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David T Stark, David M G Anderson, Jacky M K Kwong, Nathan Heath Patterson, Kevin L Schey, Richard M Caprioli, Joseph Caprioli
Purpose: Mammalian central nervous system axons fail to regenerate after injury. Contributing factors include limited intrinsic growth capacity and an inhibitory glial environment. Inflammation-induced optic nerve regeneration (IIR) is thought to boost retinal ganglion cell (RGC) intrinsic growth capacity through progrowth gene expression, but effects on the inhibitory glial environment of the optic nerve are unexplored. To investigate progrowth molecular changes associated with reactive gliosis during IIR, we developed an imaging mass spectrometry (IMS)-based approach that identifies discriminant molecular signals in and around optic nerve crush (ONC) sites...
January 1, 2018: Investigative Ophthalmology & Visual Science
Andriy Kuklya, Lokman Coban, Florian Uteschil, Klaus Kerpen, Ursula Telgheder
Direct inlet probe (DIP) was used as an introduction and a pre-separation step for atmospheric pressure photoionization time-of-flight ion mobility spectrometry (APPI-TOF-IMS) for the first time. IMS is an analytical technique used to separate and identify ionized molecules in the gas phase and under atmospheric pressure based on their mobility. The utilization of DIP prior to IMS gives the possibility to introduce the analytes into the gas phase and provides an additional separation based on their vapor pressure...
April 1, 2018: Talanta
Matthew B O'Rourke, Benjamin B A Raymond, Steven P Djordjevic, Matthew P Padula
Tissue imaging using matrix assisted laser desorption/ionization mass spectrometry (MALDI-MS) is a well-established technique that, in recent years, has seen wider adoption and novel application. Applications such imaging mass spectrometry (IMS) and biotyping are beginning to gain greater exposure and use; however, with limitations in optimization methods, producing the best result often relies on the ability to customize the physical characteristics of the instrumentation, a task that is challenging for most mass spectrometry laboratories...
January 8, 2018: Journal of the American Society for Mass Spectrometry
Alyce Taylor-Brown, Danielle Madden, Adam Polkinghorne
The expanding field of bacterial genomics has revolutionized our understanding of microbial diversity, biology and phylogeny. For most species, DNA extracted from culture material is used as the template for genome sequencing; however, the majority of microbes are actually uncultivable, and others, such as obligate intracellular bacteria, require laborious tissue culture to yield sufficient genomic material for sequencing. Chlamydiae are one such group of obligate intracellular microbes whose characterization has been hampered by this requirement...
January 3, 2018: Microbial Genomics
Iain Dg Campuzano, Jennifer L Lippens
Over the past decade ion mobility (IM) coupled with mass spectrometry (MS) has emerged as a wide spread analytical technique, utilized in research areas ranging from small molecule to proteins analyzed under native-MS and solution conditions. The ion-neutral collision cross section (Ω) derived from an IM experiment can be used to make inferences about the ion's size, shape and charge distribution, when compared to molecular dynamic (MD) or quantum mechanically (QM) derived candidate structures. IM can also be used as an orthogonal separation technique when coupled with liquid chromatographic (LC) separations...
January 4, 2018: Current Opinion in Chemical Biology
Jan Beyer-Westendorf, Reinhold Kreutz, Florian Posch, Cihan Ay
BACKGROUND: The decline of renal function affects stroke risk in patients with atrial fibrillation (AF). Here, we aim to study the predictive value of the CHA2DS2-VASc score, a stroke-risk stratification model in AF, for renal function and renal decline in patients with AF and chronic kidney disease (CKD). METHODS: Two electronic health record cohorts with AF and CKD stage III/IV were evaluated (Cohort #1 (IMS-DA, Germany): 18,539 patients with 125,149 estimated glomerular filtration rate (eGFR) measurements; Cohort #2 (IMS-THIN, United Kingdom): 18,240 patients with 133,676 eGFR measurements)...
February 15, 2018: International Journal of Cardiology
Akif Goktug Bozkurt, Guluzar Gorkem Buyukgoz, Mehmet Soforoglu, Ugur Tamer, Zekiye Suludere, Ismail Hakki Boyaci
In this study, a sandwich immunoassay method utilizing enzymatic activity of alkaline phosphatase (ALP) on 5-bromo-4-chloro-3-indolyl phosphate (BCIP) for Escherichia coli (E. coli) detection was developed using surface enhanced Raman spectroscopy (SERS). For this purpose, spherical magnetic gold coated core-shell nanoparticles (MNPs-Au) and rod shape gold nanoparticles (Au-NRs) were synthesized and modified for immunomagnetic separation (IMS) of E. coli from the solution. In order to specify the developed method to ALP activity, Au-NRs were labeled with this enzyme...
December 21, 2017: Spectrochimica Acta. Part A, Molecular and Biomolecular Spectroscopy
Hakyoung Yoon, Won-Jin Moon, Sang-Soep Nahm, Jaehwan Kim, Kidong Eom
The use of diffusion tensor imaging (DTI) for the characterization of various lesion types in dogs with spinal cord injury (SCI) has not been investigated. The purpose of this study was to characterize scarring [loose immature scarring (LIMS), intermediate mature scarring (IMS), and dense mature scarring (DMS)], necrosis, cavitation, and acute hemorrhage using multiple DTI parameters and determine the correlations between the DTI parameters and histopathological finding in dogs with controlled SCI. All imaging data were obtained from the lumbar spinal cord (from L1 to L3) of normal and SCI dogs using a 3-Tesla magnetic resonance imaging scanner...
January 3, 2018: Journal of Neurotrauma
Natalie Gerhardt, Markus Birkenmeier, Sebastian Schwolow, Sascha Rohn, Philipp Weller
This work describes a simple approach of untargeted profiling of volatile compounds for the authentication of the botanical origin of honey based on resolution-optimized HS-GC-IMS, combined with optimized chemometric techniques, namely PCA, LDA and kNN. A direct comparison of the PCA-LDA models between HS-GC-IMS and 1H-NMR data demonstrated that HS-GC-IMS profiling could be used as a complementary tool to the NMR-based profiling of honey samples. While NMR profiling still requires compara-tively precise sample preparation, in particular, pH adjustment, HS-GC-IMS fingerprinting may be considered as an alternative approach for a truly fully automatable, cost-efficient and in particular, highly sensitive method...
January 3, 2018: Analytical Chemistry
Nicolas Lespes, Etienne Pair, Clisy Maganga, Marie Bretier, Vincent Tognetti, Laurent Joubert, Vincent Levacher, Marie Hubert-Roux, Carlos Afonso, Corinne Loutelier-Bourhis, Jean-François Brière
The fragile intermediates of the domino process leading to isoxazolidin-5-one, triggered by the unique reactivity between Meldrum's acid and N-Bn nitrone in the presence of a Brønsted base, were determined thanks to the softness and accuracy of electrospray ionization mass spectrometry coupled to ion mobility spectrometry (ESI-IMS-MS). The combined DFT study shed light on the overall organocatalytic sequence, which starts by a stepwise (3+2) annulation reaction followed by a decarboxylative protonation sequence encompassing a stereoselective pathway issue...
January 3, 2018: Chemistry: a European Journal
Alok Sharma, Piotr J Kamola, Tatsuhiko Tsunoda
BACKGROUND: Clustering methods are becoming widely utilized in biomedical research where the volume and complexity of data is rapidly increasing. Unsupervised clustering of patient information can reveal distinct phenotype groups with different underlying mechanism, risk prognosis and treatment response. However, biological datasets are usually characterized by a combination of low sample number and very high dimensionality, something that is not adequately addressed by current algorithms...
December 28, 2017: BMC Bioinformatics
Alok Sharma, Yosvany López, Tatsuhiko Tsunoda
BACKGROUND: Biological data comprises various topologies or a mixture of forms, which makes its analysis extremely complicated. With this data increasing in a daily basis, the design and development of efficient and accurate statistical methods has become absolutely necessary. Specific analyses, such as those related to genome-wide association studies and multi-omics information, are often aimed at clustering sub-conditions of cancers and other diseases. Hierarchical clustering methods, which can be categorized into agglomerative and divisive, have been widely used in such situations...
December 28, 2017: BMC Bioinformatics
Sebastiaan Van Nuffel, Nicolas Elie, Ethan Yang, Julius Nouet, David Touboul, Pierre Chaurand, Alain Brunelle
Imaging mass spectrometry (IMS) has become a powerful tool to characterise the spatial distribution of biomolecules in thin tissue sections. In the case of matrix-assisted laser desorption ionisation (MALDI) IMS, homogeneous matrix deposition is critical to produce high quality ion images and sublimation in particular has shown to be an excellent matrix deposition method for the imaging of lipids. Matrix deposition by sublimation is, however, a completely solvent-free system, which ought to prevent the mixing of matrix and analytes thought to be necessary for successful MALDI...
January 3, 2018: Analytical Chemistry
Kie Kyon Huang, Kalpana Ramnarayanan, Feng Zhu, Supriya Srivastava, Chang Xu, Angie Lay Keng Tan, Minghui Lee, Suting Tay, Kakoli Das, Manjie Xing, Aliya Fatehullah, Syed Muhammad Fahmy Alkaff, Tony Kiat Hon Lim, Jonathan Lee, Khek Yu Ho, Steven George Rozen, Bin Tean Teh, Nick Barker, Chung King Chia, Christopher Khor, Choon Jin Ooi, Kwong Ming Fock, Jimmy So, Wee Chian Lim, Khoon Lin Ling, Tiing Leong Ang, Andrew Wong, Jaideepraj Rao, Andrea Rajnakova, Lee Guan Lim, Wai Ming Yap, Ming Teh, Khay Guan Yeoh, Patrick Tan
Intestinal metaplasia (IM) is a pre-malignant condition of the gastric mucosa associated with increased gastric cancer (GC) risk. We performed (epi)genomic profiling of 138 IMs from 148 cancer-free patients, recruited through a 10-year prospective study. Compared with GCs, IMs exhibit low mutational burdens, recurrent mutations in certain tumor suppressors (FBXW7) but not others (TP53, ARID1A), chromosome 8q amplification, and shortened telomeres. Sequencing identified more IM patients with active Helicobacter pylori infection compared with histopathology (11%-27%)...
December 26, 2017: Cancer Cell
Jason Shafrin, Mahlet Gizaw Tebeka, Kwanza Price, Chad Patel, Kaleb Michaud
BACKGROUND: Anticitrullinated protein antibodies (ACPAs) are serological biomarkers associated with early, rapidly progressing rheumatoid arthritis (RA), including more severe disease and joint damage. ACPA testing has become a routine tool for RA diagnosis and prognosis. Furthermore, treatment efficacy has been shown to vary by ACPA-positive status. However, it is not clear if the economic burden of patients with RA varies by ACPA status. OBJECTIVE: To determine if the economic burden of RA varies by patient ACPA status...
January 2018: Journal of Managed Care & Specialty Pharmacy
Marek Psota, Maria Bucek Psenkova, Natalia Racekova, Antonio Ramirez de Arellano, Tom Vandebrouck, Barnaby Hunt
Aims: To investigate the cost-effectiveness of once-daily insulin degludec/liraglutide (IDegLira) versus basal-bolus therapy in patients with type 2 diabetes not meeting glycemic targets on basal insulin from a healthcare payer perspective in Slovakia. Methods: Long-term clinical and economic outcomes for patients receiving IDegLira and basal-bolus therapy were estimated using the IMS CORE Diabetes Model based on a published pooled analysis of patient-level data...
2017: ClinicoEconomics and Outcomes Research: CEOR
G H Ren, R H Weng, Y Shi, P Huang, Z D Li, Y Shao, K F Deng, N G Liu, Y J Chen
Matrix-assisted laser desorption/ionization time-of-flight imaging mass spectrometry (MALDI-TOF-IMS) can analysis unknown compounds in sections and obtain molecule imaging by scanning biological tissue sections, which has become a powerful tool for the research of biomarker, lipid distribution and drug metabolism, etc. This article reviews the application of this technique in protein identification, clinical application, drug discovery, lipid research and brain injury.
October 2017: Fa Yi Xue za Zhi
Jing Chen, Bosoon Park
Immunomagnetic separation (IMS) as a culture-free enrichment sample preparation technique has gained increasing popularity in the development of rapid detection methods for foodborne pathogens. While the use of magnetic nanoparticles in IMS is on the rise due to substantially larger surface area compared to conventional magnetic microparticles, the effects of immunomagnetic bead (IMB) size on pathogen cell recovery are not fully understood. In this study we used IMBs of different sizes (100, 500, and 1000nm diameters) to capture Salmonella Enteritidis, a common foodborne pathogen, from buffer solutions as well as food matrices (chicken carcass rinse and liquid egg white)...
November 28, 2017: International Journal of Food Microbiology
Marta Sans, Clara L Feider, Livia S Eberlin
Tissues present complex biochemical and morphological composition associated with their various cell types and physiological functions. Mass spectrometry (MS) imaging technologies are powerful tools to investigate the molecular information from biological tissue samples and visualize their complex spatial distributions. Coupling of gas-phase ion mobility spectrometry (IMS) technologies to MS imaging has been increasingly explored to improve performance for biological tissue imaging. This approach allows improved detection of low abundance ions and separation of isobaric molecular species, thus resulting in more accurate determination of the spatial distribution of molecular ions...
December 21, 2017: Current Opinion in Chemical Biology
Edward Sisco, Jennifer Verkouteren, Jessica Staymates, Jeffrey Lawrence
Fentanyl and fentanyl analogues represent a current and emerging threat in the United States as pure illicit narcotics and in mixtures with heroin. Because of their extreme potency, methods to safely and rapidly detect these compounds are of high interest. This work investigates the use of thermal desorption direct analysis in real time mass spectrometry (TD-DART-MS) and ion mobility spectrometry (IMS) as tools for the rapid and sensitive (nanogram to picograms) detection of fentanyl, 16 fentanyl analogues, and five additional opioids...
June 2017: Forensic Chem
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