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https://www.readbyqxmd.com/read/28646653/cryo-em-beyond-the-microscope
#1
REVIEW
Lesley A Earl, Veronica Falconieri, Jacqueline Ls Milne, Sriram Subramaniam
The pace at which cryo-EM is being adopted as a mainstream tool in structural biology has continued unabated over the past year. Initial successes in obtaining near-atomic resolution structures with cryo-EM were enabled to a large extent by advances in microscope and detector technology. Here, we review some of the complementary technical improvements that are helping sustain the cryo-EM revolution. We highlight advances in image processing that permit high resolution structure determination even in the presence of structural and conformational heterogeneity...
June 21, 2017: Current Opinion in Structural Biology
https://www.readbyqxmd.com/read/28646351/rare-cyclophosphamide-induced-hemorrhagic-cystitis-in-a-chinese-population-with-rheumatic-diseases
#2
Liuqin Liang, Donging Chen, Xiaodong Wang, Zheng Yang, Jun Zhou, Zhongping Zhan, Fan Lian
OBJECTIVE: The aim of this study was to investigate the prevalence, severity, risk factors, and treatment outcomes of cyclophosphamide (CYC)-induced hemorrhagic cystitis (HC) in patients with rheumatic diseases. METHODS: We collected the clinical data from 1284 consecutive patients admitted to The First Affiliated Hospital of Sun Yat-Sen University who were treated with CYC between 2006 and 2016, and then conducted a retrospective analysis. RESULTS: The mean cumulative dose of CYC was 18...
June 23, 2017: Drugs—Real World Outcomes
https://www.readbyqxmd.com/read/28646300/methodology-for-non-target-screening-of-sewage-sludge-using-comprehensive-two-dimensional-gas-chromatography-coupled-to-high-resolution-mass-spectrometry
#3
Cathrin Veenaas, Peter Haglund
To investigate the wide range of pollutants occurring in sewage sludge, an analytical method for comprehensive non-target screening is needed. To the best of our knowledge, no procedures currently exist for the full screening of organic contaminants in sewage sludge, which is the ultimate goal of this project. We developed non-discriminating sample preparation methods for gas chromatography-mass spectrometry (GC-MS) analysis. Pressurized liquid extraction (PLE) was used for extraction, with in-line (silica gel selective PLE, SPLE) or off-line clean-up (gel permeation chromatography, GPC)...
June 23, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28646299/effective-combined-water-and-sideband-suppression-for-low-speed-tissue-and-in-vivo-mas-nmr
#4
Yalda Liaghati Mobarhan, Jochem Struppe, Blythe Fortier-McGill, André J Simpson
High-resolution magic angle spinning (HR-MAS) NMR is a powerful technique that can provide metabolic profiles and structural constraints on intact biological and environmental samples such as cells, tissues and living organisms. However, centripetal force from fast spinning can lead to a loss of sample integrity. In analyses focusing on structural organization, metabolite compartmentalization or in vivo studies, it is critical to keep the sample intact. As such, there is growing interest in slow spinning studies that preserve sample longevity...
June 23, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28646298/an-on-off-on-fluorescent-probe-for-ascorbic-acid-based-on-cu-zncds-quantum-dots-and-%C3%AE-mno2-nanorods
#5
Hanbing Rao, Yao Gao, Hongwei Ge, Zhaoyi Zhang, Xin Liu, Yan Yang, Yaqin Liu, Wei Liu, Ping Zou, Yanying Wang, Xianxiang Wang, Hua He, Xianying Zeng
This work established a fluorescence approach for detecting ascorbic acid (AA) based on Cu-ZnCdS quantum dots (Cu-ZnCdS QDs) and α-MnO2 nanorods. Cu-ZnCdS QDs and α-MnO2 nanorods were characterized by high-resolution transmission electron microscopy (HRTEM), fluorescence spectroscopy, inductively coupled plasma optical emission spectroscopy (ICP-OES) and X-ray diffraction (XRD). In the presence of α-MnO2 nanorods, the fluorescence of Cu-ZnCdS QDs was greatly quenched through the inner filter effect (IFE)...
June 23, 2017: Analytical and Bioanalytical Chemistry
https://www.readbyqxmd.com/read/28646214/structural-and-biochemical-studies-of-sulphotransferase-18-from-arabidopsis-thaliana-explain-its-substrate-specificity-and-reaction-mechanism
#6
Felix Hirschmann, Florian Krause, Petra Baruch, Igor Chizhov, Jonathan Wolf Mueller, Dietmar J Manstein, Jutta Papenbrock, Roman Fedorov
Sulphotransferases are a diverse group of enzymes catalysing the transfer of a sulfuryl group from 3'-phosphoadenosine 5'-phosphosulphate (PAPS) to a broad range of secondary metabolites. They exist in all kingdoms of life. In Arabidopsis thaliana (L.) Heynh. twenty-two sulphotransferase (SOT) isoforms were identified. Three of those are involved in glucosinolate (Gl) biosynthesis, glycosylated sulphur-containing aldoximes containing chemically different side chains, whose break-down products are involved in stress response against herbivores, pathogens, and abiotic stress...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646212/direct-observation-of-a-non-crystalline-state-of-li2s-p2s5-solid-electrolytes
#7
Hirofumi Tsukasaki, Shigeo Mori, Hideyuki Morimoto, Akitoshi Hayashi, Masahiro Tatsumisago
There are two types of solid electrolytes which has been recently expected to be applied to all-solid-state batteries. One is the glasses characterized by an amorphous state. The other is the glass ceramics containing crystalline in an amorphous matrix. However, the non-crystalline state of glasses and glass ceramics is still an open question. It has been anticipated that sea-island and core-shell structures including crystalline nanoparticles have been proposed as candidate models for glass ceramics. Nevertheless, no direct observation has been conducted so far...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646198/spatiotemporal-dynamics-of-grassland-aboveground-biomass-on-the-qinghai-tibet-plateau-based-on-validated-modis-ndvi
#8
Shiliang Liu, Fangyan Cheng, Shikui Dong, Haidi Zhao, Xiaoyun Hou, Xue Wu
Spatiotemporal dynamics of aboveground biomass (AGB) is a fundamental problem for grassland environmental management on the Qinghai-Tibet Plateau (QTP). Moderate Resolution Imaging Spectroradiometer (MODIS) Normalized Difference Vegetation Index (NDVI) data can feasibly be used to estimate AGB at large scales, and their precise validation is necessary to utilize them effectively. In our study, the clip-harvest method was used at 64 plots in QTP grasslands to obtain actual AGB values, and a handheld hyperspectral spectrometer was used to calculate field-measured NDVI to validate MODIS NDVI...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646193/fabrication-of-nitrogen-doped-nano-onions-and-their-electrocatalytic-activity-toward-the-oxygen-reduction-reaction
#9
E Y Choi, C K Kim
Nitrogen-doped nano-onions (NNO) were prepared as electrocatalytic materials for the oxygen reduction reaction (ORR). The nano-onions (NO), spherical graphitic material particles, were prepared by pyrolysis of nanodiamonds (ND). Oxidized NO (ONO) was prepared from NO by a modified Hummers' method, and this was mixed with urea, followed by pyrolysis, resulting in the formation of NNO. The nitrogen content and molar ratio of nitrogen-containing groups in the NNOs were varied by controlling the oxygen content of ONO to explore the effect of nitrogen content on the ORR activity...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646173/transmembrane-interactions-of-full-length-mammalian-bitopic-cytochrome-p450-cytochrome-b5-complex-in-lipid-bilayers-revealed-by-sensitivity-enhanced-dynamic-nuclear-polarization-solid-state-nmr-spectroscopy
#10
Kazutoshi Yamamoto, Marc A Caporini, Sang-Choul Im, Lucy Waskell, Ayyalusamy Ramamoorthy
The dynamic protein-protein and protein-ligand interactions of integral bitopic membrane proteins with a single membrane-spanning helix play a plethora of vital roles in the cellular processes associated with human health and diseases, including signaling and enzymatic catalysis. While an increasing number of high-resolution structural studies of membrane proteins have successfully manifested an in-depth understanding of their biological functions, intact membrane-bound bitopic protein-protein complexes pose tremendous challenges for structural studies by crystallography or solution NMR spectroscopy...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646155/breast-cancer-multi-classification-from-histopathological-images-with-structured-deep-learning-model
#11
Zhongyi Han, Benzheng Wei, Yuanjie Zheng, Yilong Yin, Kejian Li, Shuo Li
Automated breast cancer multi-classification from histopathological images plays a key role in computer-aided breast cancer diagnosis or prognosis. Breast cancer multi-classification is to identify subordinate classes of breast cancer (Ductal carcinoma, Fibroadenoma, Lobular carcinoma, etc.). However, breast cancer multi-classification from histopathological images faces two main challenges from: (1) the great difficulties in breast cancer multi-classification methods contrasting with the classification of binary classes (benign and malignant), and (2) the subtle differences in multiple classes due to the broad variability of high-resolution image appearances, high coherency of cancerous cells, and extensive inhomogeneity of color distribution...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646146/optical-coherence-microscopy-as-a-novel-non-invasive-method-for-the-4d-live-imaging-of-early-mammalian-embryos
#12
Karol Karnowski, Anna Ajduk, Bartosz Wieloch, Szymon Tamborski, Krzysztof Krawiec, Maciej Wojtkowski, Maciej Szkulmowski
Imaging of living cells based on traditional fluorescence and confocal laser scanning microscopy has delivered an enormous amount of information critical for understanding biological processes in single cells. However, the requirement for a high numerical aperture and fluorescent markers still limits researchers' ability to visualize the cellular architecture without causing short- and long-term photodamage. Optical coherence microscopy (OCM) is a promising alternative that circumvents the technical limitations of fluorescence imaging techniques and provides unique access to fundamental aspects of early embryonic development, without the requirement for sample pre-processing or labeling...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646144/using-fractional-intensities-of-time-resolved-fluorescence-to-sensitively-quantify-nadh-nad-with-genetically-encoded-fluorescent-biosensors
#13
Mengfang Chang, Lei Li, Hanyang Hu, Qingxun Hu, Aoxue Wang, Xiaodan Cao, Xiantong Yu, Sanjun Zhang, Yuzheng Zhao, Jinquan Chen, Yi Yang, Jianhua Xu
In this paper, we propose a novel and sensitive ratiometric analysis method that uses the fractional intensities of time-resolved fluorescence of genetically encoded fluorescent NADH/NAD(+) biosensors, Peredox, SoNar, and Frex. When the conformations of the biosensors change upon NADH/NAD(+) binding, the fractional intensities (α i τ i ) have opposite changing trends. Their ratios could be exploited to quantify NADH/NAD(+) levels with a larger dynamic range and higher resolution versus commonly used fluorescence intensity and lifetime methods...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28646132/global-rainfall-erosivity-assessment-based-on-high-temporal-resolution-rainfall-records
#14
Panos Panagos, Pasquale Borrelli, Katrin Meusburger, Bofu Yu, Andreas Klik, Kyoung Jae Lim, Jae E Yang, Jinren Ni, Chiyuan Miao, Nabansu Chattopadhyay, Seyed Hamidreza Sadeghi, Zeinab Hazbavi, Mohsen Zabihi, Gennady A Larionov, Sergey F Krasnov, Andrey V Gorobets, Yoav Levi, Gunay Erpul, Christian Birkel, Natalia Hoyos, Victoria Naipal, Paulo Tarso S Oliveira, Carlos A Bonilla, Mohamed Meddi, Werner Nel, Hassan Al Dashti, Martino Boni, Nazzareno Diodato, Kristof Van Oost, Mark Nearing, Cristiano Ballabio
The exposure of the Earth's surface to the energetic input of rainfall is one of the key factors controlling water erosion. While water erosion is identified as the most serious cause of soil degradation globally, global patterns of rainfall erosivity remain poorly quantified and estimates have large uncertainties. This hampers the implementation of effective soil degradation mitigation and restoration strategies. Quantifying rainfall erosivity is challenging as it requires high temporal resolution(<30 min) and high fidelity rainfall recordings...
June 23, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28645875/high-resolution-igh-repertoire-analysis-reveals-fetal-liver-as-the-origin-of-life-long-innate-b-lymphopoiesis-in-humans
#15
Anindita Roy, Vojtech Bystry, Georg Bohn, Katerina Goudevenou, Tomas Reigl, Maria Papaioannou, Adam Krejci, Sorcha O'Byrne, Aristeidis Chaidos, Andrea Grioni, Nikos Darzentas, Irene A G Roberts, Anastasios Karadimitris
The ontogeny of the natural, public IgM repertoire remains incompletely explored. Here, high-resolution immunogenetic analysis of B cells from (unrelated) fetal, child, and adult samples, shows that although fetal liver (FL) and bone marrow (FBM) IgM repertoires are equally diversified, FL is the main source of IgM natural immunity during the 2nd trimester. Strikingly, 0.25% of all prenatal clonotypes, comprising 18.7% of the expressed repertoire, are shared with the postnatal samples, consistent with persisting fetal IgM+ B cells being a source of natural IgM repertoire in adult life...
June 20, 2017: Clinical Immunology: the Official Journal of the Clinical Immunology Society
https://www.readbyqxmd.com/read/28645847/cardiovascular-morphometry-with-high-resolution-3d-magnetic-resonance-first-application-to-left-ventricle-diastolic-dysfunction
#16
Diego Gallo, Orestis Vardoulis, Pierre Monney, Davide Piccini, Panagiotis Antiochos, Juerg Schwitter, Nikolaos Stergiopulos, Umberto Morbiducci
In this study, an image-based morphometry toolset quantifying geometric descriptors of the left ventricle, aorta and their coupling is applied to investigate whether morphological information can differentiate between subjects affected by diastolic dysfunction (patient group) and their age-matched controls (control group). The ventriculo-aortic region of 20 total participants (10 per group) were segmented from high-resolution 3D magnetic resonance images, from the left ventricle to the descending aorta. Each geometry was divided into segments in correspondence of anatomical landmarks...
June 21, 2017: Medical Engineering & Physics
https://www.readbyqxmd.com/read/28645845/the-feature-weighted-receptive-field-an-interpretable-encoding-model-for-complex-feature-spaces
#17
REVIEW
Ghislain St-Yves, Thomas Naselaris
We introduce the feature-weighted receptive field (fwRF), an encoding model designed to balance expressiveness, interpretability and scalability. The fwRFis organized around the notion of a feature map-a transformation of visual stimuli into visual features that preserves the topology of visual space (but not necessarily the native resolution of the stimulus). The key assumption of the fwRFmodel is that activity in each voxel encodes variation in a spatially localized region across multiple feature maps. This region is fixed for all feature maps; however, the contribution of each feature map to voxel activity is weighted...
June 20, 2017: NeuroImage
https://www.readbyqxmd.com/read/28645844/modelling-and-interpreting-mesoscale-network-dynamics
#18
REVIEW
Ankit N Khambhati, Ann E Sizemore, Richard F Betzel, Danielle S Bassett
Recent advances in brain imaging techniques, measurement approaches, and storage capacities have provided an unprecedented supply of high temporal resolution neural data. These data present a remarkable opportunity to gain a mechanistic understanding not just of circuit structure, but also of circuit dynamics, and its role in cognition and disease. Such understanding necessitates a description of the raw observations, and a delineation of computational models and mathematical theories that accurately capture fundamental principles behind the observations...
June 20, 2017: NeuroImage
https://www.readbyqxmd.com/read/28645796/preclinical-testing-of-frequency-tunable-capacitive-micromachined-ultrasonic-transducer-probe-prototypes
#19
Martin Pekař, Alexander F Kolen, Harm Belt, Frank van Heesch, Nenad Mihajlović, Imo E Hoefer, Tamas Szili-Török, Hendrik J Vos, Johan G Bosch, Gijs van Soest, Antonius F W van der Steen
In intracardiac echocardiography (ICE) it may be beneficial to generate ultrasound images acquired at multiple frequencies, having the possibility of high penetration or high-resolution imaging in a single device. The objective of the presented work is to test two frequency-tunable probe prototypes in a preclinical setting: a rigid probe having a diameter of 11 mm and a new flexible and steerable 12-Fr ICE catheter. Both probes feature a forward-looking 32-element capacitive micromachined ultrasonic transducer array (aperture of 2 × 2 mm(2)) operated in collapse mode, which allows for frequency tuning in the 6-MHz-18-MHz range...
June 20, 2017: Ultrasound in Medicine & Biology
https://www.readbyqxmd.com/read/28645697/clinical-high-resolution-mapping-of-the-proteoglycan-bound-water-fraction-in-articular-cartilage-of-the-human-knee-joint
#20
Mustapha Bouhrara, David A Reiter, Kyle W Sexton, Christopher M Bergeron, Linda M Zukley, Richard G Spencer
PURPOSE: We applied a recently introduced method to achieve clinically-feasible in-vivo mapping of the proteoglycan water fraction (PgWF) of human knee cartilage with improved spatial resolution and stability as compared to existing methods. MATERIAL AND METHODS: Multicomponent driven equilibrium single-pulse observation of T1 and T2 (mcDESPOT) datasets were acquired from the knees of two healthy young subjects and one older subject with previous knee injury. Each dataset was processed using Bayesian Monte Carlo (BMC) analysis incorporating a two-component tissue model...
June 20, 2017: Magnetic Resonance Imaging
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