Magnetic Resonance Fingerprinting Method Research Articles

Rapid Whole-Knee Quantification of Cartilage using T1, T2*, and TRAFF2 mapping with Magnetic Resonance Fingerprinting.

Quantitative Magnetic Resonance Imaging (MRI) holds great promise for the early detection of cartilage deterioration. Here, a Magnetic Resonance Fingerprinting (MRF) framework is proposed for comprehensive and rapid quantification of T1, T2*, and TRAFF2 with whole-knee coverage. A MRF framework was developed to achieve quantification of Relaxation Along a Fictitious Field in the 2nd rotating frame of reference ( TRAFF2) along with T1 and T2*. The proposed sequence acquires 65 measurements of 25 high-resolution slices, interleaved with 7 inversion pulses and 40 RAFF2 trains, for whole-knee quantification in a total acquisition time of 3:25 min. Comparison with reference T1, T2*, and TRAFF2 methods was performed in phantom and in seven healthy subjects at 3T. Repeatability (test-retest) with and without repositioning was also assessed. Phantom measurements resulted in good agreement between MRF and the reference with mean biases of -54, 2, and 5 ms for T1, T2*, and TRAFF2, respectively. Complete characterization of the whole-knee cartilage was achieved for all subjects, and, for the femoral and tibial compartments, a good agreement between MRF and reference measurements was obtained. Across all subjects, the proposed MRF method yielded acceptable repeatability without repositioning ( R2 ≥ 0.94) and with repositioning ( R2 ≥ 0.57) for T1, T2*, and TRAFF2. The short scan time combined with the whole-knee coverage makes the proposed MRF framework a promising candidate for the early assessment of cartilage degeneration with quantitative MRI, but further research may be warranted to improve repeatability after repositioning and assess clinical value in patients.

An off-the-grid approach to multi-compartment magnetic resonance fingerprinting

We propose a novel numerical approach to separate multiple tissue compartments in image voxels and to estimate quantitatively their nuclear magnetic resonance (NMR) properties and mixture fractions, given magnetic resonance fingerprinting (MRF) measurements. The number of tissues, their types or quantitative properties are not a-priori known, but the image is assumed to be composed of sparse compartments with linearly mixed Bloch magnetisation responses within voxels. Fine-grid discretisation of the multi-dimensional NMR properties creates large and highly coherent MRF dictionaries that can challenge scalability and precision of the numerical methods for (discrete) sparse approximation. To overcome these issues, we propose an off-the-grid approach equipped with an extended notion of the sparse group Lasso regularisation for sparse approximation using continuous (non-discretised) Bloch response models. Furthermore, the nonlinear and non-analytical Bloch responses are approximated by a neural network, enabling efficient back-propagation of the gradients through the proposed algorithm. Through numerical experiments on simulated and in vivo healthy brain MRF data, we demonstrate the effectiveness of the proposed scheme compared to baseline multi-compartment MRF methods.

A comparison of two data analysis approaches for quantitative magnetic resonance imaging

Magnetic resonance imaging (MRI) is a medical imaging technique which is widely used in clinical routine. Standard imaging methods lead to so-called contrast-weighted images. The contrast arises from several tissue-related parameters such as the relaxation times T 1 and T 2. The aim in quantitative MRI (qMRI) is an estimation of these quantitative parameters. Magnetic resonance fingerprinting (MRF) is a promising technique in qMRI that allows for the simultaneous determination of multiple tissue-related parameters within a short acquisition time. The conventional MRF method utilizes an approximate inverse Fourier transformation for the highly undersampled data in the Fourier domain, leading to aliasing errors in the reconstructed magnetization courses. Computationally expensive statistical MRF modeling approaches overcome this issue by modeling the data directly in the Fourier domain. However, this leads to a non-convex and large-scale optimization task that is challenging to solve and requires expensive calculations. We compare two recent approaches, namely the conventional MRF method and a statistical MRF modeling approach based on Bayesian statistics in terms of their accuracy, reliability and computational costs. The comparison is carried out for simulated data with known ground truth for different signal-to-noise ratios, in the presence of errors in the physical model, and for several Fourier domain sampling schemes. It is demonstrated that a residual analysis can help to decide if the conventional MRF method is sufficient or if the complex Bayesian Fourier domain modeling approach can lead to a significant improvement.

Three-dimensional high-resolution T1 and T2 mapping of whole macaque brain at 9.4 T using magnetic resonance fingerprinting.

Quantitative T1 and T2 mapping in non-human primates with whole-brain coverage is challenged by the requirement of sub-millimeter resolution and the inhomogeneity of the transmit magnetic field (B1+ ) covering a large field of view. The goal of the current study is to develop a magnetic resonance fingerprinting (MRF) method for simultaneous T1 and T2 mapping of the entire macaque brain within feasible scan time. A three-dimensional (3D) MRF sequence with both inversion- and T2 -preparation modules was developed and evaluated on a 9.4 T preclinical scanner. Data acquisition used a 3D stack-of-spirals trajectory, with undersampling along both the in-plane and the through-plane directions. The effect of B1+ inhomogeneity was accounted for by matching the acquired fingerprint to a dictionary simulated with the B1+ factors measured from a separate scan. In vitro and ex vivo studies were performed to evaluate the accuracy and the undersampling capacity of the MRF method. The application of the MRF method for in vivo, brain-wide T1 and T2 mapping was demonstrated on macaques at 4, 6, and 12years of age. The MRF method enabled highly repeatable T1 and T2 mapping at high spatial resolution (0.35 × 0.35 × 1 mm3 ) with an acceleration factor of 24. In vivo studies showed significant age-related T2 reduction in deep gray nuclei including the globus pallidus, the putamen, and the caudate nucleus. This study demonstrates the first MRF study for brain-wide, multi-parametric quantification in non-human primates with sub-millimeter resolution.

Technical overview of magnetic resonance fingerprinting and its applications in radiation therapy

Magnetic resonance fingerprinting (MRF) is an emerging imaging technique for rapid and simultaneous quantification of multiple tissue properties. The technique has been developed for quantitative imaging of different organs. The obtained quantitative measures have the potential to improve multiple steps of a typical radiotherapy workflow and potentially further improve integration of magnetic resonance imaging guided clinical decision making. In this review paper, we first provide a technical overview of the MRF method from data acquisition to postprocessing, along with recent development in advanced reconstruction methods. We further discuss critical aspects that could influence its usage in radiation therapy, such as accuracy and precision, repeatability and reproducibility, geometric distortion, and motion robustness. Finally, future directions for MRF application in radiation therapy are discussed.

A parallel spatial and Bloch manifold regularized iterative reconstruction method for MR Fingerprinting

Magnetic Resonance Fingerprinting (MRF) reconstructs tissue maps based on a sequence of very highly undersampled images. In order to be able to perform MRF reconstruction, state-of-the-art MRF methods rely on priors such as the MR physics (Bloch equations) and might also use some additional low-rank or spatial regularization. However to our knowledge these three regularizations are not applied together in a joint reconstruction. The reason is that it is indeed challenging to incorporate effectively multiple regularizations in a single MRF optimization algorithm. As a result most of these methods are not robust to noise especially when the sequence length is short. In this paper, we propose a family of new methods where spatial and low-rank regularizations, in addition to the Bloch manifold regularization, are applied on the images. We show on digital phantom and NIST phantom scans, as well as volunteer scans that the proposed methods bring significant improvement in the quality of the estimated tissue maps.

Free-breathing abdominal T1 mapping using an optimized MR fingerprinting sequence.

In this work, we propose a free-breathing magnetic resonance fingerprinting (MRF) method that can be used to obtain B1+ -robust quantitative T1 maps of the abdomen in a clinically acceptable time. A three-dimensional MRF sequence with a radial stack-of-stars trajectory was implemented, and its k-space acquisition ordering was adjusted to improve motion-robustness in the context of MRF. The flip angle pattern was optimized using the Cramér-Rao Lower Bound, and the encoding efficiency of sequences with 300, 600, 900 and 1800 flip angles was evaluated. To validate the sequence, a movable multicompartment phantom was developed. Reference multiparametric maps were acquired under stationary conditions using a previously validated MRF method. Periodic motion of the phantom was used to investigate the motion-robustness of the proposed sequence. The best performing sequence length (600 flip angles) was used to image the abdomen during a free-breathing volunteer scan. When using a series of 600 or more flip angles, the estimated T1 values in the stationary phantom showed good agreement with the reference scan. Phantom experiments revealed that motion-related artifacts can appear in the quantitative maps and confirmed that a motion-robust k-space ordering is essential. The in vivo scan demonstrated that the proposed sequence can produce clean parameter maps while the subject breathes freely. Using this sequence, it is possible to generate B1+ -robust quantitative maps of T1 and B1+ next to M0 -weighted images under free-breathing conditions at a clinically usable resolution within 5 min.

Acceleration of High-Resolution 3D MR Fingerprinting via a Graph Convolutional Network.

Magnetic resonance fingerprinting (MRF) is a novel imaging framework for fast and simultaneous quantification of multiple tissue properties. Recently, 3D MRF methods have been developed, but the acquisition speed needs to be improved before they can be adopted for clinical use. The purpose of this study is to develop a novel deep learning approach to accelerate 3D MRF acquisition along the slice-encoding direction in k-space. We introduce a graph-based convolutional neural network that caters to non-Cartesian spiral trajectories commonly used for MRF acquisition. We improve tissue quantification accuracy compared with the state of the art. Our method enables fast 3D MRF with high spatial resolution, allowing whole-brain coverage within 5min, making MRF more feasible in clinical settings.

MRF-ZOOM for the unbalanced steady-state free precession (ubSSFP) magnetic resonance fingerprinting

In magnetic resonance fingerprinting (MRF), tissue parameters are determined by finding the best-match to the acquired MR signal from a predefined signal dictionary. This dictionary searching (DS) process is generally performed in an exhaustive manner, which requires a large predefined dictionary and long searching time. A fast MRF DS algorithm, MRF-ZOOM, was recently proposed based on DS objective function optimization. As a proof-of-concept study, MRF-ZOOM was only tested with one of the earliest MRF sequences but not with the recently more popular unbalanced steady state free precession MRF sequence (MRF-ubSSFP, or MRF-FISP). Meanwhile noise effects on MRF and MRF-ZOOM have not been examined. The purpose of this study was to address these open questions and to verify whether MRF-ZOOM can be combined with a dictionary-compression based method to gain further speed. Numerical simulations were performed to evaluate the DS objective function properties, noise effects on MRF, and to compare MRF-ZOOM with other methods in terms of speed and accuracy. In-vivo experiments were performed as well. Evaluation results showed that premises of MRF-ZOOM held for MRF-FISP; noise did not affect MRF-ZOOM more than the conventional MRF method; when SNR ≥ 1, MRF quantification yielded accurate results. Dictionary compression introduced quantification errors more to T2 quantification. MRF-ZOOM was thousands of times faster than the conventional MRF method. Combining MRF-ZOOM with dictionary compression showed no benefit in terms of fitting speed. In conclusion, MRF-ZOOM is valid for MRF- FISP, and can remarkably save MRF dictionary generation and searching time without sacrificing matching accuracy.

HYDRA: Hybrid deep magnetic resonance fingerprinting.

Magnetic resonance fingerprinting (MRF) methods typically rely on dictionary matching to map the temporal MRF signals to quantitative tissue parameters. Such approaches suffer from inherent discretization errors, as well as high computational complexity as the dictionary size grows. To alleviate these issues, we propose a HYbrid Deep magnetic ResonAnce fingerprinting (HYDRA) approach, referred to as HYDRA. HYDRA involves two stages: a model-based signature restoration phase and a learning-based parameter restoration phase. Signal restoration is implemented using low-rank based de-aliasing techniques while parameter restoration is performed using a deep nonlocal residual convolutional neural network. The designed network is trained on synthesized MRF data simulated with the Bloch equations and fast imaging with steady-state precession (FISP) sequences. In test mode, it takes a temporal MRF signal as input and produces the corresponding tissue parameters. We validated our approach on both synthetic data and anatomical data generated from a healthy subject. The results demonstrate that, in contrast to conventional dictionary matching-based MRF techniques, our approach significantly improves inference speed by eliminating the time-consuming dictionary matching operation, and alleviates discretization errors by outputting continuous-valued parameters. We further avoid the need to store a large dictionary, thus reducing memory requirements. Our approach demonstrates advantages in terms of inference speed, accuracy, and storage requirements over competing MRF methods.

Magnetic resonance fingerprinting with quadratic RF phase for measurement of T2* simultaneously with δf , T1 , and T2.

This study explores the possibility of using a gradient moment balanced sequence with a quadratically varied RF excitation phase in the magnetic resonance fingerprinting (MRF) framework to quantify T2* in addition to , T1 , and T2 tissue properties. The proposed quadratic RF phase-based MRF method (qRF-MRF) combined a varied RF excitation phase with the existing balanced SSFP (bSSFP)-based MRF method to generate signals that were uniquely sensitive to , T1 , T2 , as well as the distribution width of intravoxel frequency dispersion, . A dictionary, generated through Bloch simulation, containing possible signal evolutions within the physiological range of , T1 , T2 , and , was used to perform parameter estimation. The estimated T2 and were subsequently used to estimate T2* . The proposed method was evaluated in phantom experiments and healthy volunteers (N = 5). The T1 and T2 values from the phantom by qRF-MRF demonstrated good agreement with values obtained by traditional gold standard methods (r2 = 0.995 and 0.997, respectively; concordance correlation coefficient = 0.978 and 0.995, respectively). The T2* values from the phantom demonstrated good agreement with values obtained through the multi-echo gradient-echo method (r2 = 0.972, concordance correlation coefficient = 0.983). In vivo qRF-MRF-measured T1 , T2 , and T2* values were compared with measurements by existing methods and literature values. The proposed qRF-MRF method demonstrated the potential for simultaneous quantification of , T1 , T2 , and T2* tissue properties.

Magnetic resonance fingerprinting using echo-planar imaging: Joint quantification of T1 and T2∗ relaxation times.

To develop an implementation of the magnetic resonance fingerprinting (MRF) paradigm for quantitative imaging using echo-planar imaging (EPI) for simultaneous assessment of T1 and T2∗. The proposed MRF method (MRF-EPI) is based on the acquisition of 160 gradient-spoiled EPI images with rapid, parallel-imaging accelerated, Cartesian readout and a measurement time of 10 s per slice. Contrast variation is induced using an initial inversion pulse, and varying the flip angles, echo times, and repetition times throughout the sequence. Joint quantification of T1 and T2∗ is performed using dictionary matching with integrated B1+ correction. The quantification accuracy of the method was validated in phantom scans and in vivo in 6 healthy subjects. Joint T1 and T2∗ parameter maps acquired with MRF-EPI in phantoms are in good agreement with reference measurements, showing deviations under 5% and 4% for T1 and T2∗, respectively. In vivo baseline images were visually free of artifacts. In vivo relaxation times are in good agreement with gold-standard techniques (deviation T1 : 4 ± 2%, T2∗: 4 ± 5%). The visual quality was comparable to the in vivo gold standard, despite substantially shortened scan times. The proposed MRF-EPI method provides fast and accurate T1 and T2∗ quantification. This approach offers a rapid supplement to the non-Cartesian MRF portfolio, with potentially increased usability and robustness. Magn Reson Med 78:1724-1733, 2017. © 2016 International Society for Magnetic Resonance in Medicine.

Magnetic Resonance Fingerprinting with compressed sensing and distance metric learning

Magnetic Resonance Fingerprinting (MRF) is a novel technique that simultaneously estimates multiple tissue-related parameters, such as the longitudinal relaxation time T1, the transverse relaxation time T2, off resonance frequency B0 and proton density, from a scanned object in just tens of seconds. However, the MRF method suffers from aliasing artifacts because it significantly undersamples the k-space data. In this work, we propose a compressed sensing (CS) framework for simultaneously estimating multiple tissue-related parameters based on the MRF method. It is more robust to low sampling ratio and is therefore more efficient in estimating MR parameters for all voxels of an object. Furthermore, the MRF method requires identifying the nearest atoms of the query fingerprints from the MR-signal-evolution dictionary with the L2 distance. However, we observed that the L2 distance is not always a proper metric to measure the similarities between MR Fingerprints. Adaptively learning a distance metric from the undersampled training data can significantly improve the matching accuracy of the query fingerprints. Numerical results on extensive simulated cases show that our method substantially outperforms state-of-the-art methods in terms of accuracy of parameter estimation.