基于近似l0范数最小化的NMR波谱稀疏重建算法

在核磁共振（NMR）波谱中,过长的数据采集时间会使很多化学以及分子生物学领域的高分辨率多维谱应用难以实现. 传统的解决办法是使用随机非均匀采样代替奈奎斯特采样,但这样会使谱图质量受损. 压缩传感的出现为此提供了更好的解决办法,合适的压缩传感重建算法可以通过很少的随机非均匀采样将谱图高质量的重建出来. 该文先介绍了一种可用于谱图重建的压缩传感重建算法,名为“平滑l₀范数最小化法”,然后针对该算法对采样噪声鲁棒性较差的缺点进行了改进. 通过将改进后的算法与原算法在一维实数域信号以及NMR波谱信号重建实验中进行对比后表明,改进后的算法对噪声的鲁棒性明显提高,并能获得更好的重建性能.     

Deterministic schedules for robust and reproducible non-uniform sampling in multidimensional NMR

We show that a simple, general, and easily reproducible method for generating non-uniform sampling (NUS) schedules preserves the benefits of random sampling, including inherently reduced sampling artifacts, while removing the pitfalls associated with choosing an arbitrary seed. Sampling schedules are generated from a discrete cumulative distribution function (CDF) that closely fits the continuous CDF of the desired probability density function. We compare random and deterministic sampling using a Gaussian probability density function applied to 2D HSQC spectra. Data are processed using the previously published method of Spectroscopy by Integration of Frequency and Time domain data (SIFT). NUS spectra from deterministic sampling schedules were found to be at least as good as those from random schedules at the SIFT critical sampling density, and significantly better at half that sampling density. The method can be applied to any probability density function and generalized to greater than two dimensions.     

Signal enhancement using 45 degrees water flipback for 3D 15N-edited ROESY and NOESY HMQC and HSQC.

A novel implementation of the water flipback technique employing a 45 degrees flip-angle water-selective pulse is presented. The use of this water flipback technique is shown to significantly enhance signal in 3D 15N-edited ROESY in a 20 kDa complex of the vnd/NK-2 homeodomain bound to DNA. The enhancement is seen relative to the same experiment using weak water presaturation during the recovery delay. This enhancement is observed for the signals from both labile and nonlabile protons. ROESY and NOESY pulse sequences with 45 degrees water flipback are presented using both HMQC and HSQC for the 15N dimension. The 45 degrees flipback pulse is followed by a gradient, a water selective 180 degrees pulse, and another gradient to remove quadrature images and crosspeak phase distortion near the water frequency. Radiation damping of the water magnetization during the t1 and t2 evolution periods is suppressed using gradients. Water resonance planes from NOESY-HMQC and NOESY-HSQC spectra show that the HMQC version of the pulse sequences can provide stronger signal for very fast exchanging protons. The HSQC versions of the ROESY and NOESY pulse sequences are designed for the quantitative determination of protein-water crossrelaxation rates, with no water-selective pulses during the mixing time and with phase cycling and other measures for reducing axial artifacts in the water signal.     

Signal Enhancement Using 45° Water Flipback for 3D N-Edited ROESY and NOESY HMQC and HSQC

A novel implementation of the water flipback technique employing a 45° flip-angle water-selective pulse is presented. The use of this water flipback technique is shown to significantly enhance signal in 3D ¹⁵N-edited ROESY in a 20 kDa complex of the vnd/NK-2 homeodomain bound to DNA. The enhancement is seen relative to the same experiment using weak water presaturation during the recovery delay. This enhancement is observed for the signals from both labile and nonlabile protons. ROESY and NOESY pulse sequences with 45° water flipback are presented using both HMQC and HSQC for the ¹⁵N dimension. The 45° flipback pulse is followed by a gradient, a water selective 180° pulse, and another gradient to remove quadrature images and crosspeak phase distortion near the water frequency. Radiation damping of the water magnetization during the t₁ and t₂ evolution periods is suppressed using gradients. Water resonance planes from NOESY–HMQC and NOESY–HSQC spectra show that the HMQC version of the pulse sequences can provide stronger signal for very fast exchanging protons. The HSQC versions of the ROESY and NOESY pulse sequences are designed for the quantitative determination of protein–water crossrelaxation rates, with no water-selective pulses during the mixing time and with phase cycling and other measures for reducing axial artifacts in the water signal.     

二蕊荷莲豆环肽B的NMR应用研究

植物环肽的¹H 和¹³C NMR图谱, 由于各种氨基酸自旋系统质子和碳的化学位移非常接近，谱峰高度重叠，结构解析比较困难. 文中以二蕊荷莲豆环肽B为例讨论了
现代2D NMR新技术，在植物环肽结构解析中的应用. HMQC-TOCSY图谱在氢谱方向和碳谱方向分别提供每一个氨基酸自旋系统内的氢和除季碳外碳的全相关信息，从而将每个氨基酸残基的NMR信号相互区分开来；结合¹H-¹H COSY 和 HMQC或HSQC图谱，就可以准确归属每个氨基酸的氢和碳的化学位移. 氨基酸残基之间的连接顺序可用HMBC、NOESY或ROESY图谱获得.     

Removal of zero-quantum peaks from 1D selective TOCSY and NOESY spectra

Selective 1D TOCSY and NOESY experiments are widely used for structure determination. However, they often give distorted peak shapes owing to coherence transfer though zero-quantum coherence (ZQ) which cannot be suppressed by conventional phase cycling or pulse-field gradients. This paper demonstrates that ZQ contributions can be removed from selective 1D spectra by introducing a ZQ evolution time, as previously demonstrated for 2D NOESY spectra by Wang et al. [A three-dimensional method for the separation of zero-quantum coherence and NOE in NOESY spectra, J. Magn. Reson. A 102 (1993) 116-121]. This approach is simple to implement and robust, and is not demanding of spectrometer hardware. Using a new approach to phase cycling described here, spectra can be acquired in a similar time to spectra without a ZQ evolution time.     

Covariance NMR spectroscopy by singular value decomposition

Covariance NMR is demonstrated for homonuclear 2D NMR data collected using the hypercomplex and TPPI methods. Absorption mode 2D spectra are obtained by application of the square-root operation to the covariance matrices. The resulting spectra closely resemble the 2D Fourier transformation spectra, except that they are fully symmetric with the spectral resolution along both dimensions determined by the favorable resolution achievable along omega2. An efficient method is introduced for the calculation of the square root of the covariance spectrum by applying a singular value decomposition (SVD) directly to the mixed time-frequency domain data matrix. Applications are shown for 2D NOESY and 2QF-COSY data sets and computational benchmarks are given for data matrix dimensions typically encountered in practice. The SVD implementation makes covariance NMR amenable to routine applications.     

3'(,3")-(二)甲酰基(二)苯并冠醚的2D NMR研究

测定了3'(,3")-(二)甲酰基(二)苯并冠醚(1~7)的¹H、¹³C谱,首次结合¹H-¹H COSY、¹³C-¹H COSY、COLOC二维谱对这些化合物的¹H、¹³C化学位移进行了归属。用NOESY谱确定了合成产物冠4、冠5的结构,并对溶液中的构象异构体及其溶剂影响进行了初探。作者以冠1~8的¹H、¹³C谱的归属为参照,提出了正确归属冠醚醚环上次甲基¹H、¹³C化学位移的一般规则。     

Dictamdiol的1H NMR 和13C NMR数据全归属

通过二维核磁技术,尤其是HMBC、HMQC和NOESY实验对一个从白鲜皮中分离得到的柠檬苦素类化合物-dictamdiol的¹H NMR 和¹³C NMR数据进行了全归属,并对文献中归属的错误进行了纠正.     

Solution Structure of Proline Pentapeptide. Analysis of the NOESY Spectra by Means of Spectrum Simulation

In this paper the NOESY spectra of proline pentapeptide are analyzed, and computer-simulated NOESY spectra are compared with the experimental spectra themselves. In simulating the spectra, the full relaxation matrix method is applied without assuming slow- or fast-motion limits. The calculated spectra are fitted to the experimental one in the following four steps: (1) determination of the proton-proton distance constraints from the experimental NOESY spectrum; (2) calculation of a rough 3D molecular structure by means of a distance geometry algorithm (DISGEO); (3) refinement of the structure; (4) adjustment of the correlation time of the overall tumbling motion of the molecule. The obtained proline pentapeptide structure in solution is close to the all-trans configuration of poly-L-prolines and the correlation time of the overall tumbling motion of the molecule is 0.4 ns; i.e. the isotropic rotational diffusion constant is D = 4.2 × 10⁸ s⁻¹.     

螺双杯[4]芳烃-冠-3醚在溶液中构象的研究

研究了螺双杯[4]芳烃-冠-3醚在溶液状态下的¹H、¹³C、¹H-¹³C HMQC、¹H-¹³C HMBC、¹H-¹H TOCSY等核磁共振谱,对其¹H、¹³C谱进行了归属,确定了室温该化合物在溶液状态下的稳定构象为锥式,并利用2D NOESY近似求出杯芳烃区的各种氢的距离,以此为约束进行了模拟淬火计算,证实了2D NOESY谱中多种羟基存在方式,并利用二维交换矩阵计算得出几种羟基的交换速率及其与溶剂中痕量水的交换速率.     

基于低秩矩阵的非均匀采样NMR波谱重建进展

多维核磁共振（Nuclear Magnetic Resonance,NMR）利用多维波谱来分析分子结构,被广泛用于化学、生物学和医学等领域,但信号采样时间随波谱维度和采样点数增加而迅速增长．非均匀采样通过降低间接维采样点数来加速数据采集,并引入合理的重建方法获得完整的NMR波谱．如何快速重建高质量的波谱,是NMR信号处理研究的前沿．本文主要综述近年来基于低秩矩阵的NMR波谱重建方法的发展．首先介绍了低秩矩阵的相关数学基础;然后从一般低秩矩阵和结构化低秩汉克尔矩阵两个角度来论述重建模型,并讨论相关的NMR波谱应用;最后分析了该技术存在的不足,并展望其未来发展的趋势．     

Removal of t(1) noise from metabolomic 2D (1)H-(13)C HSQC NMR spectra by Correlated Trace Denoising

The presence of t(1) noise artefacts in 2D phase-cycled Heteronuclear Single Quantum Coherence (HSQC) spectra constrains the use of this experiment despite its superior sensitivity. This paper proposes a new processing algorithm, working in the frequency-domain, for reducing t(1) noise. The algorithm has been developed for use in contexts, such as metabolomic studies, where existing denoising techniques cannot always be applied. Two test cases are presented that show the algorithm to be effective in improving the SNR of peaks embedded within t(1) noise by a factor of more than 2, while retaining the intensity and shape of genuine peaks.     

3D sensitivity encoded ellipsoidal MR spectroscopic imaging of gliomas at 3T

Purpose

The goal of this study was to implement time efficient data acquisition and reconstruction methods for 3D magnetic resonance spectroscopic imaging (MRSI) of gliomas at a field strength of 3T using parallel imaging techniques.

Methods

The point spread functions, signal to noise ratio (SNR), spatial resolution, metabolite intensity distributions and Cho:NAA ratio of 3D ellipsoidal, 3D sensitivity encoding (SENSE) and 3D combined ellipsoidal and SENSE (e-SENSE) k-space sampling schemes were compared with conventional k-space data acquisition methods.

Results

The 3D SENSE and e-SENSE methods resulted in similar spectral patterns as the conventional MRSI methods. The Cho:NAA ratios were highly correlated (P<.05 for SENSE and P<.001 for e-SENSE) with the ellipsoidal method and all methods exhibited significantly different spectral patterns in tumor regions compared to normal appearing white matter. The geometry factors ranged between 1.2 and 1.3 for both the SENSE and e-SENSE spectra. When corrected for these factors and for differences in data acquisition times, the empirical SNRs were similar to values expected based upon theoretical grounds. The effective spatial resolution of the SENSE spectra was estimated to be same as the corresponding fully sampled k-space data, while the spectra acquired with ellipsoidal and e-SENSE k-space samplings were estimated to have a 2.36–2.47-fold loss in spatial resolution due to the differences in their point spread functions.

Conclusion

The 3D SENSE method retained the same spatial resolution as full k-space sampling but with a 4-fold reduction in scan time and an acquisition time of 9.28 min. The 3D e-SENSE method had a similar spatial resolution as the corresponding ellipsoidal sampling with a scan time of 4:36 min. Both parallel imaging methods provided clinically interpretable spectra with volumetric coverage and adequate SNR for evaluating Cho, Cr and NAA.     

1,2-二氢-4-(4-羟基苯基)(2H)二氮杂萘-1-酮的NMR研究

应用多种二维核磁共振谱,即：2D同核化学位移全相关谱(TOCSY),2D NOESY谱,2D 异核多量子相关谱(HMQC)和2D异核¹³C-¹H多键 相关谱(HMBC),对化合物1,2-二氢-4-(4-羟基苯基)(2H)二氮杂萘-1-酮的¹H和¹³C NMR 谱线进行了完整归属,从而系统地分析和讨论了该化合物的结构特征.     

Sampling techniques for the estimation of the annual equivalent noise level under urban traffic conditions

This paper summarises 5 years of continuous noise measurements carried out at one of the most important squares in Valencia (Spain). The chosen square is a clear hotspot for traffic noise in a large city. The aim of this study is to determine the appropriate measuring time in order to obtain a 24-h noise level suitable to represent the annual equivalent level. Our findings allow us to reach a number of conclusions in terms of the most suitable urban traffic noise measurement techniques. A random day strategy for sampling is found to give a more accurate representation than a consecutive days strategy. If the sampling strategy involves measurements on randomly-chosen days, then at least 6 days should be used.     

Biselective refocusing pulses and the SERF experiment

The SERF experiment is a variant of the homonuclear J-resolved experiment, in which a single coupling constant is measured. It consists of a single chemical shift selective excitation that is followed by a biselective spin echo. Recent articles mention the existence of artefacts in SERF spectra that are supposedly related to pulse imperfections. This article presents a detailed study of the biselective refocusing pulses. It also reports a method for predicting the position and amplitude of the expected and unexpected 2D spectral peaks in SERF spectra. Artefacts can be partially eliminated by phase cycling or by the introduction of static field gradient pulses in the acquisition sequence. A procedure to obtain of pure absorption peaks in SERF spectra is proposed.