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Discovering cellular protein‐protein interactions: Technological strategies and opportunities

Published: Jun 29, 2018

Author(s): Kevin Titeca, Irma Lemmens, Jan Tavernier, Sven Eyckerman

Journal: Mass Spectrometry Reviews

The analysis of protein interaction networks is one of the key challenges in the study of biology. It connects genotypes to phenotypes, and disruption often leads to diseases. Hence, many technologies have been developed to study protein‐protein interactions (PPIs) in a cellular context. The expansion of the PPI technology toolbox however complicates the selection of optimal approaches for diverse biological...

Read More thumbnail image: Discovering cellular proteinprotein interactions Technological strategies and opportunities

Compatibility effects of herb pair Phellodendri chinensis cortex and Anemarrhenae rhizoma on benign prostatic hyperplasia using targeted metabolomics

Published: Jun 28, 2018

Author(s): Xiaoning Zhao, Yiran Li, Jiaxin Huai, Congcong Cheng, Teng Zhang, Linlin Xie, Siqi Wang, Meng Zhang, Ronghua Dai

Journal: Biomedical Chromatography

Abstract Phellodendri chinensis cortex (P. C. cortex) and Anemarrhenae rhizoma (A. rhizoma) herb pair is a core component of traditional Chinese medicines used to treat inflammation and benign prostatic hyperplasia (BPH). The present study was designed to profile the arachidonic acid (AA) metabolomic characteristics in rat plasma and prostate after being treated with P. C. cortex and A. rhizoma as well as their combination. Plasma and prostate ...

Read More thumbnail image: Compatibility effects of herb pair Phellodendri chinensis cortex and Anemarrhenae rhizoma on benign prostatic hyperplasia using targeted metabolomics

Perspectives in the Use of Peptidomics in Ham

Published: Jun 28, 2018

Author(s): Marta Gallego, Leticia Mora, Fidel Toldrá

Journal: PROTEOMICS

Abstract The use of proteomics in food science has permitted both a better characterization of the food products and the control of their final quality despite the fact that food systems are under continuous changes during processing and consumption. Ham is a very popular meat product frequently consumed in Mediterranean countries after a dry‐curing processing that results in the generation of large amounts of peptides that...

Read More thumbnail image: Perspectives in the Use of Peptidomics in Ham

A silver self‐assembled monolayer‐decorated polydimethylsiloxane flexible substrate for in situ SERS detection of low‐abundance molecules

Published: Jun 28, 2018

Author(s): Hang Zhao, Wuliji Hasi, Lin Bao, Yuping Liu, Siqingaowa Han, Dianyang Lin

Journal: Journal of Raman Spectroscopy

Abstract The preparation of highly sensitive and low cost substrate remains challenging in surface‐enhanced Raman spectroscopy (SERS). Here, a simple silver nanoparticle‐modified thin polydimethylsiloxane (PDMS) sheet was prepared as a SERS substrate via silicon‐assisted interfacial self‐assembly transfer and Langmuir–Schaefer deposition technique. The influence of the surface coverage on PDMS was investigated and optimized to...

Read More thumbnail image: A silver selfassembled monolayerdecorated polydimethylsiloxane flexible substrate for in situ SERS detection of lowabundance molecules

Quality prediction via semisupervised Bayesian regression with application to propylene polymerization

Published: Jun 28, 2018

Author(s): Yuanmeng Sun, Xinggao Liu, Zeyin Zhang

Journal: Journal of Chemometrics

Abstract Statistical learning techniques are widely used for quality prediction in polymerization processes during the last decades. However, compared to operation variables, quality variables of polypropylene process are usually difficult to acquire resulting from the absence of measuring units. A semisupervised Bayesian regression method is therefore presented to improve the prediction accuracy by sufficient usage of unlabeled...

Read More thumbnail image: Quality prediction via semisupervised Bayesian regression with application to propylene polymerization

Developing a ridge estimator for the gamma regression model

Published: Jun 28, 2018

Author(s): Zakariya Yahya Algamal

Journal: Journal of Chemometrics

Abstract The ridge regression model has been consistently demonstrated to be an attractive shrinkage method to reduce the effects of multicollinearity. The gamma regression model is a very popular model in the application when the response variable is positively skewed. However, it is known that multicollinearity negatively affects the variance of maximum likelihood estimator of the gamma regression coefficients. To address this...

Read More thumbnail image: Developing a ridge estimator for the gamma regression model

Comparative studies of immobilized chiral stationary phases based on polysaccharide derivatives for enantiomeric separation of 15 azole compounds

Published: Jun 28, 2018

Author(s): Bolin Zhu, Miaoduo Deng, Yaqi Yao, Jia Yu, Qing Li

Journal: ELECTROPHORESIS

Abstract Immobilized polysaccharide‐based columns showed excellent enantioselectivity in normal phase separation mode. In this work, enantioseparation abilities of four immobilized polysaccharide‐derived chiral stationary phases (Chiralpak IA, Chiralpak IB, Chiralpak IC, and Chiralpak ID) toward 15 azole compounds were evaluated. Separation was carried out using n‐hexane as mobile phase with ethanol, 1‐propanol, 1‐butanol, and...

Read More thumbnail image: Comparative studies of immobilized chiral stationary phases based on polysaccharide derivatives for enantiomeric separation of 15 azole compounds

Degradation and residues of indoxacarb enantiomers in rice plants, rice hulls and brown rice using enriched S‐ indoxacarb formulation and enantiopure formulation

Published: Jun 27, 2018

Author(s): Lihong Shi, Ting Gui, Shan Zhao, Jin Xu, Fei Wang, Changling Sui, Yuping Zhang, Deyu Hu

Journal: Biomedical Chromatography

Abstract A chiral liquid chromatography–tandem high resolution mass spectroscopic method was developed for the analysis of indoxacarb enantiomers in rice plants, rice hulls and brown rice. Chiral separation of two enantiomers was carried out on a Superchiral S‐OD column maintained at 20°C and eluted with 0.3 mL/min methanol. Samples were extracted by acetonitrile solution with ultrasound and cleansed by dispersive solid‐phase...

Read More thumbnail image: Degradation and residues of indoxacarb enantiomers in rice plants rice hulls and brown rice using enriched S indoxacarb formulation and enantiopure formulation

Simulation of phase I metabolism reactions of clozapine by HLM and photocatalytic methods with the use of UHPLC‐ESI‐MS/MS

Published: Jun 27, 2018

Author(s): Maciej Gawlik, Robert Skibiński

Journal: Biomedical Chromatography

Abstract In this study the comparison of human liver microsomes in in vitro incubation as well as ZnO‐ and TiO2‐assisted photocatalytic degradation of clozapine as a mimicking method of phase I metabolism transformation was performed. Based on reversed‐phase UHPLC separation and high‐resolution MS/MS data, eight transformation products were identified and seven of them were found to be hepatic metabolites of the parent compound. The...

Read More thumbnail image: Simulation of phase I metabolism reactions of clozapine by HLM and photocatalytic methods with the use of UHPLCESIMSMS

On‐site detection of succinylcholine in biomedical matrix by surface‐enhanced Raman spectroscopy

Published: Jun 27, 2018

Author(s): Kai Wang, Yingjie Zhu, Jianfeng Wu, Lei Guo, Jianwei Xie

Journal: Journal of Raman Spectroscopy

Abstract Choline receptor blocker succinylcholine (suxamethonium [SUX]) is a depolarizing neuromuscular blocking agent to relax muscles. It is often used in clinic to conduct auxiliary endotracheal intubation as a surgical anesthetic inducer, which can cause respiratory depression and cardiac arrest. In recent years, SUX was occasionally used for theft and crime by daubing on darts, resulting in intoxication or even death. Regarding...

Read More thumbnail image: Onsite detection of succinylcholine in biomedical matrix by surfaceenhanced Raman spectroscopy

Leveraging coffee‐ring effect on plasmonic paper substrate for sensitive analyte detection using Raman spectroscopy

Published: Jun 27, 2018

Author(s): Zufang Huang, Arun Nagpal, Soumik Siddhanta, Ishan Barman

Journal: Journal of Raman Spectroscopy

Abstract Raman spectroscopy has demonstrated immense promise as a molecular fingerprinting tool in biomedical diagnostics. However, the utility of conventional Raman scattering for ultrasensitive measurements of biofluids is limited by intrinsically weak signals and has spurred advances in and wider applications of plasmon‐enhanced measurements. Here, we propose a label‐free methodology that leverages drop coating deposition on a...

Read More thumbnail image: Leveraging coffeering effect on plasmonic paper substrate for sensitive analyte detection using Raman spectroscopy

Raman microscopy as a tool to discriminate mineral phases of volcanic origin and contaminations on red and yellow ochre raw pigments from P ompeii

Published: Jun 27, 2018

Author(s): Iker Marcaida, Maite Maguregui, Héctor Morillas, Marco Veneranda, Nagore Prieto‐Taboada, Silvia Fdez‐Ortiz de Vallejuelo, Juan Manuel Madariaga

Journal: Journal of Raman Spectroscopy

Abstract Raman microscopy is a molecular technique that is able to detect compounds that are present in the samples at minor/trace levels thanks to the precise focusing on particles of interest. The detection will also depend on the Raman scattering of the measured compound. Moreover, due to the nondestructive character of the measurements, this technique is one of the most used when samples under study belong to the arts and...

Read More thumbnail image: Raman microscopy as a tool to discriminate mineral phases of volcanic origin and contaminations on red and yellow ochre raw pigments from P ompeii

Tissue distribution study of periplocin and its two metabolites in rats by a validated LC–MS/MS method

Published: Jun 26, 2018

Author(s): Huaming Liu, Dandan Zhang, Zhidan Tang, Mengjie Sun, John Teye Azietaku, Huizi Ouyang, Yanxu Chang, Meng Wang, Jun He, Xiumei Gao

Journal: Biomedical Chromatography

Abstract Periplocin is a cardiac glycoside and has been used widely in the clinic for its cardiotonic, anti‐inflammatory and anti‐tumor effects. Although it is taken frequently by oral administration in the clinic, there have been no reports demonstrating that periplocin could be detected in vivo after an oral administration, so there is an urgen need to determine the characteristics of periplocin in vivo after oral administration. In this...

Read More thumbnail image: Tissue distribution study of periplocin and its two metabolites in rats by a validated LCMSMS method

Direct quantitation of endogenous steroid sulfates in human urine by liquid chromatography‐electrospray tandem mass spectrometry

Published: Jun 26, 2018

Author(s): Argitxu Esquivel, Élida Alechaga, Núria Monfort, Rosa Ventura

Journal: Drug Testing and Analysis

Abstract A method based on liquid chromatography–tandem mass spectrometry (LC–MS/MS) for the direct quantitation of endogenous steroid sulfates has been developed to be able to evaluate these metabolites as biomarkers to detect the misuse of endogenous androgenic anabolic steroids in sports. For sample preparation, a mixed‐mode solid‐phase extraction was optimized to eliminate the glucuronide fraction in the washing step thus...

Read More thumbnail image: Direct quantitation of endogenous steroid sulfates in human urine by liquid chromatographyelectrospray tandem mass spectrometry

Phonon properties of ZnSnSb2  +  Mn semiconductors: Raman spectroscopy

Published: Jun 26, 2018

Author(s): Maja Romcevic, Martina Gilic, Lukasz Kilanski, Witold Dobrowolski, Irina Valentinovna Fedorchenko, Sergey Fedorovich Marenkin, Nebojsa Romcevic

Journal: Journal of Raman Spectroscopy

Abstract Doping of II–IV–V2 semiconductors opens up new opportunities for wide application. Addition of Mn to these materials induces formation of magnetic clusters, which are responsible for high‐temperature ferromagnetism. Our aim was to examine how the addition of Mn influences the optical and structural properties of ZnSnSb2 by micro‐Raman spectroscopy. For four samples of Zn1 − xMnxSnSb2 synthesized using the direct fusion...

Read More thumbnail image: Phonon properties of ZnSnSb2  Mn semiconductors Raman spectroscopy

Development and validation of an LC–MS/MS Method for the quantitation of heparan sulfate in human urine

Published: Jun 25, 2018

Author(s): Kai Wang, Ming Li, Yijin Xiao, Mark Ma, Wei Hu, Tao Liang, Zhongping John Lin

Journal: Biomedical Chromatography

Abstract Heparan sulfate is a linear polysaccharide and serves as an important biomarker to monitor patient response to therapies for MPS III disorder. It is challenging to analyze heparan sulfate intact owing to its complexity and heterogeneity. Therefore, a sensitive, robust and validated LC–MS/MS method is needed to support the clinical studies for the quantitation of heparan sulfate in biofluids under regulated settings....

Read More thumbnail image: Development and validation of an LCMSMS Method for the quantitation of heparan sulfate in human urine

Assessments of tumor metabolism with CEST MRI

Published: Jun 25, 2018

Author(s): Joshua M. Goldenberg, Mark D. Pagel

Journal: NMR in Biomedicine

Chemical exchange saturation transfer (CEST) is a relatively new contrast mechanism for MRI. CEST MRI exploits a specific MR frequency (chemical shift) of a molecule while generating an image with good spatial resolution using standard MRI techniques, combining the specificity of MRS with the spatial resolution of MRI. Many CEST MRI acquisition methods have been developed to improve analyses of tumor metabolism. GluCEST, CrCEST, and...

Read More thumbnail image: Assessments of tumor metabolism with CEST MRI

Synergistic thermo‐Raman and calorimetric kinetic study of the cation modifier's role in binary metaphosphate glasses

Published: Jun 25, 2018

Author(s): Mariana Sendova, José A. Jiménez

Journal: Journal of Raman Spectroscopy

Abstract A comprehensive temperature‐dependent Raman spectroscopy and differential scanning calorimetry study has been performed on three metaphosphate glasses with different modifying cations (Ca2+, Ba2+, and Pb2+). The P–NBO (nonbridging oxygen) Raman spectral feature, the force constant, and the glass transition activation energy (AETg) are shown to be strongly correlated to the relative effective nuclear charge difference between the modifying and the...

Read More thumbnail image: Synergistic thermoRaman and calorimetric kinetic study of the cation modifiers role in binary metaphosphate glasses

Genetic support vector machines as powerful tools for the analysis of biomedical Raman spectra

Published: Jun 25, 2018

Author(s): Robert Hunter, Hanan Anis

Journal: Journal of Raman Spectroscopy

Abstract The growing number of applications of Raman spectroscopy in medicine necessitates the development of robust and accurate processing methods. The two major tasks for which Raman spectra are used are quantifying chemical species in a sample (regression) and discriminating chemically distinct samples (classification). Conventionally, linear techniques, primarily projection to latent structures (PLS), are used to perform these...

Read More thumbnail image: Genetic support vector machines as powerful tools for the analysis of biomedical Raman spectra

Initial excited‐state structural dynamics of uridine from resonance Raman spectroscopy

Published: Jun 25, 2018

Author(s): Swaroop Sasidharanpillai, Steve P. Dempster, Glen R. Loppnow

Journal: Journal of Raman Spectroscopy

Abstract The effect of the N1 ribose sugar on the initial excited‐state structural dynamics of uridine is explored with ultraviolet resonance Raman spectroscopy. Excited‐state slopes and broadening parameters were obtained by simulating the resonance Raman excitation profiles and absorption spectrum using a self‐consistent, time‐dependent formalism. The initial excited‐state structural dynamics of uridine look similar to those of...

Read More thumbnail image: Initial excitedstate structural dynamics of uridine from resonance Raman spectroscopy
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