater, but could be partially corrected in post-processing. Three dimensional In vivo scans of the brain of a healthy volunteer using a turbo-spin echo sequence were acquired at a spatial resolution of 4x4x4 mm in a time of ~2 mins. T1-weighted and T2-weighted scans showed a good degree of tissue contrast. In addition, in vivo scans of the knee of a healthy volunteer were acquired at a spatial resolution of ~3x2x2 mm within a twelve minutes to show the applicability of the system to extremity imaging. Conclusion: This work has shown that it is possible to construct a low-field MRI unit with hardware components costing less than 10000 euros, which is able to acquire human images in vivo within a reasonable data acquisition time. The system has a high degree of portability with magnet weight ~75 kg, gradient and RF amplifiers each 15 kg, gradient coils 10 kg and spectrometer 5 kg.
A brain wide association study (BWAS) based on the logistic regression was first developed and applied to a large population of epilepsy patients (168) and healthy controls (136). It was found that the most significant links associated with epilepsy are those bilateral links with regions mainly belonging to the default mode network and subcortex, such as amygdala, fusiform gyrus, inferior temporal gyrus, hippocampus, temporal pole, parahippocampal gyrus, insula, middle occipital gyrus, cuneus. These links were found to have much higher odd ratios than other links, and all of them showed reduced functional couplings in patients compared with controls. Interestingly, with the increasing of the seizure onset frequency or duration of illness, the functional connection between these bilateral regions became further reduced. On the other hand, as a functional compensation and brain plasticity, connections of these bilateral regions to other brain regions were abnormally enhanced and became even much stronger with the increase of the seizure onset frequency. Furthermore, patients had higher network efficiencies than healthy controls, and the seizure onset frequency was found to be positively correlated with the network efficiency. A negative correlation between the bilateral connection and the network efficiency was also observed. To further validate our findings, we then employed our BWAS results in discriminating patients from healthy controls and the leave-one-out accuracy was around 78%. Given the fact that a genome-wide association study with a large cohort has failed to identify any significant association between genes and epilepsy, our study could provide us with a set of endophenotypes for further study.
Cross-term spatiotemporal encoding (xSPEN) is a recently introduced imaging approach delivering single-scan 2D NMR images with unprecedented resilience to field inhomogeneities. The method relies on performing a pre-acquisition encoding and a subsequent image read out while using the disturbing frequency inhomogeneities as part of the image formation processes, rather than as artifacts to be overwhelmed by the application of external gradients. This study introduces the use of this new single-shot MRI technique as a diffusion-monitoring tool, for accessing regions that have hitherto been unapproachable by diffusion-weighted imaging (DWI) methods. In order to achieve this, xSPEN MRIs intrinsic diffusion weighting effects are formulated using a customized, spatially-localized b-matrix analysis; with this, we devise a novel diffusion-weighting scheme that both exploits and overcomes xSPENs strong intrinsic weighting effects. The ability to provide reliable and robust diffusion maps in challenging head and brain regions, including the eyes and the optic nerves, is thus demonstrated in humans at 3T; new avenues for imaging other body regions are also briefly discussed.
The design of a loop-gap-resonator RF coil optimized for ex vivo mouse brain microscopy at ultra high fields is described and its properties characterized using simulations, phantoms and experimental scans of mouse brains fixed in 10% formalin containing 4 mM Magnevist. The RF (B1) and magnetic field (B0) homogeneities are experimentally quantified and compared to electromagnetic simulations of the coil. The coils performance is also compared to a similarly sized surface coil and found to yield double the sensitivity. A three-dimensional gradient-echo (GRE) sequence is used to acquire high resolution mouse brain scans at 47 {mu}m3 resolution in 1.8 hours and a 20x20x19 {mu}m3 resolution in 27 hours. The high resolution obtained permitted clear visualization and identification of multiple structures in the ex vivo mouse brain and represents, to our knowledge, the highest resolution ever achieved for a whole mouse brain. Importantly, the coil design is simple and easy to construct.
Atmospheric pressure plasma jets (APPJ) are investigated as an efficient approach to induce antitumor effects of cancerous tissues without inducing any damage (e.g. dessication, burnings). For this, a two-steps methodology has been developed where first APPJ are calibrated and characterized on targets mimicking electrical properties of living organisms (mice, human body) and second where they are applied on murine models to demonstrate their innocuity and therapeutic efficiency.
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