Automatic segmentation of peripheral arteries and veins in ferumoxytol-enhanced MR angiography.

PURPOSE: To automate the segmentation of the peripheral arteries and veins in the lower extremities based on ferumoxytol-enhanced MR angiography (FE-MRA). METHODS: Our automated pipeline has 2 sequential stages. In the first stage, we used a 3D U-Net with local attention gates, which was trained based on a combination of the Focal Tversky loss with region mutual loss under a deep supervision mechanism to segment the vasculature from the high-resolution FE-MRA datasets. In the second stage, we used time-resolved images to separate the arteries from the veins. Because the ultimate segmentation quality of the arteries and veins relies on the performance of the first stage, we thoroughly evaluated the different aspects of the segmentation network and compared its performance in blood vessel segmentation with currently accepted state-of-the-art networks, including Volumetric-Net, DeepVesselNet-FCN, and Uception. RESULTS: We achieved a competitive F1 = 0.8087 and recall = 0.8410 for blood vessel segmentation compared with F1 = (0.7604, 0.7573, 0.7651) and recall = (0.7791, 0.7570, 0.7774) obtained with Volumetric-Net, DeepVesselNet-FCN, and Uception. For the artery and vein separation stage, we achieved F1 = (0.8274/0.7863) in the calf region, which is the most challenging region in peripheral arteries and veins segmentation. CONCLUSION: Our pipeline is capable of fully automatic vessel segmentation based on FE-MRA without need for human interaction in <4 min. This method improves upon manual segmentation by radiologists, which routinely takes several hours.

Slice encoding for the reduction of outflow signal artifacts in cine balanced SSFP imaging.

PURPOSE: Standard balanced SSFP (bSSFP) cine MRI often suffers from blood outflow artifacts. We propose a method that spatially encodes these outflowing spins to reduce their effects in the intended slice. METHODS: Bloch simulations were performed to characterize through-plane flow and to investigate how the use of phase encoding along the slice select's direction ("slice encoding") could alleviate its issues. Phantom scans and in vivo cines were acquired on a 3T system, comparing the standard 2D acquisition to the proposed slice-encoding method. Nineteen healthy volunteers were recruited for short-axis and horizontal long-axis oriented scans. An expert radiologist evaluated each slice-encoded/standard cine pairs in a rank comparison test and graded their quality on a 1-5 scale. The grades were used for a nonparametric paired evaluation for independent samples with a null hypothesis that there was no statistical difference between the two quality-grade distributions for α = 0.05 significance. RESULTS: Bloch simulation results demonstrated this technique's feasibility, showing a fully resolved slice profile given a sufficient number of slice encodes. These results were confirmed with the phantom experiments. Each in vivo slice-encoded cine had a higher quality than its corresponding standard acquisition. The nonparametric paired evaluation came to 0.01 significance, encouraging us to reject the null hypothesis and conclude that slice-encoding effectively works in reducing outflow effects. CONCLUSION: The slice-encoding balanced SSFP technique is helpful in mitigating outflow effects and is achievable within a single breath hold, being a useful alternative for cases in which the flow artifacts are significant.

Minimizing echo and repetition times in magnetic resonance imaging using a double half-echo k-space acquisition and low-rank reconstruction.

Sampling k-space asymmetrically (ie, partial Fourier sampling) in the readout direction is a common way to reduce the echo time (TE) during magnetic resonance image acquisitions. This technique requires overlap around the center of k-space to provide a calibration region for reconstruction, which limits the minimum fractional echo to ~60% before artifacts are observed. The present study describes a method for reconstructing images from exact half echoes using two separate acquisitions with reversed readout polarity, effectively providing a full line of k-space without additional data around central k-space. This approach can benefit sequences or applications that prioritize short TE, short inter-echo spacing or short repetition time. An example of the latter is demonstrated to reduce banding artifacts in balanced steady-state free precession.

Retrospective respiratory motion correction in cardiac cine MRI reconstruction using adversarial autoencoder and unsupervised learning.

The aim of this study was to develop a deep neural network for respiratory motion compensation in free-breathing cine MRI and evaluate its performance. An adversarial autoencoder network was trained using unpaired training data from healthy volunteers and patients who underwent clinically indicated cardiac MRI examinations. A U-net structure was used for the encoder and decoder parts of the network and the code space was regularized by an adversarial objective. The autoencoder learns the identity map for the free-breathing motion-corrupted images and preserves the structural content of the images, while the discriminator, which interacts with the output of the encoder, forces the encoder to remove motion artifacts. The network was first evaluated based on data that were artificially corrupted with simulated rigid motion with regard to motion-correction accuracy and the presence of any artificially created structures. Subsequently, to demonstrate the feasibility of the proposed approach in vivo, our network was trained on respiratory motion-corrupted images in an unpaired manner and was tested on volunteer and patient data. In the simulation study, mean structural similarity index scores for the synthesized motion-corrupted images and motion-corrected images were 0.76 and 0.93 (out of 1), respectively. The proposed method increased the Tenengrad focus measure of the motion-corrupted images by 12% in the simulation study and by 7% in the in vivo study. The average overall subjective image quality scores for the motion-corrupted images, motion-corrected images and breath-held images were 2.5, 3.5 and 4.1 (out of 5.0), respectively. Nonparametric-paired comparisons showed that there was significant difference between the image quality scores of the motion-corrupted and breath-held images (P < .05); however, after correction there was no significant difference between the image quality scores of the motion-corrected and breath-held images. This feasibility study demonstrates the potential of an adversarial autoencoder network for correcting respiratory motion-related image artifacts without requiring paired data.

Accelerated phase contrast MRI using hybrid one- and two-sided flow encodings only (HOTFEO).

The aim of this work was to develop and evaluate a fast phase contrast magnetic resonance imaging (PC-MRI) technique with hybrid one- and two-sided flow encodings only (HOTFEO) for accurate blood flow and velocity measurements of three-directional velocity encoding PC-MRI. Four-dimensional (4D) PC-MRI acquires flow-compensated (FC) and three-directional flow-encoded (FE) echoes in an interleaved fashion. We hypothesize that the blood flow velocity direction (not magnitude) has minimal change between two consecutive cardiac phases. This assumption provides a velocity direction constraint that can achieve 4/3-fold acceleration using three-directional FE data to calculate FC data instead of acquiring them. The HOTFEO acquisition pattern can address the ill-conditioned constraint and improve the calculation accuracy. HOTFEO was evaluated in healthy volunteers and compared with conventional two-dimensional (2D) and 4D flow imaging techniques with FC and three-directional FE acquisitions (FC/3FE). Compared with FC/3FE, Bland-Altman tests showed that the 4/3-fold accelerated HOTFEO technique resulted in relatively small bias error for total volumetric flow (0.89% for prospective 2D data, -1.19% for retrospective 4D data and -3.40% for prospective 4D data) and maximum peak velocity (0.50% for prospective 2D data, -0.17% for retrospective 4D data and -2.00% for prospective 4D data) measurements in common carotid arteries. HOTFEO can accelerate three-directional velocity encoding PC-MRI whilst maintaining the measurement accuracy of the total volumetric flow and maximum peak velocity.

Arterial spin labeling magnetic resonance imaging quantifies tissue perfusion around foot ulcers.

Objective: Tools that quantify tissue perfusion of the foot are deficient, contributing to the uncertainty in predicting ulcer healing potential. This pilot study aims to quantify peri-wound foot perfusion at various tissue depths using a novel application of pseudo-continuous arterial spin labeling magnetic resonance imaging. Methods: Ten diabetic patients with neuropathic wounds and 20 healthy volunteers without wounds were recruited. Wounds were graded according to the Wound, Ischemia, Foot Infection (WIfI) system. All subjects underwent a noncontrasted ASL MRI of the foot for perfusion measurements. For healthy volunteers, perfusion was compared at rest and during sustained toe flexion between four regions: lateral plantar, medial plantar, lateral calcaneal, and medial calcaneal. Evaluations of diabetic volunteers compared perfusion between four zones: wound, near border, far border, and remote. Remote zone perfusion in diabetics was compared with perfusion in the plantar foot of healthy volunteers. Results: There were 11 wounds, which were located over the metatarsal heads in five, the stump of a transmetatarsal amputation in three, the heel in two, and the mid foot in one. The median WIfI stage was 2. One patient had a WIfI ischemia grade of 1; the remaining patients' grades were 0. The mean ankle-brachial index was 1.0 ± 0.3. There were two patients with a WIfI foot infection grade of 1; the remaining patients' grades were 0. In healthy volunteers, plantar foot perfusion with sustained toe flexion was 43.9 ± 1.7 mL/100g/min and significantly higher than perfusion at rest (27.3 ± 2.7 mL/100g/min; P < .001). In diabetic patients, perfusion at the wound, near border, far border, and remote regions was 96.1 ± 10.7, 92.7 ± 9.4, 73.4 ± 8.2, and 62.8 ± 2.7 mL/100g/min. Although this perfusion pattern persisted throughout the depth of the wound, perfusion decreased with tissue depth. In the near border, perfusion at 20% of the wound depth was 124.0 ± 35.6 mL/100g/min and 69.9 ± 10.1 mL/100g/min at 100% (P = .006). Lastly, remote perfusion in diabetics was 2.3 times the plantar perfusion in healthy volunteers (27.3 ± 2.7 mL/100g/min; P < .001). Conclusions: The pattern of resting tissue perfusion around nonischemic diabetic foot ulcers was successfully quantified with arterial spin labeling magnetic resonance imaging. Diabetic patients with wounds were hyperemic compared with healthy volunteers. There was a 1.5-fold increase in peri-wound tissue perfusion relative to the rest of the foot. This study is the first step in developing a tool to assess the perfusion deficit in ischemic wounds.

Low rank off-resonance correction for double half-echo k-space acquisitions.

The present study describes a model-based approach for correcting off-resonance in the context of double half-echo k-space acquisitions. This technique employs center-out readouts in forward and reverse directions to reduce echo-times but is sensitive to off-resonance, which manifests as pixel shifts in both directions. Demodulating the k-space signal with a constant off-resonance term per slice removes pixel shifts and results in a marked reduction in blurring. Phantom and in vivo datasets are demonstrated from low bandwidth sodium imaging.

A study of 3D radial density adapted trajectories for sodium imaging.

Sodium imaging typically employs ultrashort echo time radial, density adapted and cones trajectories to capture the rapidly decaying short T2 signal. The present study considers the parameter choices involved in the use of these trajectories in terms of their impact on the resolution and signal to noise ratio. Many parameters have a strong effect on these image properties, particularly the number of spokes which impacts voxel size. The present article develops an understanding of the trade-offs involved and how to choose optimal (or at least reasonable) parameter values. This has a practical role in designing clinical protocols for imaging sodium.

In Vitro Modeling of Human Brain Arteriovenous Malformation for Endovascular Simulation and Flow Analysis.

BACKGROUND: Current in vitro models for human brain arteriovenous malformation (AVM) analyzing the efficacy of embolic materials or flow conditions are limited by a lack of realistic anatomic features of complex AVM nidus. The purpose of this study was to evaluate a newly developed in vitro AVM model for embolic material testing, preclinical training, and flow analysis. METHODS: Three-dimensional (3D) images of the AVM nidus were extracted from 3D rotational angiography from a patient. Inner vascular mold was printed using a 3D printer, coated with polydimethylsiloxanes, and then was removed by acetone, leaving a hollow AVM model. Injections of liquid embolic material and 4-dimensional (4D) flow magnetic resonance imaging (MRI) were performed using the AVM models. Additionally, computational fluid dynamics analysis was performed to examine the flow volume rate as compared with 4D flow MRI. RESULTS: The manufacture of 3D in vitro AVM models delivers a realistic representation of human nidus vasculature and complexity derived from patients. The injection of liquid embolic agents performed in the in vitro model successfully replicated real-life treatment conditions. The model simulated the plug and push technique before penetration of the liquid embolic material into the AVM nidus. The 4D flow MRI results were comparable to computational fluid dynamics analysis. CONCLUSIONS: An in vitro human brain AVM model with realistic geometric complexities of nidus was successfully created using 3D printing technology. This AVM model offers a useful tool for training of embolization techniques and analysis of hemodynamics analysis, and development of new devices and materials.