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Deconvolution

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https://www.readbyqxmd.com/read/28345888/influence-of-ring-strain-and-bond-polarization-on-the-ring-expansion-of-phosphorus-homocycles
#1
Saurabh S Chitnis, Rebecca A Musgrave, Hazel A Sparkes, Natalie E Pridmore, Vincent T Annibale, Ian Manners
Heterolytic cleavage of homoatomic bonds is a challenge, as it requires separation of opposite charges. Even highly strained homoatomic rings (e.g., cyclopropane and cyclobutane) are kinetically stable and do not react with nucleophiles or electrophiles. In contrast, cycloalkanes bearing electron-donating/withdrawing substituents on adjacent carbons have polarized C-C bonds and undergo numerous heterolytic ring-opening and expansion reactions. Here we show that upon electrophile activation phosphorus homocycles exhibit analogous reactivity, which is modulated by the amount of ring strain and extent of bond polarization...
March 27, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/28342981/mechanisms-of-in-vivo-release-of-triamcinolone-acetonide-from-plga-microspheres
#2
Amy C Doty, David G Weinstein, Keiji Hirota, Karl F Olsen, Rose Ackermann, Yan Wang, Stephanie Choi, Steven P Schwendeman
Little is known about the underlying effects controlling in vitro-in vivo correlations (IVIVCs) for biodegradable controlled release microspheres. Most reports of IVIVCs that exist are empirical in nature, typically based on a mathematical relationship between in vitro and in vivo drug release, with the latter often estimated by deconvolution of pharmacokinetic data. In order to improve the ability of in vitro release tests to predict microsphere behavior in vivo and develop more meaningful IVIVCs, the in vivo release mechanisms need to be characterized...
March 22, 2017: Journal of Controlled Release: Official Journal of the Controlled Release Society
https://www.readbyqxmd.com/read/28341596/application-of-an-nlme-stochastic-deconvolution-approach-to-level-a-ivivc-modeling
#3
Maziar Kakhi, Sandra Suarez-Sharp, Terry Shepard, Jason Chittenden
Stochastic deconvolution is a parameter estimation method that calculates drug absorption using a non-linear mixed effects model in which the random effects associated with absorption represent a Wiener process. The present work compares, 1) stochastic deconvolution, and 2) numerical deconvolution, using clinical pharmacokinetic data generated for an IVIVC study of extended release (ER) formulations of a BCS class III drug substance. The preliminary analysis found that numerical and stochastic deconvolution yielded superimposable fraction absorbed (Fabs) versus time profiles when supplied with exactly the same externally-determined unit impulse response parameters...
March 21, 2017: Journal of Pharmaceutical Sciences
https://www.readbyqxmd.com/read/28337921/resonant-coupling-between-molecular-vibrations-and-localized-surface-plasmon-resonance-of-faceted-metal-oxide-nanocrystals
#4
Ankit Agrawal, Ajay Singh, Sadegh Yazdi, Amita Singh, Gary K Ong, Karen Bustillo, Robert W Johns, Emilie Ringe, Delia J Milliron
Doped metal oxides are plasmonic materials that boast both synthetic and postsynthetic spectral tunability. They have already enabled promising smart window and optoelectronic technologies and have been proposed for use in surface enhanced infrared absorption spectroscopy (SEIRA) and sensing applications. Herein, we report the first step toward realization of the former utilizing cubic F and Sn codoped In2O3 nanocrystals (NCs) to couple to the C-H vibration of surface-bound oleate ligands. Electron energy loss spectroscopy is used to map the strong near-field enhancement around these NCs that enables localized surface plasmon resonance (LSPR) coupling between adjacent nanocrystals and LSPR-molecular vibration coupling...
March 24, 2017: Nano Letters
https://www.readbyqxmd.com/read/28334758/n1-methyl-pseudouridine-in-mrna-enhances-translation-through-eif2%C3%AE-dependent-and-independent-mechanisms-by-increasing-ribosome-density
#5
Yuri V Svitkin, Yi Min Cheng, Tirtha Chakraborty, Vladimir Presnyak, Matthias John, Nahum Sonenberg
Certain chemical modifications confer increased stability and low immunogenicity to in vitro transcribed mRNAs, thereby facilitating expression of therapeutically important proteins. Here, we demonstrate that N1-methyl-pseudouridine (N1mΨ) outperforms several other nucleoside modifications and their combinations in terms of translation capacity. Through extensive analysis of various modified transcripts in cell-free translation systems, we deconvolute the different components of the effect on protein expression independent of mRNA stability mechanisms...
February 23, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28330342/experimental-verification-of-the-cluster-model-of-ch3f-ortho-h2-n-in-solid-para-h2-by-using-mid-infrared-pump-probe-laser-spectroscopy
#6
Yuki Miyamoto, Asao Mizoguchi, Hideto Kanamori
The bleaching process in the C-F stretching mode (ν3 band) of CH3F-(ortho-H2)n [n = 0 and 1] clusters in solid para-H2 was monitored using pump and probe laser spectroscopy on the C-H stretching mode (ν1 and 2ν5 bands). From an analysis of the depleted spectral profiles, the transition frequency and linewidth of each cluster were directly determined. The results agree with the values previously derived from a deconvolution analysis of the broadened ν1/2ν5 spectrum observed by FTIR spectroscopy. The complementary increase and decrease between the n = 0 and 1 components were also verified through monitoring the ν1 and 2ν5 bands, which suggests a closed system among the CH3F-(ortho-H2)n clusters...
March 21, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/28330041/retinal-tractography-influence-of-diffusion-acquisition-ocular-laterality-and-ocular-dominance-in-healthy-subjects
#7
Clément Jean, Arnaud Attyé, Sylvie Grand, Augustin Lecler, Christophe Chiquet, Florent Aptel, Laurent Lamalle, Alexandre Krainik
PURPOSE: Exploration of the human retina has never been described with MRI tractography, supposedly because of ocular movement-related artifacts and imaging distortions with EPI diffusion acquisition. In this work, we used track-weighting imaging to assess retinal fascicles. Diffusion acquisition parameters influence was studied and the relationship between variability and ocular laterality and ocular dominance was explored. MATERIALS AND METHODS: Twenty healthy subjects underwent MRI, with retinal tractography calculated with the constrained spherical deconvolution model...
March 2017: Journal of Neuroradiology. Journal de Neuroradiologie
https://www.readbyqxmd.com/read/28330019/facial-nerve-tractography-a-new-tool-to-detect-perineural-invasion-in-parotid-cancers
#8
René-Charles Rouchy, Arnaud Attyé, Irène Troprès, Maud Medici, Adrian Kastler, Christian Righini, Alexandre Krainik
PURPOSE: To determine whether magnetic resonance (MR) tractography of facial nerve (VIIn) is useful to detect perineural invasion in case of parotid cancers. MATERIALS AND METHODS: Thirty patients, aged 18 or over, were enrolled in this prospective study between December 2013 and March 2016 (IRB 5891), with a diagnosis of parotid tumors (15 malignant, 15 benign). They have undergone preoperative MR scans (3.0-T) before surgical management. The parameters of the diffusion-weighted (DW) sequence were b-value of 1000s/mm(2); 32 directions; voxel size: 2mm isotropic; scan time: 9' The post-processing generates whole-neck constrained spherical deconvolution (CSD)-based tractography data and super-resolution track-weighted imaging (TWI) technique...
March 2017: Journal of Neuroradiology. Journal de Neuroradiologie
https://www.readbyqxmd.com/read/28329397/resveratrol-improves-vascular-function-and-mitochondrial-number-but-not-glucose-metabolism-in-older-adults
#9
Rena M Pollack, Nir Barzilai, Valentin Anghel, Ameya S Kulkarni, Aaron Golden, Pilib O'Broin, David A Sinclair, Michael S Bonkowski, Alexander J Coleville, Danielle Powell, Sharon Kim, Ruin Moaddel, Daniel Stein, Kehao Zhang, Meredith Hawkins, Jill P Crandall
Background: Resveratrol, a plant-derived polyphenol, has been reported to improve glucose metabolism and vascular function and to extend life span in animal models, but studies in humans have been inconclusive. Methods: In a randomized, double-blind crossover study, we treated older glucose-intolerant adults (n = 30) with resveratrol (2-3 g/daily) or placebo, each for 6 weeks. A standard mixed-meal test was used to assess insulin sensitivity (Matsuda index) and secretion (C-peptide deconvolution) and vascular function by reactive hyperemia peripheral arterial tonometry...
March 16, 2017: Journals of Gerontology. Series A, Biological Sciences and Medical Sciences
https://www.readbyqxmd.com/read/28325848/hierarchically-aligning-10-legume-genomes-establishes-a-family-level-genomics-platform
#10
Jinpeng Wang, Pengchuan Sun, Yuxian Li, Yinzhe Liu, Jigao Yu, Xuelian Ma, Sangrong Sun, Nanshan Yang, Ruiyan Xia, Tianyu Lei, Xiaojian Liu, Beibei Jiao, Yue Xing, Weina Ge, Li Wang, Zhenyi Wang, Xiaoming Song, Min Yuan, Di Guo, Lan Zhang, Jiaqi Zhang, Dianchuan Jin, Wei Chen, Yuxin Pan, Tao Liu, Ling Jin, Jinshuai Sun, Jiaxiang Yu, Rui Cheng, Xueqian Duan, Shaoqi Shen, Jun Qin, Mengchen Zhang, Andrew H Paterson, Xiyin Wang
Mainly due to their economic importance, genomes of 10 legumes, including soybean, wild peanuts, barrel medic, etc, have been sequenced. However, a family-level comparative genomics analysis has been unavailable. With grape and selected legume genomes as outgroups, we managed to perform a hierarchical and event-related alignment of these genomes and deconvoluted layers of homologous regions produced by ancestral polyploidizations or speciations. Consequently, we illustrated genomic fractionation characterized by wide-spread gene losses after the polyploidizations...
March 21, 2017: Plant Physiology
https://www.readbyqxmd.com/read/28324942/quantitative-analysis-of-histological-tissue-image-based-on-cytological-profiles-and-spatial-statistics
#11
Young Hwan Chang, Guillaume Thibault, Vahid Azimi, Brett Johnson, Danielle Jorgens, Jason Link, Adam Margolin, Joe W Gray
The cellular heterogeneity and complex tissue architecture of most tumor samples is a major obstacle in image analysis on standard hematoxylin and eosin-stained (H&E) tissue sections. A mixture of cancer and normal cells complicates the interpretation of their cytological profiles. Furthermore, spatial arrangement and architectural organization of cells are generally not reflected in cellular characteristics analysis. To address these challenges, first we describe an automatic nuclei segmentation of H&E tissue sections...
August 2016: Conference Proceedings: Annual International Conference of the IEEE Engineering in Medicine and Biology Society
https://www.readbyqxmd.com/read/28324832/determination-of-the-interconversion-energy-barrier-of-three-novel-pentahelicene-derivative-enantiomers-by-dynamic-high-resolution-liquid-chromatography
#12
Pavel Majek, Jan Krupcik, Zachary S Breitbach, Milan K Dissanayake, Peter Kroll, Aaron A Ruch, LeGrande M Slaughter, Daniel W Armstrong
Dynamic high resolution liquid chromatography (DHPLC) was used to determine the kinetic and thermodynamic activation parameters of interconversion of three novel pentahelicene derivatives {3,5-bis(trifluoromethyl)benzo[i]pentahelicene, naphtho[1,2-i]pentahelicene and 4-methoxybenzo[i]pentahelicene}. DHPLC was performed on a chiral isopropyl - carbamate cyclofructan 6 (LARIHC CF6-P) column under normal phase conditions. Variation of the column temperature and flow rate was used to study the interconversion process...
December 21, 2016: Journal of Chromatography. B, Analytical Technologies in the Biomedical and Life Sciences
https://www.readbyqxmd.com/read/28324825/synthesis-of-%C3%AE-ca2p2o7-tb-3-to-gamma-radiation-detection-by-thermoluminescence
#13
REVIEW
J Roman-Lopez, I B Lozano, E Cruz-Zaragoza, J I Guzman Castañeda, J A I Díaz-Góngora
In this work, luminescent emissions of beta-calcium pyrophosphate doped with terbium ions (β-Ca2P2O7:Tb(3+)) were studied. The Ca2P2O7:Tb(3+) powders were prepared by precipitation and annealed at 900°C for 2h was applied on the powders to observe the beta phase. Radioluminescence measurements showed emission bands related with (5)D3 ((5)D4)→(7)FJ transitions of Tb(3+) ions. Three overlapped peaks at 126, 165 and 220°C were observed in thermoluminescence response. A linear TL dose-response in the range of 0...
March 6, 2017: Applied Radiation and Isotopes
https://www.readbyqxmd.com/read/28319762/growth-of-algal-biomass-in-laboratory-and-in-large-scale-algal-photobioreactors-in-the-temperate-climate-of-western-germany
#14
Christina Schreiber, Dominik Behrendt, Gregor Huber, Christian Pfaff, Janka Widzgowski, Bärbel Ackermann, Andreas Müller, Vilém Zachleder, Šárka Moudříková, Peter Mojzeš, Ulrich Schurr, Johan Grobbelaar, Ladislav Nedbal
Growth of Chlorella vulgaris was characterized as a function of irradiance in a laboratory turbidostat (1L) and compared to batch growth in sunlit modules (5-25L) of the commercial NOVAgreen photobioreactor. The effects of variable sunlight and culture density were deconvoluted by a mathematical model. The analysis showed that algal growth was light-limited due to shading by external construction elements and due to light attenuation within the algal bags. The model was also used to predict maximum biomass productivity...
March 7, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28317983/a-deconvoluted-pl-approach-to-probe-the-charge-carrier-dynamics-of-the-grain-interior-and-grain-boundary-of-a-perovskite-film-for-perovskite-solar-cell-applications
#15
Abdullah Al Mamun, Tanzila Tasnim Ava, Hyeon Jun Jeong, Mun Seok Jeong, Gon Namkoong
We explore a new characterization approach capable of probing the grain interior (GI) and grain boundary (GB) of a CH3NH3PbI3-xClx perovskite thin film. In particular, we have found that the photoluminescence (PL) spectrum observed for a CH3NH3PbI3-xClx perovskite thin film is asymmetric, and can be deconvoluted using a bi-Gaussian function, representing the ordered and disordered phases of the perovskite film. In order to understand the origin of the ordered and disordered phases of the perovskite film, two-dimensional (2D) PL mapping was performed to resolve the PL spectra at the nanoscale level...
March 20, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28317204/cockroach-allergen-serine-proteinases-isolation-sequencing-and-signalling-via-proteinase-activated-receptor-2-par2
#16
Danny J Polley, Koichiro Mihara, Rithwik Ramachandran, Harissios Vliagoftis, Bernard Renaux, Mahmoud Saifeddine, Michael O Daines, Scott Boitano, Morley D Hollenberg
BACKGROUND: Allergy to the German cockroach (Blattella germanica) is a significant asthma risk factor for inner-city communities. Cockroach, like other allergens, contains trypsin-like enzyme activity that contributes to allergenicity and airway inflammation by activating proteinase-activated receptors (PARs). To date, the enzymes responsible for the proteolytic activity of German cockroach allergen have not been characterized. OBJECTIVES: We aimed to identify, isolate and characterize the trypsin-like proteinases in German cockroach allergen extracts used for clinical skin tests...
March 20, 2017: Clinical and Experimental Allergy: Journal of the British Society for Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/28316637/noise-attenuation-estimation-for-maximum-length-sequences-in-deconvolution-process-of-auditory-evoked-potentials
#17
Xian Peng, Yun'er Chen, Tao Wang, Lei Ding, Xiaodan Tan
The use of maximum length sequence (m-sequence) has been found beneficial for recovering both linear and nonlinear components at rapid stimulation. Since m-sequence is fully characterized by a primitive polynomial of different orders, the selection of polynomial order can be problematic in practice. Usually, the m-sequence is repetitively delivered in a looped fashion. Ensemble averaging is carried out as the first step and followed by the cross-correlation analysis to deconvolve linear/nonlinear responses...
2017: Computational and Mathematical Methods in Medicine
https://www.readbyqxmd.com/read/28300561/nucleolin-is-a-nuclear-target-of-heparan-sulfate-derived-from-glypican-1
#18
Fang Cheng, Mattias Belting, Lars-Åke Fransson, Katrin Mani
The recycling, S-nitrosylated heparan sulfate (HS) proteoglycan glypican-1 releases anhydromannose (anMan)-containing HS chains by a nitrosothiol-catalyzed cleavage in endosomes that can be constitutive or induced by ascorbate. The HS-anMan chains are then transported to the nucleus. A specific nuclear target for HS-anMan has not been identified. We have monitored endosome-to-nucleus trafficking of HS-anMan by deconvolution and confocal immunofluorescence microscopy using an anMan-specific monoclonal antibody in non-growing, ascorbate-treated, and growing, untreated, wild-type mouse embryonic fibroblasts and hypoxia-exposed Alzheimer mouse Tg2576 fibroblasts and human U87 glioblastoma cells...
March 12, 2017: Experimental Cell Research
https://www.readbyqxmd.com/read/28300014/single-ion-deconvolution-of-mass-peak-overlaps-for-atom-probe-microscopy
#19
Andrew J London, Daniel Haley, Michael P Moody
Due to the intrinsic evaporation properties of the material studied, insufficient mass-resolving power and lack of knowledge of the kinetic energy of incident ions, peaks in the atom probe mass-to-charge spectrum can overlap and result in incorrect composition measurements. Contributions to these peak overlaps can be deconvoluted globally, by simply examining adjacent peaks combined with knowledge of natural isotopic abundances. However, this strategy does not account for the fact that the relative contributions to this convoluted signal can often vary significantly in different regions of the analysis volume; e...
March 16, 2017: Microscopy and Microanalysis
https://www.readbyqxmd.com/read/28292322/revealing-large-metagenomic-regions-through-long-dna-fragment-hybridization-capture
#20
Cyrielle Gasc, Pierre Peyret
BACKGROUND: High-throughput DNA sequencing technologies have revolutionized genomic analysis, including the de novo assembly of whole genomes from single organisms or metagenomic samples. However, due to the limited capacity of short-read sequence data to assemble complex or low coverage regions, genomes are typically fragmented, leading to draft genomes with numerous underexplored large genomic regions. Revealing these missing sequences is a major goal to resolve concerns in numerous biological studies...
March 14, 2017: Microbiome
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