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Principal components analysis

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https://www.readbyqxmd.com/read/28527949/microproteome-of-dentoalveolar-tissues
#1
Cristiane R Salmon, Ana Paula O Giorgetti, Adriana F Paes Leme, Romênia R Domingues, Tamara N Kolli, Brian L Foster, Francisco H Nociti
Proteomic analysis of extracellular matrices (ECM) of dentoalveolar tissues can provide insights into developmental, pathological, and reparative processes. However, targeted dissection of mineralized tissues, dental cementum (DC), alveolar bone (AB), and dentin (DE), presents technical difficulties. We demonstrate an approach combining EDTA decalcification and laser capture microdissection (LCM), followed by liquid chromatography coupled to tandem mass spectrometry (LC-MS/MS), to analyze proteome profiles of these tissues...
May 17, 2017: Bone
https://www.readbyqxmd.com/read/28527516/a-feasible-economical-and-accurate-analytical-method-for-simultaneous-determination-of-six-alkaloid-markers-in-aconiti-lateralis-radix-praeparata-from-different-manufacturing-sources-and-processing-ways
#2
Yi-Bei Zhang, Juan DA, Jing-Xian Zhang, Shang-Rong Li, Xin Chen, Hua-Li Long, Qiu-Rong Wang, Lu-Ying Cai, Shuai Yao, Jin-Jun Hou, Wan-Ying Wu, De-An Guo
Aconiti Lateralis Radix Praeparata (Fuzi) is a commonly used traditional Chinese medicine in clinic for its potency in restoring yang and rescuing from collapse. Aconiti alkaloids, mainly including monoester-diterpenoidaconitines (MDAs) and diester-diterpenoidaconitines (DDAs), are considered to act as both bioactive and toxic constituents. In the present study, a feasible, economical, and accurate HPLC method for simultaneous determination of six alkaloid markers using the Single Standard for Determination of Multi-Components (SSDMC) method was developed and fully validated...
April 2017: Chinese Journal of Natural Medicines
https://www.readbyqxmd.com/read/28527418/atmospheric-pcdd-f-concentration-and-source-apportionment-in-typical-rural-agent-orange-hotspots-and-industrial-areas-in-vietnam
#3
Tuan Hung Ngo, To Thi Hien, Ngo Thi Thuan, Nguyen Hung Minh, Kai Hsien Chi
Vietnam has a double burden of dioxin from both industrial sources and historical sources. To evaluate the concentration of PCDD/Fs in ambient air in different areas of Vietnam and their possible sources, atmospheric samples were collected from three areas namely Son La (rural area) and Da Nang (harbor - Agent Orange hotspot area), and Ho Chi Minh City (metropolitan - industrial city). Vapor and solid phases of PCDD/Fs were collected and analyzed following the TO-9A sampling method. Principal Component Analysis and Positive Matrix Factorization model were applied to characterize the possible source...
May 11, 2017: Chemosphere
https://www.readbyqxmd.com/read/28527317/fully-automatic-segmentation-of-left-ventricular-anatomy-in-3-d-lge-mri
#4
Tanja Kurzendorfer, Christoph Forman, Michaela Schmidt, Christoph Tillmanns, Andreas Maier, Alexander Brost
The current challenge for electrophysiology procedures, targeting the left ventricle, is the localization and qualification of myocardial scar. Late gadolinium enhanced magnetic resonance imaging (LGE-MRI) is the current gold standard to visualize regions of myocardial infarction. Commonly, a stack of 2-D images is acquired of the left ventricle in short-axis orientation. Recently, 3-D LGE-MRI methods were proposed that continuously cover the whole heart with a high resolution within a single acquisition. The acquisition promises an accurate quantification of the myocardium to the extent of myocardial scarring...
May 8, 2017: Computerized Medical Imaging and Graphics: the Official Journal of the Computerized Medical Imaging Society
https://www.readbyqxmd.com/read/28526818/essential-hypertension-a-filtered-serum-based-metabolomics-study
#5
Keerti Ameta, Ashish Gupta, Sudeep Kumar, Rishi Sethi, Deepak Kumar, Abbas Ali Mahdi
Despite the easy and reliable methods of blood pressure measurement, the screening of essential hypertension (EH) is usually ignored due to delayed onset of symptoms. A probe into the biochemical changes in hypertension would serve as a welcome asset to provide insight into the mechanistic aspects of EH. Filtered serum samples from 64 EH patients and 59 healthy controls (HC) were analysed using 800 MHz nuclear magnetic resonance (NMR) spectroscopy. Application of principal component analysis (PCA) and orthogonal partial least-squares discriminant analysis (OPLS-DA) following receiver operating characteristic (ROC) curve of NMR data reveals significantly perturbed metabolites: alanine, arginine, methionine, pyruvate, adenine, and uracil...
May 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28526039/influences-on-patient-satisfaction-in-healthcare-centers-a-semi-quantitative-study-over-5%C3%A2-years
#6
Ruth D Thornton, Nicole Nurse, Laura Snavely, Stacey Hackett-Zahler, Kenice Frank, Robert A DiTomasso
BACKGROUND: Knowledge of ambulatory patients' satisfaction with clinic visits help improve communication and delivery of healthcare. The goal was to examine patient satisfaction in a primary care setting, identify how selected patient and physician setting and characteristics affected satisfaction, and determine if feedback provided to medical directors over time impacted patient satisfaction. METHODS: A three-phase, semi-quantitative analysis was performed using anonymous, validated patient satisfaction surveys collected from 889 ambulatory outpatients in 6 healthcare centers over 5-years...
May 19, 2017: BMC Health Services Research
https://www.readbyqxmd.com/read/28525298/experimental-and-computational-evidence-on-the-interaction-of-cycloalkyl-%C3%AE-aminobisphosphonates-with-calf-thymus-dna
#7
Mohammad Bagher Gholivand, Hossein Peyman, Khodayar Gholivand, Hamideh Roshanfekr, Avat Arman Taherpour, Rouhollah Yaghoubi
Fluorescence spectroscopy, ultraviolet-visible absorption spectroscopy, circular dichroism spectroscopy, viscometry, cyclic voltammetry, and differential pulse voltammetry were applied to investigate the competitive interaction of DNA with the three new cycloalkyl α-aminobisphosphonates (D1-D3) and spectroscopic probe, neutral red dye, and Hoechst (HO), in a Tris-hydrogen chloride buffer (pH 7.4). The spectroscopic and voltammetric studies showed that the groove binding mode of interaction is predominant in the solution containing DNA and α-aminobisphosphonates...
May 19, 2017: DNA and Cell Biology
https://www.readbyqxmd.com/read/28524088/a-hybrid-generalized-hidden-markov-model-based-condition-monitoring-approach-for-rolling-bearings
#8
Jie Liu, Youmin Hu, Bo Wu, Yan Wang, Fengyun Xie
The operating condition of rolling bearings affects productivity and quality in the rotating machine process. Developing an effective rolling bearing condition monitoring approach is critical to accurately identify the operating condition. In this paper, a hybrid generalized hidden Markov model-based condition monitoring approach for rolling bearings is proposed, where interval valued features are used to efficiently recognize and classify machine states in the machine process. In the proposed method, vibration signals are decomposed into multiple modes with variational mode decomposition (VMD)...
May 18, 2017: Sensors
https://www.readbyqxmd.com/read/28523741/comparative-membrane-proteomics-analyses-of-breast-cancer-cell-lines-to-understand-the-molecular-mechanism-of-breast-cancer-brain-metastasis
#9
Wenjing Peng, Yu Zhang, Rui Zhu, Yehia Mechref
Breast cancer is the leading type of cancer in women. Breast cancer brain metastasis is currently considered an issue of concern among breast cancer patients. Membrane proteins play important roles in breast cancer brain metastasis, involving cell adhesion and penetration of blood-brain barrier. To understand the mechanism of breast cancer brain metastasis, liquid chromatography-tandem mass spectrometry (LC-MS/MS) was employed in conjunction with enrichment of membrane proteins to analyze the proteomes from 5 different breast cancer and a brain cancer cell lines...
May 19, 2017: Electrophoresis
https://www.readbyqxmd.com/read/28523740/new-data-about-semicircular-canal-morphology-and-locomotion-in-modern-hominoids
#10
Anne Le Maître, Philipp Schuetz, Patrick Vignaud, Michel Brunet
The labyrinth has two functional parts: the cochlea for audition and the vestibular system for equilibrioception. In the latter, the semicircular ducts and the otolithic organs are sensitive to rotational and linear accelerations of the head, respectively. The labyrinthine morphology influences perception accuracy, hence the adaptation to a specific locomotor pattern. The aim of this study is to determine the relationship between locomotion and semicircular canal morphology using geometric morphometrics, and to explain these links with existing functional models...
May 19, 2017: Journal of Anatomy
https://www.readbyqxmd.com/read/28522995/dysbiosis-of-intestinal-microbiota-and-decreased-antimicrobial-peptide-level-in-paneth-cells-during-hypertriglyceridemia-related-acute-necrotizing-pancreatitis-in-rats
#11
Chunlan Huang, Jing Chen, Jingjing Wang, Hui Zhou, Yingying Lu, Lihong Lou, Junyuan Zheng, Ling Tian, Xingpeng Wang, Zhongwei Cao, Yue Zeng
Hypertriglyceridemia (HTG) aggravates the course of acute pancreatitis (AP). Intestinal barrier dysfunction is implicated in the pathogenesis of AP during which dysbiosis of intestinal microbiota contributes to the dysfunction in intestinal barrier. However, few studies focus on the changes in intestine during HTG-related acute necrotizing pancreatitis (ANP). Here, we investigated the changes in intestinal microbiota and Paneth cell antimicrobial peptides (AMPs) in HTG-related ANP (HANP) in rats. Rats fed a high-fat diet to induce HTG and ANP was induced by retrograde injection of 3...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28522731/effect-of-metformin-on-bioactive-lipid-metabolism-in-insulin-resistant-muscle
#12
Piotr Zabielski, Marta Chacinska, Karol Charkiewicz, Marcin Baranowski, Jan Gorski, Agnieszka U Blachnio-Zabielska
Intramuscular accumulation of bioactive lipids leads to insulin resistance and type 2 diabetes (T2D). There is lack of consensus concerning which of the lipid mediators has the greatest impact on muscle insulin action in vivo Our aim was to elucidate the effects of high-fat diet (HFD) and metformin (Met) on skeletal muscle bioactive lipid accumulation and insulin resistance (IR) in rats. We employed a [U-(13)C]palmitate isotope tracer and mass spectrometry to measure the content and fractional synthesis rate (FSR) of intramuscular long-chain acyl-CoA (LCACoA), diacylglycerols (DAG) and ceramide (Cer)...
June 2017: Journal of Endocrinology
https://www.readbyqxmd.com/read/28522574/single-cell-immune-profiling-by-mass-cytometry-of-newly-diagnosed-chronic-phase-chronic-myeloid-leukaemia-treated-with-nilotinib
#13
Stein-Erik Gullaksen, Jørn Skavland, Sonia Gavasso, Vinko Tosevski, Krzysztof Warzocha, Claudia Dumrese, Augustin Ferrant, Tobias Gedde-Dahl, Andrzej Hellmann, Jeroen Janssen, Boris Labar, Alois Lang, Waleed Majeed, Georgi Mihaylov, Jesper Stentoft, Leif Stenke, Josef Thaler, Noortje Thielen, Gregor Verhoef, Jaroslava Voglova, Gert Ossenkoppele, Andreas Hochhaus, Henrik Hjorth-Hansen, Satu Mustjoki, Sieghart Sopper, Francis Giles, Kimmo Porkka, Dominik Wolf, Bjørn Tore Gjertsen
Monitoring of single cell signal transduction in leukemic cellular subsets has been proposed to provide deeper understanding of disease biology and prognostication, but has so far not been tested in a clinical trial of targeted therapy. We developed a complete mass cytometry analysis pipeline for characterization of intracellular signal transduction patterns in the major leukocyte subsets of chronic phase chronic myeloid leukaemia. Changes in phosphorylated Bcr-Abl1 and its involved signalling pathways were readily identifiable in peripheral blood single cells already within 3 hours of per oral nilotinib dosing...
May 18, 2017: Haematologica
https://www.readbyqxmd.com/read/28521953/optimized-selection-of-liquid-chromatography-conditions-for-wide-range-analysis-of-natural-compounds
#14
Aurélie Periat, Davy Guillarme, Jean-Luc Veuthey, Julien Boccard, Sofia Moco, Denis Barron, Alexandre Grand-Guillaume Perrenoud
Plant secondary metabolites are an almost unlimited reservoir of potential bioactive compounds. In view of the wide chemical space covered by natural compounds, their comprehensive analysis requires multiple and complementary approaches. In this study, numerous chromatographic conditions were tested for the analysis of a set of 120 representative natural compounds covering a wide polarity range (18 log P units). The experiments were performed on 59 different conditions involving 29 RPLC and HILIC dedicated stationary phases, as well as more exotic mixed mode columns...
May 10, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/28521878/combining-a-nontargeted-and-targeted-metabolomics-approach-to-identify-metabolic-pathways-significantly-altered-in-polycystic-ovary-syndrome
#15
Alice Y Chang, Antigoni Z Lalia, Gregory D Jenkins, Tumpa Dutta, Rickey E Carter, Ravinder J Singh, K Sreekumaran Nair
OBJECTIVE: Polycystic ovary syndrome (PCOS) is a condition of androgen excess and chronic anovulation frequently associated with insulin resistance. We combined a nontargeted and targeted metabolomics approach to identify pathways and metabolites that distinguished PCOS from metabolic syndrome (MetS). METHODS: Twenty obese women with PCOS were compared with 18 obese women without PCOS. Both groups met criteria for MetS but could not have diabetes mellitus or take medications that treat PCOS or affect lipids or insulin sensitivity...
June 2017: Metabolism: Clinical and Experimental
https://www.readbyqxmd.com/read/28520403/integrated-strategy-for-unknown-ei-ms-identification-using-quality-control-calibration-curve-multivariate-analysis-ei-ms-spectral-database-and-retention-index-prediction
#16
Teruko Matsuo, Hiroshi Tsugawa, Hiromi Miyagawa, Eiichiro Fukusaki
Compound identification using unknown electron ionization (EI) mass spectra in gas chromatography coupled with mass spectrometry (GC-MS) is challenging in untargeted metabolomics, natural product chemistry, or exposome research. While the total count of EI-MS records included in publicly or commercially available databases is over 900,000, efficient use of this huge database has not been achieved in metabolomics. Therefore, we proposed a 'four-step' strategy for the identification of biologically significant metabolites using an integrated cheminformatics approach: (i) Quality control calibration curve to reduce background noise, (ii) variable selection by hypothesis testing in principal component analysis for the efficient selection of target peaks, (iii) searching the EI-MS spectral database, and (iv) retention index (RI) filtering in combination with RI predictions...
May 18, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28516351/analysis-of-some-metallic-elements-and-metalloids-composition-and-relationships-in-parasol-mushroom-macrolepiota-procera
#17
Jerzy Falandysz, Atindra Sapkota, Anna Dryżałowska, Małgorzata Mędyk, Xinbin Feng
The aim of the study was to characterise the multi-elemental composition and associations between a group of 32 elements and 16 rare earth elements collected by mycelium from growing substrates and accumulated in fruiting bodies of Macrolepiota procera from 16 sites from the lowland areas of Poland. The elements were quantified by inductively coupled plasma quadrupole mass spectrometry using validated method. The correlation matrix obtained from a possible 48 × 16 data matrix has been used to examine if any association exits between 48 elements in mushrooms foraged from 16 sampling localizations by multivariate approach using principal component (PC) analysis...
May 17, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/28516281/tof-sims-study-of-differentiation-of-human-bone-derived-stromal-cells-new-insights-into-osteoporosis
#18
Kaija Schaepe, Janina Werner, Kristina Glenske, Tessa Bartges, Anja Henss, Marcus Rohnke, Sabine Wenisch, Jürgen Janek
Lipids have numerous important functions in the human body, as they form the cells' plasma membranes and play a key role in many disease states, presumably also in osteoporosis. Here, the fatty acid composition of the outer plasma membranes of cells differentiated into the osteogenic and adipogenic direction is studied with surface-sensitive time-of-flight secondary ion mass spectrometry (ToF-SIMS). For data evaluation, principal component analysis (PCA) is applied. Human (bone-derived) mesenchymal stromal cells (hMSCs) from an osteoporotic donor and a control donor are compared to reveal differences in the fatty acid composition of the membranes...
May 18, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28516047/prospective-cardiac-motion-self-gating
#19
Fei Han, Stanislas Rapacchi, Peng Hu
BACKGROUND: To develop a prospective cardiac motion self-gating method that provides robust and accurate cardiac triggers in real time. METHODS: The proposed self-gating method consists of an "imaging mode" that acquires the k-space segments and a "self-gating mode" that captures the cardiac motion by repeatedly sampling the k-space centerline. A training based principal component analysis algorithm is utilized to process the self-gating data where the projection onto the first principal component was used as the self-gating signal...
April 2017: Quantitative Imaging in Medicine and Surgery
https://www.readbyqxmd.com/read/28515887/bottom-up-and-top-down-effects-of-tree-species-diversity-on-leaf-insect-herbivory
#20
Bastien Castagneyrol, Damien Bonal, Maxime Damien, Hervé Jactel, Céline Meredieu, Evalyne W Muiruri, Luc Barbaro
The diversity of plant neighbors commonly results in direct, bottom-up effects on herbivore ability to locate their host, and in indirect effects on herbivores involving changes in plant traits and a top-down control by their enemies. Yet, the relative contribution of bottom-up and top-down forces remains poorly understood. We also lack knowledge on the effect of abiotic constraints such as summer drought on the strength and direction of these effects. We measured leaf damage on pedunculate oak (Quercus robur), alone or associated with birch, pine or both in a long-term tree diversity experiment (ORPHEE), where half of the plots were irrigated while the other half remained without irrigation and received only rainfall...
May 2017: Ecology and Evolution
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