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Purpose To design a new deep learning network for fast and accurate water-fat separation by exploring the correlations between multiple echoes in multi-echo gradient-recalled echo (mGRE) sequence and evaluate the generalization capabilities of the network for different echo times, field inhomogeneities, and imaging regions. Methods A new multi-echo bidirectional convolutional residual network (MEBCRN) was designed to separate water and fat images in a fast and accurate manner for the mGRE data. This new MEBCRN network contains 2 main modules, the first 1 is the feature extraction module, which learns the correlations between consecutive echoes, and the other one is the water-fat separation module that processes the feature information extracted from the feature extraction module. The multi-layer feature fusion (MLFF) mechanism and residual structure were adopted in the water-fat separation module to increase separation accuracy and robustness. Moreover, we trained the network using in vivo abdomen images and tested it on the abdomen, knee, and wrist images. Results The results showed that the proposed network could separate water and fat images accurately. The comparison of the proposed network and other deep learning methods shows the advantage in both quantitative metrics and robustness for different TEs, field inhomogeneities, and images acquired for various imaging regions. Conclusion The proposed network could learn the correlations between consecutive echoes and separate water and fat images effectively. The deep learning method has certain generalization capabilities for TEs and field inhomogeneity. Although the network was trained only in vivo abdomen images, it could be applied for different imaging regions.

Purpose To develop a postprocessing algorithm for multiecho chemical-shift encoded water–fat separation that estimates proton density fat fraction (PDFF) maps over the full dynamic range (0-100%) using multipeak fat modeling and multipoint search optimization. To assess its accuracy, reproducibility, and agreement with state-of-the-art complex-based methods, and to evaluate its robustness to artefacts in abdominal PDFF maps. Methods We introduce MAGO (MAGnitude-Only), a magnitude-based reconstruction that embodies multipeak liver fat spectral modeling and multipoint optimization, and which is compatible with asymmetric echo acquisitions. MAGO is assessed first for accuracy and reproducibility on publicly available phantom data. Then, MAGO is applied to N = 178 UK Biobank cases, in which its liver PDFF measures are compared using Bland-Altman analysis with those from a version of the hybrid iterative decomposition of water and fat with echo asymmetry and least squares estimation (IDEAL) algorithm, LiverMultiScan IDEAL (LMS IDEAL, Perspectum Diagnostics Ltd, Oxford, UK). Finally, MAGO is tested on a succession of high field challenging cases for which LMS IDEAL generated artefacts in the PDFF maps. Results Phantom data showed accurate, reproducible MAGO PDFF values across manufacturers, field strengths, and acquisition protocols. Moreover, we report excellent agreement between MAGO and LMS IDEAL for 6-echo, 1.5 tesla human acquisitions (bias = −0.02% PDFF, 95% confidence interval = ±0.13% PDFF). When tested on 12-echo, 3 tesla cases from different manufacturers, MAGO was shown to be more robust to artefacts compared to LMS IDEAL. Conclusion MAGO resolves the water–fat ambiguity over the entire fat fraction dynamic range without compromising accuracy, therefore enabling robust PDFF estimation where phase data is inaccessible or unreliable and complex-based and hybrid methods fail.

Purpose To develop a method based on fat-water transition region extraction (TREE) for robust fat-water separation and quantification in challenging scenarios, including low signal-to-noise ratio (SNR), fast changing B0 field, and disjointed anatomies. Theory and methods In TREE method, the phasor solutions of each pixel were categorized into fat-dominant and water-dominant groups. The fat-water transition region was then extracted by detecting sudden changes in the phasor maps. The phasor solutions of the pixels in the transition region were solved by choosing the smoothest phasor combinations. For the remaining subregions, the phasor solution was then determined by all the surrounding transition region pixels. The proposed method was validated using various datasets, including some from the International Society for Magnetic Resonance in Medicine (ISMRM) 2012 Challenge. Results Quantitative score of proposed method (9936.8 of 10,000) is comparable to the winner (9951.9) of ISMRM 2012 Challenge. The total processing time was 179.3 s for 15 datasets. Sagittal spine data with ~400 mm field of view in head-foot direction were used to compare TREE with several representative region-growing methods. Results showed that the proposed method was robust under fast changing B0 field, disjointed anatomies and low SNR area. No apparent fat-water swap was observed in the low SNR (SNR ~ 10) dataset. Accurate proton density fat fraction results were also produced from the proposed method. Conclusion A method based on fat-water transition region extraction was proposed for robust water-fat separation and fat fraction quantification. The method worked well in spatially disjointed objects, fast changing B0 field, and low SNR application.

PURPOSE To investigate the effect of the range of TE on multi-echo gradient echo-based myelin water fraction (MWF) mapping at 3 T. METHODS Myelin water fraction estimation was performed using 3 widely used models: magnitude multipool, magnitude 3-pool, and complex 3-pool model. Simulations were conducted using a hollow cylinder model with susceptibility anisotropy. The TE range was varied, and its effect on MWF estimation was observed. The same analysis was also performed with in vivo data from 4 healthy volunteers. RESULTS Different MWFs were obtained depending on the range of TE data acquired. In the simulations, the results of both magnitude models had a bias with respect to the true values: a maximum bias of up to 20% for the multipool model, and a maximum bias of up to 8% for the 3-pool model. This bias was reduced using the complex 3-pool model (maximum bias was under 2%). These effects were also found in the in vivo data. The MWF values using the complex model was most stable with respect to the TE range. CONCLUSION The results of the simulation and in vivo data suggest that MWF values fitted using magnitude models are more influenced by the TE range collected for fitting than using the complex model. The complex model is helpful in mitigating bias due to dependencies over the TE range selection.

PURPOSE: To develop a whole-body MRI technique at 3T with improved lesion conspicuity for metastatic cancer detection using fast, high-resolution and high signal-to-noise ratio T2-weighted (T2W) imaging with simultaneous fat and fluid suppression. THEORY AND METHODS: The proposed Dual-Echo T2-weighted acquisition for Enhanced Conspicuity of Tumors (DETECT) acquires four images, in-phase (IP) and out-of-phase (OP) at a short and a long echo time (TE) using single-shot turbo spin echo. The IP/OP images at the short and long TEs are reconstructed using the standard Dixon and shared-field-map Dixon reconstruction respectively, for robust fat/water separation. An adaptive complex subtraction between the two TE water-only images achieves fluid attenuation. DETECT imaging was optimized and evaluated in whole-body imaging of five healthy volunteers, and compared against diffusion-weighted imaging with background suppression (DWIBS) in five patients with known metastatic renal cell carcinoma. RESULTS: Robust fat/water separation and fluid attenuation were achieved using the shared-field-map Dixon reconstruction and adaptive complex subtraction, respectively. DETECT imaging technique generated co-registered T2W images with and without fat suppression, heavily T2W, and fat and fluid suppressed T2W whole-body images in less than 7 minutes. Compared to DWIBS acquired in 17 minutes, the DETECT imaging achieved better detection and localization of lesions in patients with metastatic cancer. CONCLUSION: DETECT imaging technique generates T2W images with high resolution, high SNR, minimal geometric distortions, and provides good lesion conspicuity with robust fat and fluid suppression in less than 7 minutes for whole-body imaging, demonstrating efficient and reliable metastatic cancer detection at 3T.

PURPOSE: Human Osteoarthritic (OA) articular cartilage was investigated with spatially resolved pulsed gradient stimulated echo (PGStE) nuclear magnetic resonance (NMR) using strong gradients. In this study, the diffusivity of fluid and biopolymer was characterized as a function of depth within human OA cartilage cores. METHODS: One dimensional (1D) spatially resolved diffusion profiles were measured for human OA cartilage using a standard pulsed gradient stimulated echo (PGStE) sequence with the addition of a read imaging gradient. Low gradient values (0.05 to 1.5 Tm(−1)) were used to measure fluid motion and high gradients (2.50 to 17.81 Tm(−1)) enabled analysis of biopolymer motion. Structural damage to cartilage was simulated using either salt or collagenase. RESULTS: This data demonstrates that fluid diffusion is sensitive to salt treatment and collagenase digestion, while biopolymer diffusion is sensitive only to collagenase digestion. Biopolymer and fluid diffusion are donor specific for human OA cartilage samples. CONCLUSION: This data supports that fluid diffusion is sensitive to the structure of cartilage while biopolymer diffusion is sensitive to the molecular weight of the biopolymers. The results show that diffusion of fluid and biopolymers in articular cartilage are sensitive to OA and provide complimentary information.

Purpose To improve the graph model of our previous work GOOSE for fat-water decomposition with higher computational efficiency and quantitative accuracy. Methods A modification of the GOOSE fat water decomposition algorithm is introduced while the global convergence guarantees of GOOSE are still inherited to minimize fat-water swaps and phase wraps. In this paper, two non-equidistant graph optimization frameworks are proposed as a single-step framework termed as rapid GOOSE (R-GOOSE), and a multi-step framework termed as multi-scale R-GOOSE (mR-GOOSE). Both frameworks contain considerably less graph connectivity than GOOSE, resulting in a great computation reduction thus making it readily applicable to multidimensional fat water applications. The quantitative accuracy and computational time of the novel frameworks are compared with GOOSE on the 2012 ISMRM Challenge datasets to demonstrate the improvement in performance. Results Both frameworks accomplish the same level of high accuracy as GOOSE among all datasets. Compared to 100 layers in GOOSE, only 8 layers were used in the new graph model. Computational time is lowered by an order of magnitude to around 5 s for each dataset in (mR-GOOSE), R-GOOSE achieves an average run-time of 8 s. Conclusion The proposed method provides fat-water decomposition results with a lower run-time and higher accuracy compared to the previously proposed GOOSE algorithm. Magn Reson Med 79:2401-2407, 2018. © 2017 International Society for Magnetic Resonance in Medicine.

PURPOSE To provide insight into the effect of water T1 relaxation (T1wat ) on amide proton transfer (APT) contrast in tumors. Three different metrics of APT contrast-magnetization transfer ratio (MTRRex ), relaxation-compensated MTRRex (AREX), and traditional asymmetry (MTRasym )-were compared in normal and tumor tissues in a variety of intracranial tumors at 7 Tesla (T). METHODS Six consented intracranial tumor patients were scanned using a low-power, three-dimensional (3D) APT imaging sequence. MTRRex and MTRasym were calculated in the region of 3 to 4 ppm. AREX was calculated by T1wat correction of MTRRex . Tumor tissue masks, which classify different tumor tissues, were drawn by an experienced neuroradiologist. ROI-averaged tumor tissue analysis was done for MTRRex , AREX, and MTRasym . RESULTS MTRRex and MTRasym were slightly elevated in tumor-associated structures. Both metrics were positively correlated to T1wat . The correlation coefficient (R) was determined to be 0.88 (P < 0.05) and 0.92 (P << 0.05) for MTRRex and MTRasym , respectively. After T1wat correction (R = -0.21, P = 0.69), no difference between normal and tumor tissues was found for AREX. CONCLUSIONS The strong correlation of MTRRex and MTRasym with T1wat and the absence thereof in AREX suggests that much of APT contrast in tumors for the low-power, 3D-acquisition scheme at 7 T originates from the inherent tissue water T1 -relaxation properties. Magn Reson Med 77:1525-1532, 2017. © 2016 International Society for Magnetic Resonance in Medicine.

Purpose To improve signal-to-noise ratio (SNR) for high-resolution spectroscopic imaging using a subspace-based technique known as SPectroscopic Imaging by exploiting spatiospectral CorrElation (SPICE). Methods The proposed method is based on a union-of-subspaces model of MRSI signals, which exploits the partial separability properties of water, lipid, baseline and metabolite signals. Enabled by this model, a special scheme is used for accelerated data acquisition, which includes a double-echo CSI component used to collect a “training” dataset (for determination of the basis functions) and a short-TE EPSI component used to collect a sparse “imaging” dataset (for determination of the overall spatiospectral distributions). A set of signal processing algorithms are developed to remove the water and lipid signals and jointly reconstruct the metabolite and baseline signals. Results In vivo 1H-MRSI results show that the proposed method can effectively remove the remaining water and lipid signals from sparse MRSI data acquired at 20 ms TE. Spatiospectral distributions of metabolite signals at 2 mm in-plane resolution with good SNR were obtained in a 15.5 min scan. Conclusions The proposed method can effectively remove nuisance signals and reconstruct high-resolution spatiospectral functions from sparse data to make short-TE SPICE possible. The method should prove useful for high-resolution 1H-MRSI of the brain. Magn Reson Med 77:467–479, 2017. © 2016 International Society for Magnetic Resonance in Medicine

PURPOSE To accurately separate water and fat signals for bipolar multi-echo gradient-recalled echo sequence using a convolutional neural network (CNN). METHODS A CNN architecture was designed and trained using the relationship between multi-echo images from the bipolar multi-echo gradient-recalled echo sequence and artifact-free water-fat-separated images. The artifact-free water-fat-separated images for training the CNN were obtained from multiple signals with different TEs by using iterative decomposition of water and fat with echo asymmetry and the least-squares estimation method, in which multiple signals at different TEs were acquired using a single-echo gradient-recalled echo sequence. We also proposed a data augmentation method using a synthetic field inhomogeneity to generate multi-echo signals, including various bipolar multi-echo gradient-recalled echo artifacts so that the CNN could prevent overfitting and increase the separation accuracy. We trained the CNN using in vivo knee images and tested it using in vivo knee, head, and ankle images. RESULTS In vivo imaging results showed that the proposed CNN could separate water-fat images accurately. Although the proposed CNN was trained using only in vivo knee images, the proposed CNN could also separate water-fat images of different imaging regions. The proposed data augmentation method could prevent overfitting even with a limited number of training data sets and make the method robust to magnetic field inhomogeneities. CONCLUSION The proposed CNN could obtain water-fat-separated images from the multi-echo images acquired from the bipolar multi-echo gradient-recalled echo sequence, which included artifacts from the bipolar gradients.

Purpose To propose and evaluate a model for the blood water T1 that takes into account the effects of hematocrit fraction, oxygenation fraction, erythrocyte hemoglobin concentration, methemoglobin fraction, and plasma albumin concentration. Methods Whole blood and lysed blood T1 data were acquired at magnetic fields of 3 Tesla (T), 7T, 9.4T, and 11.7T using inversion-recovery measurements and a home-built blood circulation system for maintaining physiological conditions. A quantitative model was derived based on multivariable fitting of this data. Results Fitting of the model to the data allowed determination of the different parameters describing the blood water T1 such as those for the diamagnetic and paramagnetic effects of albumin and hemoglobin, and the contribution of methemoglobin. The model correctly predicts blood T1 at multiple fields, as verified by comparison with existing literature. Conclusion The model provides physical and physiological parameters describing the effects of hematocrit fraction, oxygenation, hemoglobin concentration, methemoglobin fraction, and albumin concentration on blood water T1. It can be used to predict blood T1 at multiple fields. Magn Reson Med, 2015. © 2015 Wiley Periodicals, Inc.

Purpose To propose a novel combination of robust Dixon fat suppression and motion insensitive PROPELLER (periodically rotated overlapping parallel lines with enhanced reconstruction) MRI. Methods Two different echoes were acquired interleaved in each shot enabling water-fat separation on individual blades. Fat, which was blurred in standard PROPELLER because the water-fat shift (WFS) rotated with the blades, was shifted back in each blade. Additionally, field maps obtained from the water-fat separation were used to unwarp off-resonance–induced shifts in each blade. PROPELLER was then applied to the water, corrected fat, or recombined water-fat blades. This approach was compared quantitatively in volunteers with regard to motion estimation and signal-to-noise ratio (SNR) to a standard PROPELLER acquisition with minimal WFS and fat suppression. Results Shifting the fat back in each blade reduced errors in the translation correction. SNR in the proposed Dixon PROPELLER was 21% higher compared with standard PROPELLER with identical scan time. High image quality was achieved even when the volunteers were moving during data acquisition. Furthermore, sharp water-fat borders and image details were seen in areas where standard PROPELLER suffered from blurring when acquired with a low readout bandwidth. Conclusion The proposed method enables motion-insensitive PROPELLER MRI with robust fat suppression and reduced blurring. Additionally, fat images are available if desired. Magn Reson Med, 2015. © 2015 Wiley Periodicals, Inc.

Purpose To remove nuisance signals (e.g., water and lipid signals) for 1H MRSI data collected from the brain with limited and/or sparse (k, t)-space coverage. Methods A union-of-subspace model is proposed for removing nuisance signals. The model exploits the partial separability of both the nuisance signals and the metabolite signal, and decomposes an MRSI dataset into several sets of generalized voxels that share the same spectral distributions. This model enables the estimation of the nuisance signals from an MRSI dataset that has limited and/or sparse (k, t)-space coverage. Results The proposed method has been evaluated using in vivo MRSI data. For conventional chemical shift imaging data with limited k-space coverage, the proposed method produced “lipid-free” spectra without lipid suppression during data acquisition at 130 ms echo time. For sparse (k, t)-space data acquired with conventional pulses for water and lipid suppression, the proposed method was also able to remove the remaining water and lipid signals with negligible residuals. Conclusion Nuisance signals in 1H MRSI data reside in low-dimensional subspaces. This property can be utilized for estimation and removal of nuisance signals from 1H MRSI data even when they have limited and/or sparse coverage of (k, t)-space. The proposed method should prove useful especially for accelerated high-resolution 1H MRSI of the brain. Magn Reson Med, 2015. © 2015 Wiley Periodicals, Inc.

MRI of cortical bone has the potential to offer new information about fracture risk. Current methods are typically performed with 3D acquisitions, which suffer from long scan times and are generally limited to extremities. This work proposes using 2D UTE with half pulses for quantitatively mapping bound and pore water in cortical bone.Half-pulse 2D UTE methods were implemented on a 3T Philips Achieva scanner using an optimized slice-select gradient waveform, with preparation pulses to selectively image bound or pore water. The 2D methods were quantitatively compared with previously implemented 3D methods in the tibia in five volunteers.The mean difference between bound and pore water concentration acquired from 3D and 2D sequences was 0.6 and 0.9 molQuantitative bound and pore water concentration mapping in cortical bone can be accelerated by 2 orders of magnitude using 2D protocols with optimized half-pulse excitation. Magn Reson Med 77:945-950, 2017. © 2017 International Society for Magnetic Resonance in Medicine.

Water homeostasis and transport play important roles in brain function (e.g., ion homeostasis, neuronal excitability, cell volume regulation, etc.). However, specific mechanisms of water transport across cell membranes in neuronal tissue have not been completely elaborated.The kinetics of transcytolemmal water exchange were measured in neuronal tissue using simultaneous, real-time fluorescence and nuclear magnetic resonance (NMR) measurements of perfused, active brain organotypic cortical cultures. Perfusion with a paramagnetic MRI contrast agent, gadoteridol, allows NMR determination of the unidirectional rate constant for steady-state cellular water efflux (kThe kThese results suggest that transcytolemmal water exchange in neuronal tissue involves mechanisms affected by NKA activity as well as passive pathways. The active pathway may account for half of the basal homeostatic water flux. Magn Reson Med 79:3207-3217, 2018. © 2017 International Society for Magnetic Resonance in Medicine.

Most previous approaches to spiral Dixon water-fat imaging perform the water-fat separation and deblurring sequentially based on the assumption that the phase accumulation and blurring as a result of off-resonance are separable. This condition can easily be violated in regions where the BThe proposed approach is based on a more accurate signal model that takes into account the phase accumulation and blurring simultaneously. A conjugate gradient method is used in the image domain to reconstruct the deblurred water and fat iteratively. Spatially varying convolutions with a local convergence criterion are used to reduce the computational demand.Both simulation and high-resolution brain imaging have demonstrated that the proposed joint method consistently improves the quality of reconstructed water and fat images compared with the sequential approach, especially in regions where the field inhomogeneity changes rapidly in space. The loss of signal-to-noise-ratio as a result of deblurring is minor at optimal echo times.High-quality water-fat spiral imaging can be achieved with the proposed joint approach, provided that an accurate field map of B

Purpose Diffusion magnetic resonance imaging (MRI) microstructure imaging provides a unique noninvasive probe into tissue microstructure. The technique relies on biophysically motivated mathematical models, relating microscopic tissue features to the magnetic resonance (MR) signal. This work aims to determine which compartment models of diffusion MRI are best at describing measurements from in vivo human brain white matter. Methods Recent work shows that three compartment models, designed to capture intra-axonal, extracellular, and isotropically restricted diffusion, best explain multi-b-value data sets from fixed rat corpus callosum. We extend this investigation to in vivo by using a live human subject on a clinical scanner. The analysis compares models of one, two, and three compartments and ranks their ability to explain the measured data. We enhance the original methodology to further evaluate the stability of the ranking. Results As with fixed tissue, three compartment models explain the data best. However, a clearer hierarchical structure and simpler models emerge. We also find that splitting the scanning into shorter sessions has little effect on the ranking of models, and that the results are broadly reproducible across sessions. Conclusion Three compartments are required to explain diffusion MR measurements from in vivo corpus callosum, which informs the choice of model for microstructure imaging applications in the brain. Magn Reson Med 72:1785–1792, 2014. © 2013 The authors. Magnetic Resonance in Medicine Published by Wiley Periodicals, Inc. on behalf of International Society of Medicine in Resonance.

Purpose The aim of this study was to assess the uncertainty in estimation of MR tracer kinetic parameters and water exchange rates in T1-weighted dynamic contrast enhanced (DCE) MRI. Methods Simulated DCE-MRI data were used to assess four kinetic models; general kinetic model with a vascular compartment (GKM2), GKM2 combined with water exchange (SSM2), adiabatic approximation of the tissue homogeneity model (ATH), and ATH combined with water exchange (ATHX). Results In GKM2 and SSM2, increase in transfer constant (Ktrans) led to underestimation of vascular volume fraction (vb), and increase in vb led to overestimation of Ktrans. Such coupling between Ktrans and vb was not observed in ATH and ATHX. The precision of estimated intracellular water lifetime (τi) was substantially improved in both SSM2 and ATHX when Ktrans > 0.3 min−1. Ktrans and vb from ATHX model had significantly smaller errors than those from ATH model (P

Purpose To map the intra-to-extracellular water exchange rate constant in rat xenografts using a two-compartment model of relaxation with water exchange and a range of contrast agent concentrations and compare with histology. Methods MDA-MB-231 cells were xenografted into six nude rats. Three bolus injections of gadodiamide were administered. When uptake in the tumor demonstrated a steady-state, T1 data were acquired by spoiled gradient recalled acquisitions at four flip angles. A global fit of data to a two-compartment model incorporating exchange was performed, assuming a distribution volume of 20% of the rat. Results Voxels that did not reach steady-state and were excluded from parametric maps tended to be in large necrotic areas. TUNEL-negative (nonapoptotic) regions tended to have well-defined error bounds, with an average intra-to-extracellular exchange rate constant of 0.6 s−1. Apoptotic regions had higher exchange, but poorly determined upper bounds, with goodness of fit similar to that for a model assuming infinitely fast exchange. A lower bound of >3 s−1 was used to establish voxels where the exchange rate constant was fast despite a large upper bound. Conclusion Water exchange rates were higher in apoptotic regions, but examination of statistical errors was an important step in the mapping process. Magn Reson Med 71:1874–1887, 2014. © 2013 Wiley Periodicals, Inc.

Purpose The purpose of the present study was to test the relative performance of chemical shift-based water-fat imaging in measuring bone marrow fat fraction in the presence of trabecular bone, having as reference standard the single-voxel magnetic resonance spectroscopy (MRS). Methods Six-echo gradient echo imaging and single-voxel MRS measurements were performed on the proximal femur of seven healthy volunteers. The bone marrow fat spectrum was characterized based on the magnitude of measurable fat peaks and an a priori knowledge of the chemical structure of triglycerides, in order to accurately extract the water peak from the overlapping broad fat peaks in MRS. The imaging-based fat fraction results were then compared to the MRS-based results both without and with taking into consideration the presence of short water components in MRS. Results There was a significant underestimation of the fat fraction using the MRS model not accounting for short species with respect to the imaging-based fat fraction. A good equivalency was observed between the fat fraction using the MRS model accounting for short species and the imaging-based fat fraction (R2 = 0.87). Conclusion The consideration of the short water species effect on bone marrow fat quantification is essential when comparing MRS-based and imaging-based fat fraction results. Magn Reson Med 71:1158–1165, 2014. © 2013 Wiley Periodicals, Inc.

Many metabolites in the proton magnetic resonance spectrum undergo magnetization exchange with water such as those in the downfield region (6.0 8.5 ppm) and the upfield peaks of creatine which can be measured to reveal additional information about the molecular environment. In addition these resonances are attenuated by conventional water suppression techniques complicating detection and quantification. To characterize these metabolites in human skeletal muscle in vivo at 3 T metabolite cycled non water suppressed spectroscopy was used to conduct a water inversion transfer experiment in both the soleus and tibialis anterior muscles. Resulting median exchange independent T(1) times for the creatine methylene resonances were 1.26 and 1.15 s and for the methyl resonances were 1.57 and 1.74 s for soleus and tibialis anterior muscles respectively. Magnetization transfer rates from water to the creatine methylene resonances were 0.56 and 0.28 s( 1) and for the methyl resonances were 0.39 and 0.30 s( 1) with the soleus exhibiting faster transfer rates for both resonances allowing speculation about possible influences of either muscle fibre orientation or muscle composition on the magnetization transfer process. These water magnetization transfer rates observed without water suppression are in good agreement with earlier reports that used either postexcitation water suppression in rats or short CHESS sequences in human brain and skeletal muscle. Magn Reson Med 2012. © 2012 Wiley Periodicals Inc.

To develop a compact magnetic resonance elastography (MRE) protocol for abdomen and to investigate the effect of water uptake on tissue stiffness in the liver, spleen, kidney, and pancreas.Nine asymptomatic volunteers were investigated by MRE before and after 1 liter water uptake. Shear-wave excitation at four frequencies was transferred to the abdomen from anterior and posterior directions using pressurized air drivers. Tomographic representations of shear-wave speed were produced by analysis of multifrequency wave numbers in axial and coronal images acquired within four breath-holds or under free breathing, respectively.Pre and post water, stiffness of the spleen (pre/post: 2.20 ± 0.10/2.06 ± 0.18 m/s) and kidney (pre/post: 1.93 ± 0.22/1.97 ± 0.23 m/s) was higher than in the liver (pre/post: 1.36 ± 0.10/1.38 ± 0.13 m/s) and pancreas (pre/post: 1.20 ± 0.12/1.20 ± 0.08 m/s), all P 0.01. Accounting for four drive frequencies, water drinking only changed the splenic stiffness (-6%, P = 0.03), whereas in the frequency range from 50 to 60 Hz the effect became significant also in the pancreas (-6%, P = 0.04) and liver (+3%, P = 0.03). Elastograms of the kidney in coronal view clearly depicted higher stiffness in cortex than in medulla.Tomoelastography reveals sensitivity of tissue mechanical properties to the hydration state of multiple abdominal organs within one scan and in unprecedented resolution of anatomical details. Magn Reson Med 78:976-983, 2017. © 2016 International Society for Magnetic Resonance in Medicine.

To improve the accuracy and robustness to noise in water-fat separation by unifying the multiscale and graph cut based approaches to BA previously proposed water-fat separation algorithm that corrects for BBoth algorithms achieved the highest accuracy when compared with seven previously published methods, while computation times were acceptable for implementation in clinical routine. The multi-scale algorithm was more robust to noise than the single-scale algorithm, while causing only a small increase (+10%) of the reconstruction time.The proposed 3D multi-scale QPBO algorithm offers accurate water-fat separation, robustness to noise, and fast reconstruction. The software implementation is freely available to the research community. Magn Reson Med 78:941-949, 2017. © 2016 International Society for Magnetic Resonance in Medicine.

Quantitative diffusion MRI has frequently been studied as a means of grading prostate cancer. Interpretation of results is complicated by the nature of prostate tissue, which consists of four distinct compartments: vascular, ductal lumen, epithelium, and stroma. Current diffusion measurements are an ill-defined weighted average of these compartments. In this study, prostate diffusion is analyzed in terms of a model that takes explicit account of tissue compartmentalization, exchange effects, and the non-Gaussian behavior of tissue diffusion.The model assumes that exchange between the cellular (ie, stromal plus epithelial) and the vascular and ductal compartments is slow. Ductal and cellular diffusion characteristics are estimated by Monte Carlo simulation and a two-compartment exchange model, respectively. Vascular pseudodiffusion is represented by an additional signal at b = 0. Most model parameters are obtained either from published data or by comparing model predictions with the published results from 41 studies. Model prediction error is estimated using 10-fold cross-validation.Agreement between model predictions and published results is good. The model satisfactorily explains the variability of ADC estimates found in the literature.A reliable model that predicts the diffusion behavior of benign and cancerous prostate tissue of different Gleason scores has been developed. Magn Reson Med 78:316-326, 2017. © 2016 International Society for Magnetic Resonance in Medicine.

The purpose of this work was to develop and evaluate a robust water-fat separation method for T1-weighted symmetric two-point Dixon data.A method for water-fat separation by phase unwrapping of the opposite-phase images by phase-sensitive reconstruction (PSR) is introduced. PSR consists of three steps; (1), identification of clusters of tissue voxels; (2), unwrapping of the phase in each cluster by solving Poisson's equation; and (3), finding the correct sign of each unwrapped opposite-phase cluster, so that the water-fat images are assigned the correct identities. Robustness was evaluated by counting the number of water-fat swap artifacts in a total of 733 image volumes. The method was also compared to commercial software.In the water-fat separated image volumes, the PSR method failed to unwrap the phase of one cluster and misclassified 10. One swap was observed in areas affected by motion and was constricted to the affected area. Twenty swaps were observed surrounding susceptibility artifacts, none of which spread outside the artifact affected regions. The PSR method had fewer swaps when compared to commercial software.The PSR method can robustly produce water-fat separated whole-body images based on symmetric two-echo spoiled gradient echo images, under both ideal conditions and in the presence of common artifacts. Magn Reson Med 78:1208-1216, 2017. © 2016 International Society for Magnetic Resonance in Medicine.

Recently, the multi-echo gradient echo (MGRE) sequence has been proposed for multicomponent T2* (MC T2*) based myelin water fraction (MWF) mapping. This approach has appeal because it can provide fast whole-brain coverage, has low specific absorption rate, and short echo spacing. However, the MGRE signal requires correction for accurate MWF mapping, because of its sensitivity to magnetic field inhomogeneities (ΔBLatter-echo MGRE data were fit to estimate BSimulations showed that MWFs are significantly biased in the presence of Gz and that our correction method leads to accurate MWF estimates. In vivo MWF maps obtained from corrected data showed recovery of MWF estimates in areas of high ΔBA new algorithm was presented for ΔB

To investigate the influence of transcytolemmal water exchange on estimates of tissue microstructural parameters derived from diffusion MRI using conventional PGSE and IMPULSED methods.Computer simulations were performed to incorporate a broad range of intracellular water life times τSimulations showed that, for both PGSE and IMPULSED methods, cell diameter d can be reliably fit with sufficient SNR (≥ 50), whereas intracellular volume fraction fFor the sequences and models considered in this study, transcytolemmal water exchange has minor effects on the fittings of d and D

To develop a novel region-growing algorithm with self-feeding phasor estimation for robust fat-water separation.The proposed seed pixel identification and region-growing methods were performed independently at different resolutions. Multiple phasor maps were obtained at lower resolutions and then merged into a new seed map, which was used to generate the final phasor map at the finest resolution. The final fat and water images were reconstructed based on this phasor map. The proposed method was compared with traditional region-growing methods, multiresolution methods, and graph-cut methods using data from the ISMRM 2012 Challenge. All methods were scored on a scale of 0 to 10000.The average score of all 17 data sets from the ISMRM 2012 Challenge was 9928, with 13 of the 17 scores surpassing 9900. The lowest score was 9697 from data set #12; there was no apparent fat-water swap observed throughout these data sets.The self-feeding mechanism of phasor estimation ensures the reliability of seed pixel selection at the finest resolution. Compared with traditional multiple resolution methods and region-growing methods, the proposed method is shown to be more robust when applied to disjoint areas and to regions with strong field inhomogeneity. Magn Reson Med 77:2390-2401, 2016. © 2016 International Society for Magnetic Resonance in Medicine.

We present three-dimensional ultrashort echo time Cones (3D UTE Cones) techniques for quantification of total water TT1TW, T1BW, and T1PW were measured with three-dimensional (3D) Cones and adiabatic inversion recovery Cone (IR-Cone) sequences. Two-dimensional (2D) nonselective ultrashort echo time (UTE) techniques, including saturation recovery, variable repetition times (TRs), and inversion recovery (IR) preparation approaches were compared with 3D-Cones techniques on bovine cortical bone samples (n = 8). The 3D Cones sequences were used to measure T1TW, T1BW, and T1PW in the tibial midshaft of healthy volunteers (n = 8).Comparable TThe 3D Cones sequences can be used for fast volumetric assessment of bound and pore water T

Plasma glucose 2H-enrichment in positions 5 (2H5) and 2 (2H2) from deuterated water (2H2O) provides a measure of the gluconeogenic contribution to endogenous glucose production. Urinary glucuronide analysis can circumvent blood sampling but it is not known if glucuronide and glucose enrichments are equal. Thirteen subjects with impaired fasting glucose/impaired glucose tolerance and 11 subjects with normal fasting glucose and normal glucose tolerance ingested 2H2O to ∼0.5% body water and acetaminophen. Glucose and glucuronide 2H5 and 2H2 were measured by 2H NMR spectroscopy of monoacetone glucose. For normal fasting glucose/normal glucose tolerance, 2H5 was 0.23 ± 0.02% and 0.25 ± 0.02% for glucose and glucuronide, respectively, whereas 2H2 was 0.47 ± 0.01% and 0.49 ± 0.02%, respectively. For impaired fasting glucose/impaired glucose tolerance, 2H5 was 0.22 ± 0.01% and 0.26 ± 0.02% for glucose and glucuronide, respectively, whereas 2H2 was 0.46 ± 0.01% and 0.49 ± 0.02%, respectively. The gluconeogenic contribution to endogenous glucose production measured from glucose and glucuronide were identical for both normal fasting glucose/normal glucose tolerance (48 ± 4 vs. 51 ± 3%) and impaired fasting glucose/impaired glucose tolerance (48 ± 2 vs. 53 ± 3%). Magn Reson Med 70:315–319, 2013. © 2012 Wiley Periodicals, Inc.

Advances in modern magnetic resonance imaging (MRI) pulse sequences have enabled clinically practical cortical bone imaging. Human cortical bone is known to contain a distribution of T1 and T2 components attributed to bound and pore water, although clinical imaging approaches have yet to discriminate bound from pore water based on their relaxation properties. Herein, two clinically compatible MRI strategies are proposed for selectively imaging either bound or pore water by utilizing differences in their T1s and T2s. The strategies are validated in a population of ex vivo human cortical bones, and estimates obtained for bound and pore water are compared to bone mechanical properties. Results show that the two MRI strategies provide good estimates of bound and pore water that correlate to bone mechanical properties. As such, the strategies for bound and pore water discrimination shown herein should provide diagnostically useful tools for assessing bone fracture risk, once applied to clinical MRI. Magn Reson Med, 2012. © 2012 Wiley Periodicals, Inc.

Chemical shift-based water/fat separation methods have been emerging due to the growing clinical need for fat quantification in different body organs. Accurate quantification of proton-density fat fraction requires the assessment of many confounding factors, including the need of modeling the presence of multiple peaks in the fat spectrum. Most recent quantitative chemical shift-based water/fat separation approaches rely on a multipeak fat spectrum with precalibrated peak locations and precalibrated or self-calibrated peak relative amplitudes. However, water/fat susceptibility differences can induce fat spectrum resonance shifts depending on the shape and orientation of the fatty inclusions. The effect is of particular interest in the skeletal muscle due to the anisotropic arrangement of extracellular lipids. In this work, the effect of susceptibility-induced fat resonance shift on the fat fraction is characterized in a conventional complex-based chemical shift-based water/fat separation approach that does not model the susceptibility-induced fat resonance shift. A novel algorithm is then proposed to quantify the resonance shift in a complex-based chemical shift-based water/fat separation approach that considers the fat resonance shift in the signal model, aiming to extract information about the orientation/geometry of lipids. The technique is validated in a phantom and preliminary in vivo results are shown in the calf musculature of healthy and diabetic subjects.

To develop an electrical properties tomography (EPT) technique that can provide in vivo electrical conductivity and permittivity images of biological tissue without performing complex-valued radiofrequency field measurements.Electrical conductivity and permittivity images are modeled as a monotonic function of tissues' water content (W) under the principle of Maxwell's mixture theory. Water content maps are estimated from two spin-echo images having different repetition times (TRs). For the modeling functions, physically measured parameters (electrical properties, water content, and TThe electrical properties (EPs) of the phantom estimated by the proposed method match well with the values measured on the bench. The conductivity and permittivity maps from all experiments show uncompromised spatial resolution without boundary artifacts and higher contrast when compared with water content maps.Human brain and phantom EP images suggest that water content is a dominating factor in determining the electrical properties of tissues. Despite possible literature inaccuracies, the proposed method offers EP maps that can provide complementary information to current approaches, to facilitate EPT scans in clinical applications. Magn Reson Med 77:1094-1103, 2017. © 2016 International Society for Magnetic Resonance in Medicine.

The myelin water fraction has been used as a quantitative measure of the amount of myelin present in tissue. However, recent work has suggested that intercompartmental exchange of water between myelin and nonmyelin compartments may cause the myelin water fraction to underestimate the true myelin content of tissue. In this work, multiexponential T2 experiments were performed in vivo within the rat spinal cord, and a wide variation of the myelin water fraction (10–35%) was measured within four rat spinal cord tracts with similar myelin content. A numerical simulation based upon segmented histology images was used to quantitatively account for T2 variations between tracts. The model predicts that a difference in exchange between the four spinal cord tracts, mediated by a difference in the average axon radius and myelin thickness, is sufficient to account for the variation in myelin water fraction measured in vivo. Magn Reson Med, 2012. © 2011 Wiley Periodicals, Inc.

Deuterated water is widely used for measuring de novo lipogenesis on the basis of quantifying lipid (2)H-enrichment relative to that of body water. However, incorporation of (2)H-enrichment from body water into newly synthesized lipid molecules is incomplete therefore the true lipid precursor enrichment differs from that of body water. We describe a novel measurement of de novo lipogenesis that is based on a true precursor-product analysis of hepatic acetyl-CoA and triglyceride methyl enrichments from deuterated water. After deuterated water administration to seven in situ and seven perfused livers, acetyl-CoA methyl enrichment was inferred from (2)H nuclear magnetic resonance analysis of hepatic glutamate/glutamine (Glx) enrichment and triglyceride methyl enrichment was directly determined by (2)H nuclear magnetic resonance of triglycerides. Acetyl-CoA (2) H-enrichment was 71% ± 1% that of body water for in situ livers and 53% ± 2% of perfusate water for perfused livers. From the ratio of triglyceride-methyl/acetyl-CoA enrichments, fractional de novo lipogenesis rates of 0.97% ± 0.09%/2 hr and 7.92% ± 1.47%/48 hr were obtained for perfused and in situ liver triglycerides, respectively. Our method reveals that acetyl-CoA enrichment is significantly less than body water both for in situ and perfused livers. Furthermore, the difference between acetyl-CoA and body water enrichments is sensitive to the experimental setting.

The joint effect of both extravascular water diffusion and transcapillary water exchange on the longitudinal magnetisation is evaluated theoretically for tissues with sparse capillary networks (e.g., the brain and myocardium). The spatio-temporal profile of the extravascular longitudinal magnetisation is calculated for the limiting case of a high blood concentration of paramagnetic tracer resulting in negligible intravascular magnetisation, hence in a net flux of magnetisation from the extravascular tissue to its contained blood. A related parameter, termed the effective extravascular depolarised volume, is derived that quantifies the ensuing attenuation of the NMR signal and affords a taxonomy of exchange regimes. It is found that the spatio-temporal pattern of magnetisation decay may deviate strongly from that predicted by chemical exchange models when the rate of transcapillary exchange is limited by slow diffusive transport in the extravascular tissue but reproduces known results in the case of fast extravascular diffusion.

Chemical exchange saturation transfer (CEST) MRI is a molecular imaging method that has previously been successful at reporting variations in tissue protein and glycogen contents and pH. We have implemented amide proton transfer (APT), a specific form of chemical exchange saturation transfer imaging, at high field (7 T) and used it to study healthy human subjects and patients with multiple sclerosis. The effects of static field inhomogeneities were mitigated using a water saturation shift referencing method to center each z-spectrum on a voxel-by-voxel basis. Contrary to results obtained at lower fields, APT imaging at 7 T revealed significant contrast between white and gray matters, with a higher APT signal apparent within the white matter. Preliminary studies of multiple sclerosis showed that the APT asymmetry varied with the type of lesion examined. An increase in APT asymmetry relative to healthy tissue was found in some lesions. These results indicate the potential utility of APT at high field as a noninvasive biomarker of white matter pathology, providing complementary information to other MRI methods in current clinical use.

The effects of water loss on the T1 and T2* of bovine cortical bone were investigated using ultrashort echo time sequences with signals excited either by a short hard pulse or by two longer half pulses. Nine bovine femur samples were prepared and sequentially air- and oven-dried. On average 3.42% of bone by weight was lost after air-drying for 3 days, with another 5.98% of bone weight loss after oven-drying at 100°C for 24 h. T1 and T2* were measured after every 1% decrease in weight, with 9-10% bone weight loss at the termination of the drying process. After both forms of drying, the overall T1 decreased 33% from 153±18 ms to 102±17 ms when measured using the hard pulse and from 186±25 ms to 122±23 ms when using the half pulses. T2* decreased by 45-50% from 368±29 μs to 201±19 μs using the hard pulse and from 379±35 μs to 191±17 μs using the half pulses. A steady decrease of 26-31% was observed in both T1 and T2* with the first 3-4% bone water loss after air-drying. Oven-drying at 100°C for 24 h resulted on an additional 4% T1 reduction but 25% T2* reduction.

Multi echo chemical shift-based water-fat separation methods allow for uniform fat suppression in the presence of main field inhomogeneities. However, these methods require additional scan time for chemical shift encoding. This work presents a method for water-fat separation from undersampled data (CS-WF), which combines compressed sensing and chemical shift-based water-fat separation. Undersampling was applied in the k-space and in the chemical shift encoding dimension to reduce the total scanning time. The method can reconstruct high quality water and fat images in 2D and 3D applications from undersampled data. As an extension, multipeak fat spectral models were incorporated into the CS-WF reconstruction to improve the water-fat separation quality. In 3D MRI, reduction factors of above three can be achieved, thus fully compensating the additional time needed in three-echo water-fat imaging. The method is demonstrated on knee and abdominal in vivo data.

Noninvasive biomarkers of intracellular accumulation of fat within the liver (hepatic steatosis) are urgently needed for detection and quantitative grading of nonalcoholic fatty liver disease, the most common cause of chronic liver disease in the United States. Accurate quantification of fat with MRI is challenging due the presence of several confounding factors, including T z.ast;2 decay. The specific purpose of this work is to quantify the impact of Tz.ast;2decay and develop a multiexponential Tz.ast;2 correction method for improved accuracy of fat quantification, relaxing assumptions made by previous T z.ast;2 correction methods. A modified Gauss-Newton algorithm is used to estimate the Tz.ast;2 for water and fat independently. Improved quantification of fat is demonstrated, with independent estimation of Tz.ast;2 for water and fat using phantom experiments. The tradeoffs in algorithm stability and accuracy between multiexponential and single exponential techniques are discussed. © 2010 Wiley-Liss, Inc.

Phase-contrast MRI can provide high-resolution angiographic velocity images, especially in conjunction with non-Cartesian k-space sampling. However, acquisitions can be sensitive to errors from artifacts from main magnetic field inhomogeneities and chemical shift from fat. Particularly in body imaging, fat content can cause degraded image quality, create errors in the velocity measurements, and prevent the use of self-calibrated amplitude of static field heterogeneity corrections. To reduce the influence of fat and facilitate self-calibrated amplitude of static field heterogeneity corrections, a combination of chemical shift imaging with phase-contrast velocimetry with nonlinear least-squares estimation of velocity, fat, and water signals is proposed. A chemical shift and first-moment symmetric dual-echo sequence is proposed to minimize the scan time penalty, and initial investigations are performed in phantoms and volunteers that show reduced influence from fat in velocity images.

Conventional spatial-spectral radiofrequency pulses excite the water or the fat spins in a whole slice or slab. While such pulses prove useful in a number of applications, their applicability is severely limited in sequences with short pulse repetition time due to the relatively long duration of the pulses. In the present work, we demonstrate that, by manipulating the parameters of a two-dimensional spartially-selective (2DRF) pulse designed to excite a two-dimensional spatial profile, the chemical-shift sensitivity of the pulse can be exploited to obtain potentially useful spatially varying fat-water excitation patterns.