Pulse Sequence Research Articles

Nuclear spin polarization of lactic acid via exchange of parahydrogen-polarized protons

Hyperpolarization has become a powerful tool to enhance the sensitivity of magnetic resonance. A universal tool to hyperpolarize small molecules in solution, however, has not yet emerged. Transferring hyperpolarized, labile protons between molecules is a promising approach towards this end. Therefore, hydrogenative parahydrogen-induced polarization (PHIP) was recently proposed as a source to polarize exchanging protons (PHIP-X). Here, we identified four key components that govern PHIP-X: adding the spin order, polarizing the labile proton, proton exchange, and polarization of the target nucleus. We investigated the last two steps experimentally and using simulations. We found optimal exchange rates and field cycling methods to polarize the target molecules. We also investigated the influence of spin relaxation of exchanging protons on the target polarization. It was found experimentally that transferring the polarization from protons directly bound to the target X-nucleus (here 13C) of lactate and methanol using a pulse sequence was more efficient than applying a corresponding sequence to the labile proton. Furthermore, varying the concentrations of the transfer and target molecules yielded a distinct maximum 13C polarization. We believe this work will further help to understand and optimize PHIP-X towards a broadly applicable hyperpolarization method.

Treatment of Urolithiasis with Thulium Fiber Laser in Fragmentation Mode Using Optimized Pulse Sequences.

Objectives: The super-pulsed thulium fiber laser (SP TFL) is a new alternative to high-power holmium laser for intracorporeal lithotripsy. The SP TFL has shown advantages in dusting regimes, but benefits in fragmentation regimes are less understood. The second-generation SP TFL introduces an advanced fragmentation pulse (AFP) sequence to maximize SP TFL's efficiency in fragmentation. This study evaluates safety and efficacy of the SP TFL fragmentation mode in ureteroscopy (URS) and mini percutaneous nephrolithotomy (mini-PCNL). Materials and Methods: The study was conducted in two phases. Safety of a new AFP was compared ex vivo to standard SP TFL fragmentation settings by measuring the dimensions of wounds created in porcine kidney after laser exposure for 0.5, 1.0, and 2.0 s. The resulting wounds were evaluated histologically using nitro blue tetrazolium chloride (NBTC) stain. In the clinical phase, the second-generation SP TFL was used to fragment and extract ureteral and renal stones in 40 patients using ureteroscopic and percutaneous approaches. The stone size, volume, density, laser-on-time, and total energy were recorded for each patient. In addition, the chemical composition, ablation rate, and ablation efficiency were assessed for each stone treatment. Results: The ex vivo mucosa damage profiles caused by AFP were similar to those caused by regular pulses. In clinical phase, the median volume and density for ureteral stones were 0.4 cm3 and 1029 Hounsfield units (HU), for renal stones 1.3 cm3 and 1113 HU, respectively. Different stone types were crushed into fragments suitable for extraction. The mean AFP energy was 3 J and the average power for ureteral stones was 10.5 W, whereas for renal stones it was 28.5 J and 31 W, respectively. The overall complication rate was low in both groups. Conclusion: ST PFL with AFP capability facilitates effective fragmentation of ureteral and renal stones of any composition during URS and mini-PCNL with minimal complication rates.

T1-weighted Motion Mitigation in Abdominal MRI: Technical Principles, Clinical Applications, Current Limitations, and Future Prospects.

T1-weighted (T1W) pulse sequences are an indispensable component of clinical protocols in abdominal MRI but usually require multiple breath holds (BHs) during the examination, which not all patients can sustain. Patient motion can affect the quality of T1W imaging so that key diagnostic information, such as intrinsic signal intensity and contrast enhancement image patterns, cannot be determined. Patient motion also has a negative impact on examination efficiency, as multiple acquisition attempts prolong the duration of the examination and often remain noncontributory. Techniques for mitigation of motion-related artifacts at T1W imaging include multiple arterial acquisitions within one BH; free breathing with respiratory gating or respiratory triggering; and radial imaging acquisition techniques, such as golden-angle radial k-space acquisition (stack-of-stars). While each of these techniques has inherent strengths and limitations, the selection of a specific motion-mitigation technique is based on several factors, including the clinical task under investigation, downstream technical ramifications, patient condition, and user preference. The authors review the technical principles of free-breathing motion mitigation techniques in abdominal MRI with T1W sequences, offer an overview of the established clinical applications, and outline the existing limitations of these techniques. In addition, practical guidance for abdominal MRI protocol strategies commonly encountered in clinical scenarios involving patients with limited BH abilities is rendered. Future prospects of free-breathing T1W imaging in abdominal MRI are also discussed. ©RSNA, 2024 See the invited commentary by Fraum and An in this issue.

Robust Hamiltonian Engineering for Interacting Qudit Systems

Dynamical decoupling and Hamiltonian engineering are well-established techniques that have been used to control qubit systems. However, designing the corresponding methods for qudit systems has been challenging due to the lack of a Bloch sphere representation, more complex interactions, and additional control constraints. By identifying several general structures associated with such problems, we develop a formalism for the robust dynamical decoupling and Hamiltonian engineering of strongly interacting qudit systems. Our formalism significantly simplifies qudit pulse-sequence design while naturally incorporating robustness conditions necessary for experimental practicality. We experimentally demonstrate these techniques in a strongly interacting, disordered ensemble of spin-1 nitrogen-vacancy centers, achieving more than an order-of-magnitude improvement in coherence time over existing pulse sequences. We further describe how our techniques enable the engineering of exotic many-body phenomena such as quantum many-body scars, and open up new opportunities for quantum metrology with enhanced sensitivities. These results enable wide-reaching new applications for dynamical decoupling and Hamiltonian engineering in many-body physics and quantum metrology. Published by the American Physical Society 2024

Using neural networks to obtain NMR spectra of both small and macromolecules from blood samples in a single experiment

Metabolomics plays a crucial role in understanding metabolic processes within biological systems. Using specific pulse sequences, NMR-based metabolomics detects small and macromolecular metabolites that are altered in blood samples. Here we proposed a method called spectral editing neural network, which can effectively edit and separate the spectral signals of small and macromolecules in 1H NMR spectra of serum and plasma based on the linewidth of the peaks. We applied the model to process the 1H NMR spectra of plasma and serum. The extracted small and macromolecular spectra were then compared with experimentally obtained relaxation-edited and diffusion-edited spectra. Correlation analysis demonstrated the quantitative capability of the model in the extracted small molecule signals from 1H NMR spectra. The principal component analysis showed that the spectra extracted by the model and those obtained by NMR spectral editing methods reveal similar group information, demonstrating the effectiveness of the model in signal extraction.

PhoenixMR: A GPU-based MRI simulation framework with runtime-dynamic code execution.

Simulations of physical processes and behavior can provide unique insights and understanding of real-world problems. Magnetic Resonance Imaging (MRI) is an imaging technique with several components of complexity. Several of these components have been characterized and simulated in the past. However, several computational challenges prevent simulations from being simultaneously fast, flexible, and accurate. The simulation of MRI experiments is underutilized by medical physicists and researchers using currently available simulators due to reasons including speed, accuracy, and extensibility constraints. This paper introduces an innovative MRI simulation engine and framework that aims to overcome these issues making available realistic and fast MRIsimulation. Using the CUDA C/C++ programing language, an MRI simulation engine (PhoenixMR), incorporating a Turing-complete virtual machine (VM) to simulate abstract spatiotemporal complexities, was developed. This engine solves a set of time-discrete Bloch equationsusing the symmetric operator splitting technique. An extensible front-end framework package (written in Python) aids the use of PhoenixMR to simplify simulationdevelopment. The PhoenixMR library and front-end codes have been developed and tested. A set of example simulations were performed to demonstrate the ease of use and flexibility of simulation components such as geometrical setup, pulse sequence design, phantom design, and so forth. Initial validation of PhoenixMR is performed by comparing its accuracy and performance against a widely used MRI simulator using identical simulation parameters. Validation results show PhoenixMR simulations are three orders of magnitude faster. There is also strong agreement betweenmodels. A novel MRI simulation platform called PhoenixMR has been introduced. This research tool is designed to be usable by physicists and engineers interested in performing MRI simulations. Examples are shown demonstrating the accuracy, flexibility, and usability of PhoenixMR in several key areas of MRIsimulation.

NMR-based plant metabolomics protocols: a step-by-step guide

Metabolomics is one of the “omics” sciences that can reveal the metabolic phenotype of organisms. This capability makes it a valuable tool for plant investigation, as plants present a vast chemical diversity. From the analytical point of view, two main techniques are frequently used in metabolomics and are often complementary: Mass spectrometry (MS) and Nuclear Magnetic Resonance (NMR) spectroscopy. Here, we describe NMR and its applications in plant metabolomics. We start by contextualizing the research field to then explore study design, sample collection, sample preparation, NMR data acquisition, and data analysis, showing the key features for achieving quality and relevant results. Within these topics, the most common databases used for plant metabolites identification and assignments are listed, as these help to shorten the laborious task of metabolomics investigation of natural products. Concerning NMR parameters, we discuss the key pulse sequences, recommend acquisition parameters, and examine the data each sequence can provide. Similarly, we delve into data analysis, highlighting the most commonly used chemometric methods and how to achieve high-quality results. Therefore, this review aims to provide a comprehensive guide for NMR-based metabolomics analysis of plants.

Variable-density velocity-selective magnetization preparation for non-contrast-enhanced peripheral MR angiography.

Velocity-selective (VS) magnetization preparation has shown great promise for non-contrast-enhanced (NCE) magnetic resonance angiography (MRA) with the ability to generate positive angiographic contrast directly using a single 3D acquisition. However, existing VS-MRA methods have an issue of aliased saturation around a certain velocity, known as velocity field-of-view (vFOV), which can cause undesired signal loss in arteries. This study aimed to develop a new version of the VS preparation pulse sequence that overcomes the aliased saturation problem in conventional VS preparation. Utilizing the fact that an excitation profile is the Fourier transform of excitation k-space sampling, we sampled the k-space in a non-uniform fashion by scaling gradient pulses accordingly to have aliased excitation diffused over velocity. The variable density sampling function was numerically optimized to maximize the average of the velocity passband signal while minimizing its variance. The optimized variable density VS magnetization was validated through Bloch simulations and applied to peripheral NCE MRA in healthy subjects. The in-vivo experiments showed that the proposed variable density VS-MRA significantly lowered arterial signal loss observed in conventional VS-MRA, as evidenced by a higher arterial signal-to-noise ratio (58.50 ± 14.29 vs. 55.54 ± 12.32; p < 0.05) and improved artery-to-background contrast-to-noise ratio (22.75 ± 7.57 vs. 20.60 ± 6.51; p < 0.05).

Quantitative BOLD (qBOLD) imaging of oxygen metabolism and blood oxygenation in the human body: A scoping review.

There are many approaches to the quantitative BOLD (qBOLD) technique described in the literature, differing in pulse sequences, MRI parameters and data processing. Thus, in this review, we summarized the acquisition methods, approaches used for oxygenation quantification and clinical populations investigated. Three databases were systematically searched (Medline, Embase, and Web of Science) for published research that used qBOLD methods for quantification of oxygen metabolism. Data extraction and synthesis were performed by one author and reviewed by a second author. A total of 93 relevant papers were identified. Acquisition strategies were summarized, and oxygenation parameters were found to have been investigated in many pathologies such as steno-occlusive diseases, stroke, glioma, and multiple sclerosis disease. A summary of qBOLD approaches for oxygenation measurements and applications could help researchers to identify good practice and provide objective information to inform the development of future consensus recommendations.

Robust parahydrogen-induced polarization at high concentrations.

Parahydrogen-induced polarization (PHIP) is a potent technique for generating target molecules with high nuclear spin polarization. The PHIP process involves a chemical reaction between parahydrogen and a target molecule, followed by the transformation of nuclear singlet spin order into magnetization of a designated target nucleus through magnetic field manipulations. Although the singlet-to-magnetization polarization transfer process works effectively at moderate concentrations, it is observed to become much less efficient at high molar polarization, defined as the product of polarization and concentration. This strong dependence on the molar polarization is attributed to interference due to the field produced by the sample magnetization during polarization transfer, which leads to complex dynamics and can severely affect the scalability of the technique. We address this challenge with a pulse sequence that suppresses the influence of the distant dipolar field, while simultaneously achieving singlet-to-magnetization polarization transfer to the desired target spins, free from restrictions on the molar polarization.

Free-breathing MRI techniques for fat and R2* quantification in the liver.

To review the recent advancements in free-breathing MRI techniques for proton-density fat fraction (PDFF) and R2* quantification in the liver, and discuss the current challenges and future opportunities. This work focused on recent developments of different MRI pulse sequences, motion management strategies, and reconstruction approaches that enable free-breathing liver PDFF and R2* quantification. Different free-breathing liver PDFF and R2* quantification techniques have been evaluated in various cohorts, including healthy volunteers and patients with liver diseases, both in adults and children. Initial results demonstrate promising performance with respect to reference measurements. These techniques have a high potential impact on providing a solution to the clinical need of accurate liver fat and iron quantification in populations with limited breath-holding capacity. As these free-breathing techniques progress toward clinical translation, studies of the linearity, bias, and repeatability of free-breathing PDFF and R2* quantification in a larger cohort are important. Scan acceleration and improved motion management also hold potential for further enhancement.

Open-loop quantum control of small-size networks for high-order cumulants and cross-correlations sensing

Quantum control techniques are one of the most efficient tools for attaining high-fidelity quantum operations and a convenient approach for quantum sensing and quantum noise spectroscopy. In this work, we investigate dynamical decoupling while processing an entangling two-qubit gate based on an Ising-xx interaction, each qubit affected by pure dephasing classical correlated 1/f-noises. To evaluate the gate error, we used the Magnus expansion introducing generalized filter functions that describe decoupling while processing and allow us to derive an approximate analytic expression as a hierarchy of nested integrals of noise cumulants. The error is separated in contributions of Gaussian and non-Gaussian noise, with the corresponding generalized filter functions calculated up to the fourth order. By exploiting the properties of selected pulse sequences, we show that it is possible to extract the second-order statistics (spectrum and cross-spectrum) and to highlight non-Gaussian features contained in the fourth-order cumulant. We discuss the applicability of these results to state-of-the-art small networks based on solid-state platforms.

Transformation of a cellular skyrmion to polyomino-like structures

Topological spin structures with transformable shapes may have potential implications for data storage and computation. Here, we demonstrate that a square cellular skyrmion on an artificial grid pinning pattern can be manipulated by programmed current pulses. We find that parallel short pulses could result in elongation of the skyrmion mainly in the current direction, while parallel long pulses are able to induce elongation in the direction perpendicular to the current due to the intrinsic skyrmion Hall effect. Consequently, a programmed sequence of parallel pulses could lead to transformation of the skyrmion to I-, L-, and Z-shaped polyomino-like structures without affecting the topological charge. In addition, we find that orthogonal pulses could lead to the transformation to more complex polyomino-like structures, including T-shaped and irregular ones. Particularly, when a small T-shaped structure is formed, the topological charge of the system is found to be non-integer due to incomplete compensation of local topological charge densities; however, the T-shaped structure is stable on the attractive pinning pattern. Our results offer an effective way to create polyomino-like spin structures toward functional applications.

Quantum gate control of polar molecules with machine learning.

We propose a scheme for achieving basic quantum gates using ultracold polar molecules in pendular states. The qubits are encoded in the YbF molecules trapped in an electric field with a certain gradient and coupled by the dipole-dipole interaction. The time-dependent control sequences consisting of multiple pulses are considered to interact with the pendular qubits. To achieve high-fidelity quantum gates, we map the control problem for the coupled molecular system into a Markov decision process and deal with it using the techniques of deep reinforcement learning (DRL). By training the agents over multiple episodes, the optimal control pulse sequences for the two-qubit gates of NOT, controlled NOT, and Hadamard are discovered with high fidelities. Moreover, the population dynamics of YbF molecules driven by the discovered gate sequences are analyzed in detail. Furthermore, by combining the optimal gate sequences, we successfully simulate the quantum circuit for entanglement. Our findings could offer new insights into efficiently controlling molecular systems for practical molecule-based quantum computing using DRL.

NMR side-chain assignments of the Crimean–Congo hemorrhagic fever virus glycoprotein n cytosolic domain

Abstract. We assigned the side-chain resonances of the Crimean–Congo hemorrhagic fever virus (CCHFV) glycoprotein n (Gn) cytosolic domain that is 69 amino acids long to complete the backbone resonances previously published by Estrada et al. (2011). The process was facilitated by three factors. First, sample preparation using cell-free protein synthesis (CFPS) was completed in less than 2 d and allowed for correct zinc finger formation by adding zinc ions to the reaction. Second, access to NMR platforms with standardized pulse sequences allowed for data acquisition in 18 d. Third, data analysis using the online platform NMRtist allowed sequential resonance assignments to be made in a day, and assignments were verified and finalized in less than a week. Our work thus provides an example of how NMR assignments, including side chains, of small and well-behaved proteins can be approached in a rapid routine, at protein concentrations of 150 µM.

Tuned exchange imaging: Can the filter exchange imaging pulse sequence be adapted for applications with thin slices and restricted diffusion?

Filter exchange imaging (FEXI) is a double diffusion-encoding (DDE) sequence that is specifically sensitive to exchange between sites with different apparent diffusivities. FEXI uses a diffusion-encoding filtering block followed by a detection block at varying mixing times to map the exchange rate. Long mixing times enhance the sensitivity to exchange, but they pose challenges for imaging applications that require a stimulated echo sequence with crusher gradients. Thin imaging slices require strong crushers, which can introduce significant diffusion weighting and bias exchange rate estimates. Here, we treat the crushers as an additional encoding block and consider FEXI as a triple diffusion-encoding sequence. This allows the bias to be corrected in the case of multi-Gaussian diffusion, but not easily in the presence of restricted diffusion. Our approach addresses challenges in the presence of restricted diffusion and relies on the ability to independently gauge sensitivities to exchange and restricted diffusion for arbitrary gradient waveforms. It follows two principles: (i) the effects of crushers are included in the forward model using signal cumulant expansion; and (ii) timing parameters of diffusion gradients in filter and detection blocks are adjusted to maintain the same level of restriction encoding regardless of the mixing time. This results in the tuned exchange imaging (TEXI) protocol. The accuracy of exchange mapping with TEXI was assessed through Monte Carlo simulations in spheres of identical sizes and gamma-distributed sizes, and in parallel hexagonally packed cylinders. The simulations demonstrate that TEXI provides consistent exchange rates regardless of slice thickness and restriction size, even with strong crushers. However, the accuracy depends on b-values, mixing times, and restriction geometry. The constraints and limitations of TEXI are discussed, including suggestions for protocol adaptations. Further studies are needed to optimize the precision of TEXI and assess the approach experimentally in realistic, heterogeneous substrates.

Doped SnO2 thin films fabricated at low temperature by atomic layer deposition with a precise incorporation of niobium atoms

Nb-doped SnO2 (NTO) thin films were synthesized by atomic layer deposition technique at low temperature (100 °C). For an efficient incorporation of the Nb atoms, i.e. fine control of their amount and distribution, various supercycle ratios and precursor pulse sequences were explored. The thin film growth process studied by in-situ QCM revealed that the Nb incorporation is highly impacted by the surface nature as well as the amount of species available at the surface. This was confirmed by the actual concentration of the Nb atom incorporated inside the thin film as determined by XPS. Highly transparent thin films which transmit more than 95% of the AM1.5 global solar irradiance over a wide spectral range (300–1000 nm) were obtained. In addition, the Nb atoms influenced the optical band gap, conduction band, and valence band levels. While SnO2 thin film were too resistive, films tuned to conductive nature upon Nb incorporation with controlled concentration. Optimal incorporation level was found to be ⩽1 at.% of Nb, and carrier concentration reached up 2.5 × 1018 cm−3 for the as-deposited thin films. As a result, the high optical transparency accompanied with tuned electrical property of NTO thin films fabricated by ALD at low temperature paves the way for their integration into temperature-sensitive, nanostructured optoelectrical devices.

Pulse‐level work state recognition of multifunction radar based on MC‐RSG

AbstractAccurate work state recognition of multifunction radar (MFR) is crucial in electronic warfare, as it helps understand the enemy's intention and evaluate potential threats. A pulse‐level work state recognition method of MFR based on the residual block with spatial attention connected gated recurrent unit by features using metric coding and correlative embedding (MC‐RSG) is proposed. Metric coding is designed to generate the distance vector with time of arrival, and the correlative embedding is performed on the distance vector and raw data features to increase the feature information by extracting feature information associated with the previous and subsequent pulses in each feature sequence, respectively. Besides, we make use of the model called RSG containing the residual block with spatial attention connected gated recurrent unit to learn the features of pulse sequences and identify the radar work state label of each pulse. The experimental work shows that the method is robust and has achieved up to 97% recognition accuracy on the test dataset under ideal observation conditions and 5% higher than the comparison network in high noise observation conditions.

Comparison of R2* and FerriScan liver iron concentration (LIC) quantification in the clinical classification of Iron overload states

PurposeThis study assessed the clinical classification performance of an R2*-based MRI technique for LIC quantification relative to FerriScan, with intra-patient FerriScan LIC uncertainty taken into account. The variabilities of R2* and FerriScan LIC were also assessed. Materials and methodsThis was an ethics approved retrospective study, performed on patients undergoing chelation treatment for iron overload. 126 patients (69 women, 57 men), with an age of 42 +/− 16 years (range 19–86 years) were included. FerriScan and R2* MRI at 1.5 T were performed as part of a routine liver iron assessment protocol. For R2* MRI, a commercially available pulse sequence and reconstruction implementation was used, together with a previously derived calibration curve to convert R2* to LIC. Clinical classifications arising from R2*-derived LIC estimates were compared to those based on FerriScan. The accuracy and precision of the R2* technique was calculated. The variabilities of FerriScan- and R2*-derived estimates of LIC were compared with a Wilcoxon Signed Rank test. Significance was set at the 95% confidence level. ResultsThe precision of R2* ranged from 0.59 to 0.92, with an overall accuracy of 72%. When intra-patient FerriScan LIC uncertainty was considered, precision and accuracy increased to >94% and 97% respectively. The R2*-LIC variability (=17%) was significantly lower than the FerriScan-LIC variability (34%) at the 95% confidence level (p 〈10−3). ConclusionMRI R2*-based LIC estimates provided a similar clinical classification as FerriScan. The intra-patient uncertainty of R2*-based LIC estimates was significantly lower than FerriScan.

Impact of pulse exposure on chimera state in ensemble of FitzHugh-Nagumo systems.

In this article, we consider the influence of a periodic sequence of Gaussian pulses on a chimera state in a ring of coupled FitzHugh-Nagumo systems. We found that on the way to complete spatial synchronization, one can observe a number of variations of chimera states that are not typical for the parameter range under consideration. For example, the following modes were found: breathing chimera, chimera with intermittency in the incoherent part, traveling chimera with strong intermittency, and others. For comparison, here we also consider the impact of a harmonic influence on the same chimera, and to preserve the generality of the conclusions, we compare the regimes caused by both a purely positive harmonic influence and a positive-negative one.