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Spectral data de‐noising using semi‐classical signal analysis: application to localized MRS

Published: Sep 5, 2016

Author(s): Taous‐Meriem Laleg‐Kirati, Jiayu Zhang, Eric Achten, Hacene Serrai

Journal: NMR in Biomedicine

In this paper, we propose a new post‐processing technique called semi‐classical signal analysis (SCSA) for MRS data de‐noising. Similar to Fourier transformation, SCSA decomposes the input real positive MR spectrum into a set of linear combinations of squared eigenfunctions equivalently represented by localized functions with shape derived from the potential function of the Schrödinger operator. In this manner, the MRS spectral peaks...

Read More thumbnail image: Spectral data denoising using semiclassical signal analysis application to localized MRS

Neurochemical profile of the human cervical spinal cord determined by MRS

Published: Aug 31, 2016

Author(s): Andreas Hock, Bertram Wilm, Giorgia Zandomeneghi, Garyfalia Ampanozi, Sabine Franckenberg, Niklaus Zoelch, Patrik Oliver Wyss, Nicola De Zanche, Jurek Nordmeyer‐Maßner, Thomas Kraemer, Michael Thali, Matthias Ernst, Spyros Kollias, Anke Henning

Journal: NMR in Biomedicine

MRS enables insight into the chemical composition of central nervous system tissue. However, technical challenges degrade the data quality when applied to the human spinal cord. Therefore, to date detection of only the most prominent metabolite resonances has been reported in the healthy human spinal cord. The aim of this investigation is to provide an extended metabolic profile including neurotransmitters and antioxidants in addition to...

Read More thumbnail image: Neurochemical profile of the human cervical spinal cord determined by MRS

A quantitative survey of GRAPPA reconstruction in parallel MRI : impact on noise reduction and aliasing

Published: Aug 26, 2016

Author(s): Sreekanth Madhusoodhanan, Joseph Suresh Paul

Journal: Concepts in Magnetic Resonance Part A

Abstract In recent years, several attempts have been made to improve the quality of GRAPPA reconstruction by concomitant reduction of noise amplification and aliasing. While it is true that accuracy of the underlying GRAPPA model depends on the goodness of fit, variations in input noise and channel encoding can serve to introduce differences in reconstruction. In this article, we quantitatively compare the performance of different...

Read More thumbnail image: A quantitative survey of GRAPPA reconstruction in parallel MRI  impact on noise reduction and aliasing

Characterization of a novel MR‐detectable nanoantioxidant that mitigates the recall immune response

Published: Aug 24, 2016

Author(s): Taeko Inoue, Deric M. Griffin, Redwan Huq, Errol L. G. Samuel, Simone H. Ruano, Gary Stinnett, Tabassum J. Majid, Christine Beeton, James M. Tour, Robia G. Pautler

Journal: NMR in Biomedicine

In many human diseases, the presence of inflammation is associated with an increase in the level of reactive oxygen species (ROS). The resulting state of oxidative stress is highly detrimental and can initiate a cascade of events that ultimately lead to cell death. Thus, many therapeutic attempts have been focused on either modulating the immune system to lower inflammation or reducing the damaging caused by ROS. Berlin et al. reported...

Read More thumbnail image: Characterization of a novel MRdetectable nanoantioxidant that mitigates the recall immune response

Diffusion‐weighted MRI of breast lesions: a prospective clinical investigation of the quantitative imaging biomarker characteristics of reproducibility, repeatability, and diagnostic accuracy

Published: Aug 24, 2016

Author(s): Claudio Spick, Hubert Bickel, Katja Pinker, Maria Bernathova, Panagiotis Kapetas, Ramona Woitek, Paola Clauser, Stephan H. Polanec, Margaretha Rudas, Rupert Bartsch, Thomas H. Helbich, Pascal A. Baltzer

Journal: NMR in Biomedicine

Diffusion‐weighted MRI (DWI) provides insights into tissue microstructure by visualization and quantification of water diffusivity. Quantitative evaluation of the apparent diffusion coefficient (ADC) obtained from DWI has been proven helpful for differentiating between malignant and benign breast lesions, for cancer subtyping in breast cancer patients, and for prediction of response to neoadjuvant chemotherapy. However, to...

Read More thumbnail image: Diffusionweighted MRI of breast lesions a prospective clinical investigation of the quantitative imaging biomarker characteristics of reproducibility repeatability and diagnostic accuracy

Hyperpolarized 129 Xe MRI using isobutene as a new quenching gas

Published: Aug 16, 2016

Author(s): Shota Hodono, Hirohiko Imai, Yukiko Yamauchi, Ayano Kawamura, Hironobu Matsumoto, Shintaro Okumura, Hideaki Fujiwara, Atsuomi Kimura

Journal: NMR in Biomedicine

Abstract The use of a quenching gas, isobutene, with a low vapor pressure was investigated to enhance the utility of hyperpolarized 129Xe (HP Xe) MRI. Xenon mixed with isobutene was hyperpolarized using a home‐built apparatus for continuously producing HP Xe. The isobutene was then readily liquefied and separated almost totally by continuous condensation at about 173 K, because the vapor pressure of isobutene (0.247 kPa)...

Read More thumbnail image: Hyperpolarized 129 Xe MRI using isobutene as a new quenching gas

Validating a robust double‐quantum‐filtered 1 H MRS lactate measurement method in high‐grade brain tumours

Published: Aug 11, 2016

Author(s): G.S. Payne, L.M. Harris, G.S. Cairns, C. Messiou, N.M. deSouza, A. Macdonald, F. Saran, M.O. Leach

Journal: NMR in Biomedicine

1H MRS measurements of lactate are often confounded by overlapping lipid signals. Double‐quantum (DQ) filtering eliminates lipid signals and permits single‐shot measurements, which avoid subtraction artefacts in moving tissues. This study evaluated a single‐voxel‐localized DQ filtering method qualitatively and quantitatively for measuring lactate concentrations in the presence of lipid, using high‐grade brain tumours in which the results...

Read More thumbnail image: Validating a robust doublequantumfiltered 1 H MRS lactate measurement method in highgrade brain tumours

Characterization of the response of taurine protons to PRESS at 9.4 T for Resolving choline and Determining taurine T 2

Published: Aug 5, 2016

Author(s): Marissa E. Fisher, Brennen J. Dobberthien, Anthony G. Tessier, Atiyah Yahya

Journal: NMR in Biomedicine

Abstract Point‐resolved spectroscopy (PRESS), characterized by two TEs (TE1 and TE2), can be employed to perform animal magnetic resonance spectroscopy (MRS) studies at 9.4 T. Taurine (Tau) and choline (Cho) are relevant metabolites that can be measured by MRS. In this work, the response of the J‐coupled protons of Tau as a function of PRESS TE1 and TE2 was characterized at 9.4 T to achieve two objectives. The first was to determine two TE1 and...

Read More thumbnail image: Characterization of the response of taurine protons to PRESS at 9_4T for Resolving choline and Determining taurine T 2

Fast volumetric imaging of bound and pore water in cortical bone using three‐dimensional ultrashort‐TE (UTE) and inversion recovery UTE sequences

Published: Aug 5, 2016

Author(s): Jun Chen, Michael Carl, Yajun Ma, Hongda Shao, Xing Lu, Bimin Chen, Eric Y. Chang, Zhihong Wu, Jiang Du

Journal: NMR in Biomedicine

We report the three‐dimensional ultrashort‐TE (3D UTE) and adiabatic inversion recovery UTE (IR‐UTE) sequences employing a radial trajectory with conical view ordering for bi‐component T2* analysis of bound water (T2*BW) and pore water (T2*PW) in cortical bone. An interleaved dual‐echo 3D UTE acquisition scheme was developed for fast bi‐component analysis of bound and pore water in cortical bone. A 3D IR‐UTE acquisition scheme employing multiple...

Read More thumbnail image: Fast volumetric imaging of bound and pore water in cortical bone using threedimensional ultrashortTE UTE and inversion recovery UTE sequences

An intravoxel oriented flow model for diffusion‐weighted imaging of the kidney

Published: Aug 4, 2016

Author(s): Fabian Hilbert, Maximilian Bock, Henning Neubauer, Simon Veldhoen, Tobias Wech, Thorsten Alexander Bley, Herbert Köstler

Journal: NMR in Biomedicine

By combining intravoxel incoherent motion (IVIM) and diffusion tensor imaging (DTI) we introduce a new diffusion model called intravoxel oriented flow (IVOF) that accounts for anisotropy of diffusion and the flow‐related signal. An IVOF model using a simplified apparent flow fraction tensor (IVOFf) is applied to diffusion‐weighted imaging of human kidneys. The kidneys of 13 healthy volunteers were examined on a...

Read More thumbnail image: An intravoxel oriented flow model for diffusionweighted imaging of the kidney

The bile acid chenodeoxycholic acid directly modulates metabolic pathways in white adipose tissue in vitro : insight into how bile acids decrease obesity

Published: Aug 4, 2016

Author(s): João Soeiro Teodoro, Anabela Pinto Rolo, Ivana Jarak, Carlos Marques Palmeira, Rui Albuquerque Carvalho

Journal: NMR in Biomedicine

Abstract Obesity is a worldwide epidemic, and associated pathologies, including type 2 diabetes and cardiovascular alterations, are increasingly escalating morbidity and mortality. Despite intensive study, no effective simple treatment for these conditions exists. As such, the need for go‐to drugs is serious. Bile acids (BAs) present the possibility of reversing these problems, as various in vivo studies and clinical trials have...

Read More thumbnail image: The bile acid chenodeoxycholic acid directly modulates metabolic pathways in white adipose tissue in vitro  insight into how bile acids decrease obesity

Diffusion tensor imaging and histology of developing hearts

Published: Aug 3, 2016

Author(s): Osama M. Abdullah, Thomas Seidel, MarJanna Dahl, Arnold David Gomez, Gavin Yiep, Julia Cortino, Frank B. Sachse, Kurt H. Albertine, Edward W. Hsu

Journal: NMR in Biomedicine

Diffusion tensor imaging (DTI) has emerged as a promising method for noninvasive quantification of myocardial microstructure. However, the origin and behavior of DTI measurements during myocardial normal development and remodeling remain poorly understood. In this work, conventional and bicompartmental DTI in addition to three‐dimensional histological correlation were performed in a sheep model of myocardial development from third...

Read More thumbnail image: Diffusion tensor imaging and histology of developing hearts

Towards longitudinal mapping of extracellular pH in gliomas

Published: Jul 29, 2016

Author(s): Yuegao Huang, Daniel Coman, Peter Herman, Jyotsna U. Rao, Samuel Maritim, Fahmeed Hyder

Journal: NMR in Biomedicine

Biosensor imaging of redundant deviation in shifts (BIRDS), an ultrafast chemical shift imaging technique, requires infusion of paramagnetic probes such as 1,4,7,10‐tetraazacyclododecane‐1,4,7,10‐tetrakis methylene phosphonate (DOTP8−) complexed with thulium (Tm3+) ion (i.e. TmDOTP5−), where the pH‐sensitive resonances of hyperfine‐shifted non‐exchangeable protons contained within the paramagnetic probe are detected. While imaging extracellular pH...

Read More thumbnail image: Towards longitudinal mapping of extracellular pH in gliomas

A rapid inversion technique for the measurement of longitudinal relaxation times of brain metabolites: application to lactate in high‐grade gliomas at 3 T

Published: Jul 25, 2016

Author(s): Karl Landheer, Arjun Sahgal, Sten Myrehaug, Albert P. Chen, Charles H. Cunningham, Simon J. Graham

Journal: NMR in Biomedicine

The aim of this study was to develop a time‐efficient inversion technique to measure the T1 relaxation time of the methyl group of lactate (Lac) in the presence of contaminating lipids and to measure T1 at 3 T in a cohort of primary high‐grade gliomas. Three numerically optimized inversion times (TIs) were chosen to minimize the expected error in T1 estimates for a given input total scan duration (set to be 30 min). A two‐cycle spectral editing scheme was used...

Read More thumbnail image: A rapid inversion technique for the measurement of longitudinal relaxation times of brain metabolites application to lactate in highgrade gliomas at 3 T

Pulsed and oscillating gradient MRI for assessment of cell size and extracellular space (POMACE) in mouse gliomas

Published: Jul 22, 2016

Author(s): Olivier Reynaud, Kerryanne Veronica Winters, Dung Minh Hoang, Youssef Zaim Wadghiri, Dmitry S. Novikov, Sungheon Gene Kim

Journal: NMR in Biomedicine

Solid tumor microstructure is related to the aggressiveness of the tumor, interstitial pressure and drug delivery pathways, which are closely associated with treatment response, metastatic spread and prognosis. In this study, we introduce a novel diffusion MRI data analysis framework, pulsed and oscillating gradient MRI for assessment of cell size and extracellular space (POMACE), and demonstrate its feasibility in a mouse tumor model. ...

Read More thumbnail image: Pulsed and oscillating gradient MRI for assessment of cell size and extracellular space POMACE in mouse gliomas

Tandem mass spectral libraries of peptides and their roles in proteomics research

Published: Jul 12, 2016

Author(s): Wenguang Shao, Henry Lam

Journal: Mass Spectrometry Reviews

Proteomics is a rapidly maturing field aimed at the high‐throughput identification and quantification of all proteins in a biological system. The cornerstone of proteomic technology is tandem mass spectrometry of peptides resulting from the digestion of protein mixtures. The fragmentation pattern of each peptide ion is captured in its tandem mass spectrum, which enables its identification and acts as a fingerprint...

Read More thumbnail image: Tandem mass spectral libraries of peptides and their roles in proteomics research

Preparation of phosphorylcholine‐based hydrophilic monolithic column and application for analysis of drug‐related impurities with capillary electrochromatography

Published: May 25, 2016

Author(s): Danye Qiu, Feng Li, Mingyu Zhang, Jingwu Kang

Journal: ELECTROPHORESIS

A hydrophilic monolithic CEC column was prepared by thermal copolymerization of zwitterionic monomer 2‐methacryloyloxyethyl phosphorylcholine (MPC), pentaerythritol triacrylate (PETA), either methacrylatoethyl trimethyl ammonium chloride (META) or sodium 2‐methylpropene‐1‐sulfonate (MPS) in a polar binary porogen consisting of methanol and THF. A typical hydrophilic interaction LC retention mechanism was observed for low‐molecular weight...

Read More thumbnail image: Preparation of phosphorylcholinebased hydrophilic monolithic column and application for analysis of drugrelated impurities with capillary electrochromatography

Allele and haplotype diversity of new multiplex of 19 ChrX‐STR loci in Han population from Guanzhong region (China)

Published: May 25, 2016

Author(s): Yu‐Dang Zhang, Chun‐Mei Shen, Hao‐Tian Meng, Yu‐Xin Guo, Qian Dong, Guang Yang, Jiang‐Wei Yan, Yao‐Shun Liu, Ting Mei, Rui‐Zhe Huang, Bo‐Feng Zhu

Journal: ELECTROPHORESIS

X‐chromosomal short tandem repeats (X‐STRs) have been proved to be useful for some deficiency paternity cases in recent years. Here, we studied the genetic polymorphisms of 19 X‐STR loci (DXS10148‐DXS10135‐DXS8378, DXS10159‐DXS10162‐DXS10164, DXS7132‐DXS10079‐DXS10074‐DXS10075, DXS6809‐DXS6789, DXS7424‐DXS101, DXS10103‐HPRTB‐DXS10101 and DXS7423‐DXS10134) in 252 male and 222 female individuals from Guanzhong Han population, China. No...

Read More thumbnail image: Allele and haplotype diversity of new multiplex of 19 ChrXSTR loci in Han population from Guanzhong region China

Determination of the modes of action and synergies of xylanases by analysis of xylooligosaccharide profiles over time using fluorescence‐assisted carbohydrate electrophoresis

Published: May 10, 2016

Author(s): Weili Gong, Huaiqiang Zhang, Li Tian, Shijia Liu, Xiuyun Wu, Fuli Li, Lushan Wang

Journal: ELECTROPHORESIS

The structure of xylan, which has a 1,4‐linked β‐xylose backbone with various substituents, is much more heterogeneous and complex than that of cellulose. Because of this, complete degradation of xylan needs a large number of enzymes that includes GH10, GH11, and GH3 family xylanases together with auxiliary enzymes. Fluorescence‐assisted carbohydrate electrophoresis (FACE) is able to accurately differentiate unsubstituted and substituted...

Read More thumbnail image: Determination of the modes of action and synergies of xylanases by analysis of xylooligosaccharide profiles over time using fluorescenceassisted carbohydrate electrophoresis

Proteomic changes in the liver of Channa striatus in response to high temperature stress

Published: May 9, 2016

Author(s): Arabinda Mahanty, Gopal Krishna Purohit, Sudeshna Banerjee, Dhanasekar Karunakaran, Sasmita Mohanty, Bimal Prasanna Mohanty

Journal: ELECTROPHORESIS

The present study was undertaken to investigate the proteomic changes in the liver of murrel Channa striatus exposed to high temperature stress. Fishes were exposed to 36°C for 4 days and liver proteome changes were analyzed using gel‐ based proteomics, i.e. 2DE, MALDI‐TOF/TOF‐MS, and validation by transcript analysis. The study showed, besides others, increased abundance of two sets of proteins, the antioxidative enzymes superoxide dismutase (SOD),...

Read More thumbnail image: Proteomic changes in the liver of Channa striatus in response to high temperature stress
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