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https://www.readbyqxmd.com/read/28092920/evolutionary-genomics-of-the-cold-adapted-diatom-fragilariopsis-cylindrus
#1
Thomas Mock, Robert P Otillar, Jan Strauss, Mark McMullan, Pirita Paajanen, Jeremy Schmutz, Asaf Salamov, Remo Sanges, Andrew Toseland, Ben J Ward, Andrew E Allen, Christopher L Dupont, Stephan Frickenhaus, Florian Maumus, Alaguraj Veluchamy, Taoyang Wu, Kerrie W Barry, Angela Falciatore, Maria I Ferrante, Antonio E Fortunato, Gernot Glöckner, Ansgar Gruber, Rachel Hipkin, Michael G Janech, Peter G Kroth, Florian Leese, Erika A Lindquist, Barbara R Lyon, Joel Martin, Christoph Mayer, Micaela Parker, Hadi Quesneville, James A Raymond, Christiane Uhlig, Ruben E Valas, Klaus U Valentin, Alexandra Z Worden, E Virginia Armbrust, Matthew D Clark, Chris Bowler, Beverley R Green, Vincent Moulton, Cock van Oosterhout, Igor V Grigoriev
The Southern Ocean houses a diverse and productive community of organisms. Unicellular eukaryotic diatoms are the main primary producers in this environment, where photosynthesis is limited by low concentrations of dissolved iron and large seasonal fluctuations in light, temperature and the extent of sea ice. How diatoms have adapted to this extreme environment is largely unknown. Here we present insights into the genome evolution of a cold-adapted diatom from the Southern Ocean, Fragilariopsis cylindrus, based on a comparison with temperate diatoms...
January 16, 2017: Nature
https://www.readbyqxmd.com/read/28092832/sampling-conformational-space-of-intrinsically-disordered-proteins-in-explicit-solvent-comparison-between-well-tempered-ensemble-approach-and-solute-tempering-method
#2
Mengzhi Han, Ji Xu, Ying Ren
Intrinsically disordered proteins (IDPs) are a class of proteins that expected to be largely unstructured under physiological conditions. Due to their heterogeneous nature, experimental characterization of IDP is challenging. Temperature replica exchange molecular dynamics (T-REMD) is a widely used enhanced sampling method to probe structural characteristics of these proteins. However, its application has been hindered due to its tremendous computational cost, especially when simulating large systems in explicit solvent...
December 28, 2016: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/28092817/porous-bimetallic-pdni-catalyst-with-high-electrocatalytic-activity-for-ethanol-electrooxidation
#3
Yue Feng, Duan Bin, Bo Yan, Yukou Du, Tetsuro Majima, Weiqiang Zhou
Porous bimetallic PdNi catalysts were fabricated by a novel method, namely, reduction of Pd and Ni oxides prepared via calcining the complex chelate of PdNi-dimethylglyoxime (PdNi-dmg). The morphology and composition of the as-prepared PdNi were investigated by scanning electron microscopy (SEM), X-ray photoelectron spectroscopy (XPS) and X-ray diffraction (XRD). Furthermore, the electrochemical properties of PdNi catalysts towards ethanol electrooxidation were also studied by electrochemical impedance spectrometry (EIS), cyclic voltammetry (CV) and chronoamperometry (CA) measurement...
January 11, 2017: Journal of Colloid and Interface Science
https://www.readbyqxmd.com/read/28092816/encapsulation-of-cisplatin-in-a-pegylated-calcium-phosphate-nanoparticle-cpnp-for-enhanced-cytotoxicity-to-cancerous-cells
#4
Yang Ding, Kang Zhai, Pei Pei, Yue Lin, Yinchu Ma, Huixia Zhu, Mingfeng Shao, Xianzhu Yang, Wei Tao
HYPOTHESIS: Exchange of the chloride ion (Cl(-)) ligands of cisplatin with carboxylates is widely used in fabricating cisplatin loaded nanoparticles for improved cancer therapy. However, the dynamic exchange may cause premature cisplatin release and even disintegration of the nanoparticles in Cl(-)-containing medium such as in plasma. Molecules bearing carboxylates are capable of mediating the mineralization process of calcium phosphate; therefore, it is possible to overcome the disadvantage by sequestering cisplatin in a calcium phosphate nanoparticle (CPNP)...
January 11, 2017: Journal of Colloid and Interface Science
https://www.readbyqxmd.com/read/28092791/minor-physical-anomalies-in-bipolar-i-and-bipolar-ii-disorders-results-with-the-m%C3%A3-hes-scale
#5
Hajnalka Berecz, Györgyi Csábi, Sára Jeges, Róbert Herold, Maria Simon, Tamás Halmai, Dániel Trixler, András Hajnal, Ákos Levente Tóth, Tamás Tényi
Minor physical anomalies (MPAs) are external markers of abnormal brain development, so the more common appearence of these signs among bipolar I and bipolar II patients can confirm the possibility of a neurodevelopmental deficit in these illnesses. The aim of the present study was to investigate the rate and topological profile of minor physical anomalies in patients with bipolar I and - first in literature - with bipolar II disorders compared to matched healthy control subjects. Using a list of 57 minor physical anomalies (the Méhes Scale), 30 bipolar I and 30 bipolar II patients, while as a comparison 30 matched healthy control subjects were examined...
January 5, 2017: Psychiatry Research
https://www.readbyqxmd.com/read/28092790/comparison-of-quality-of-life-in-homeless-and-non-homeless-chinese-patients-with-psychiatric-disorders
#6
Xiao-Lan Cao, Yan-Nan Fu, Fu-Jun Jia, Helen F K Chiu, Gabor S Ungvari, Chee H Ng, Cai-Lan Hou, Yong-Qiang Lin, Xiao-Bin Zhong, Xiang-Min Liu, Larina C L Yim, Yu-Tao Xiang
To date, there are no data on quality of life (QOL) and its correlates in homeless Chinese patients with psychiatric disorders. This study aimed to compare QOL between homeless and non-homeless patients with psychiatric disorders in China. A total of 278 homeless and 222 non-homeless patients matched in age and gender were consecutively recruited. Socio-demographic and clinical data were collected from medical records. A clinical interview was conducted using standardized instruments. The physical and mental QOL in both groups were lower than the normative data for Chinese general population, but there was no significant difference in any QOL domain between the two groups...
January 6, 2017: Psychiatry Research
https://www.readbyqxmd.com/read/28092776/periosteum-tissue-engineering-in-an-orthotopic-in%C3%A2-vivo-platform
#7
J G Baldwin, F Wagner, L C Martine, B M Holzapfel, C Theodoropoulos, O Bas, F M Savi, C Werner, E M De-Juan-Pardo, D W Hutmacher
The periosteum plays a critical role in bone homeostasis and regeneration. It contains a vascular component that provides vital blood supply to the cortical bone and an osteogenic niche that acts as a source of bone-forming cells. Periosteal grafts have shown promise in the regeneration of critical size defects, however their limited availability restricts their widespread clinical application. Only a small number of tissue-engineered periosteum constructs (TEPCs) have been reported in the literature. A current challenge in the development of appropriate TEPCs is a lack of pre-clinical models in which they can reliably be evaluated...
November 20, 2016: Biomaterials
https://www.readbyqxmd.com/read/28092762/a-novel-approach-for-exposure-assessment-in-air-pollution-epidemiological-studies-using-neuro-fuzzy-inference-systems-comparison-of-exposure-estimates-and-exposure-health-associations
#8
Victoria Blanes-Vidal, Manuella Lech Cantuaria, Esmaeil S Nadimi
Many epidemiological studies have used proximity to sources as air pollution exposure assessment method. However, proximity measures are not generally good surrogates because of their complex non-linear relationship with exposures. Neuro-fuzzy inference systems (NFIS) can be used to map complex non-linear systems, but its usefulness in exposure assessment has not been extensively explored. We present a novel approach for exposure assessment using NFIS, where the inputs of the model were easily-obtainable proximity measures, and the output was residential exposure to an air pollutant...
January 13, 2017: Environmental Research
https://www.readbyqxmd.com/read/28092741/waste-to-energy-ash-monofill-mining-an-environmental-characterization-of-recovered-material
#9
Justin G Roessler, Timothy G Townsend, Abhimanyu Kanneganti
Samples of combined bottom and fly ash produced at a U.S. waste-to-energy facility were collected from an ash monofill. These samples represented ash monofilled between 1991 and 2008. The ash samples were characterized for total element content and leachability; trends in these parameters were evaluated as a function of sample depth and ash age. Comparison to risk thresholds was used to assess the relative magnitude of the total and leachable mass of elements in the monofilled ash. Natural carbonation was found to have occurred in the monofilled ash, reducing the pH and leachability of Al and Pb...
January 9, 2017: Journal of Hazardous Materials
https://www.readbyqxmd.com/read/28092705/o-h-activation-by-an-unexpected-ferryl-intermediate-during-catalysis-by-2-hydroxyethylphosphonate-dioxygenase
#10
Spencer C Peck, Chen Wang, Laura M K Dassama, Bo Zhang, Yisong Guo, Lauren J Rajakovich, J Martin Bollinger, Carsten Krebs, Wilfred A van der Donk
Activation of O-H bonds by inorganic metal-oxo complexes has been documented, but no cognate enzymatic process is known. Our mechanistic analysis of 2-hydroxyethylphosphonate dioxygenase (HEPD), which cleaves the C1-C2 bond of its substrate to afford hydroxymethylphosphonate on the biosynthetic pathway to the commercial herbicide phosphinothricin, uncovered an example of such an O-H-bond-cleavage event. Stopped-flow UV-visible absorption and freeze-quench Mössbauer experiments identified a transient iron(IV)-oxo (ferryl) complex...
January 16, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28092685/precision-oncology-for-acute-myeloid-leukemia-using-a-knowledge-bank-approach
#11
Moritz Gerstung, Elli Papaemmanuil, Inigo Martincorena, Lars Bullinger, Verena I Gaidzik, Peter Paschka, Michael Heuser, Felicitas Thol, Niccolo Bolli, Peter Ganly, Arnold Ganser, Ultan McDermott, Konstanze Döhner, Richard F Schlenk, Hartmut Döhner, Peter J Campbell
Underpinning the vision of precision medicine is the concept that causative mutations in a patient's cancer drive its biology and, by extension, its clinical features and treatment response. However, considerable between-patient heterogeneity in driver mutations complicates evidence-based personalization of cancer care. Here, by reanalyzing data from 1,540 patients with acute myeloid leukemia (AML), we explore how large knowledge banks of matched genomic-clinical data can support clinical decision-making. Inclusive, multistage statistical models accurately predicted likelihoods of remission, relapse and mortality, which were validated using data from independent patients in The Cancer Genome Atlas...
January 16, 2017: Nature Genetics
https://www.readbyqxmd.com/read/28092638/mr-elastography-to-measure-the-effects-of-cancer-and-pathology-fixation-on-prostate-biomechanics-and-comparison-with-t-1-t-2-and-adc
#12
Deirdre M McGrath, Jenny Lee, Warren D Foltz, Navid Samavati, Theo van der Kwast, Michael A S Jewett, Peter Chung, Cynthia Ménard, Kristy K Brock
MRI is under evaluation for image-guided intervention for prostate cancer. The sensitivity and specificity of MRI parameters is determined via correlation with the gold-standard of histopathology. Whole-mount histopathology of prostatectomy specimens can be digitally registered to in vivo imaging for correlation. When biomechanical-based deformable registration is employed to account for deformation during histopathology processing, the ex vivo biomechanical properties are required. However, these properties are altered by pathology fixation, and vary with disease...
February 7, 2017: Physics in Medicine and Biology
https://www.readbyqxmd.com/read/28092630/comparative-monte-carlo-study-on-the-performance-of-integration-and-list-mode-detector-configurations-for-carbon-ion-computed-tomography
#13
Sebastian Meyer, Chiara Gianoli, Lorena Magallanes, Benedikt Kopp, Thomas Tessonnier, Guillaume Landry, George Dedes, Bernd Voss, Katia Parodi
Ion beam therapy offers the possibility of a highly conformal tumor-dose distribution; however, this technique is extremely sensitive to inaccuracies in the treatment procedures. Ambiguities in the conversion of Hounsfield units of the treatment planning x-ray CT to relative stopping power (RSP) can cause uncertainties in the estimated ion range of up to several millimeters. Ion CT (iCT) represents a favorable solution allowing to directly assess the RSP. In this simulation study we investigate the performance of the integration-mode configuration for carbon iCT, in comparison with a single-particle approach under the same set-up...
February 7, 2017: Physics in Medicine and Biology
https://www.readbyqxmd.com/read/28092620/correlation-between-peripheral-blood-cell-transcriptomic-profile-and-clinical-parameters-of-chronic-mitral-valve-disease-in-dachshunds
#14
M Garncarz, M Hulanicka, H Maciejewski, M Parzeniecka-Jaworska, M Jank
Studies identifying specific pathologically expressed genes have been performed on diseased myocardial tissue samples, however less invasive studies on gene expression of peripheral blood mononucleated cells give promising results. This study assessed transcriptomic data that may be used to evaluate Dachshunds with chronic mitral valve disease. Dachshunds with different stages of heart disease were compared to a control, healthy group. Microarray data analysis revealed clusters of patients with similar expression profiles...
December 1, 2016: Polish Journal of Veterinary Sciences
https://www.readbyqxmd.com/read/28092615/immunoreactivity-of-arcuate-nucleus-astrocytes-in-rats-after-intragastric-administration-of-habanero-peppers-capsicum-chinese-jacq
#15
K Rycerz, A Krawczyk, J Jaworska-Adamu, M Gołyński, K Lutnicki, I Balicki
Habanero pepper fruits contain capsaicin (CAP) characterised by a spicy taste. Astrocytes express vanilloid receptor (TRPV1), which interacts with cannabinoids including CAP. Only a few studies revealed that CAP leads to alterations of the arcuate nucleus (ARC) structures. The aim of this study was to analyse the GFAP (GFAP-IR) and S100β (S100β-IR) immunoreactive astrocytes of ARC in adult rats after intragastric administration of habanero pepper fruits. Adult, Wistar rats received a peanut oil - control group (C) - and oil suspension of habanero pepper fruits at a dose of 0...
December 1, 2016: Polish Journal of Veterinary Sciences
https://www.readbyqxmd.com/read/28092613/effects-of-udder-infections-with-staphylococcus-xylosus-and-staphylococcus-warneri-on-the-composition-and-physicochemical-changes-in-cows-milk
#16
M Vasil, E Pecka-Kiełb, J Elečko, A Zachwieja, W Zawadzki, F Zigo, J Illek, Z Farkašová
The aim of this study was an evaluation of the effects of two species of coagulase negative staphylococci (CNS), Staphylococcus xylosus and Staphylococcus warneri, on the changes in technological parameters of cows' milk. The study was conducted in a herd of Slovak Pied cattle breed (with share of HF blood). Based on the performance results from three subsequent months, cows in the 2nd and 3rd lactation with SCC up to 200 thousand/ml (8 heads, 32 quarters), and above 800 thousand/ml (8 heads, 32 quarters), after the 4th month of lactation, were selected...
December 1, 2016: Polish Journal of Veterinary Sciences
https://www.readbyqxmd.com/read/28092592/adaptive-fuzzy-bounded-control-for-consensus-of-multiple-strict-feedback-nonlinear-systems
#17
Wei Wang, Shaocheng Tong
This paper studies the adaptive fuzzy bounded control problem for leader-follower multiagent systems, where each follower is modeled by the uncertain nonlinear strict-feedback system. Combining the fuzzy approximation with the dynamic surface control, an adaptive fuzzy control scheme is developed to guarantee the output consensus of all agents under directed communication topologies. Different from the existing results, the bounds of the control inputs are known as a priori, and they can be determined by the feedback control gains...
January 10, 2017: IEEE Transactions on Cybernetics
https://www.readbyqxmd.com/read/28092591/relational-regularized-discriminative-sparse-learning-for-alzheimer-s-disease-diagnosis
#18
Baiying Lei, Peng Yang, Tianfu Wang, Siping Chen, Dong Ni
Accurate identification and understanding informative feature is important for early Alzheimer's disease (AD) prognosis and diagnosis. In this paper, we propose a novel discriminative sparse learning method with relational regularization to jointly predict the clinical score and classify AD disease stages using multimodal features. Specifically, we apply a discriminative learning technique to expand the class-specific difference and include geometric information for effective feature selection. In addition, two kind of relational information are incorporated to explore the intrinsic relationships among features and training subjects in terms of similarity learning...
January 16, 2017: IEEE Transactions on Cybernetics
https://www.readbyqxmd.com/read/28092561/realistic-data-driven-traffic-flow-animation-using-texture-synthesis
#19
Qianwen Chao, Zhigang Deng, Jiaping Ren, Qianqian Ye, Xiaogang Jin
We present a novel data-driven approach to populate virtual road networks with realistic traffic flows. Specifically, given a limited set of vehicle trajectories as the input samples, our approach first synthesizes a large set of vehicle trajectories. By taking the spatio-temporal information of traffic flows as a 2D texture, the generation of new traffic flows can be formulated as a texture synthesis process, which is solved by minimizing a newly developed traffic texture energy. The synthesized output captures the spatio-temporal dynamics of the input traffic flows, and the vehicle interactions in it strictly follow traffic rules...
January 11, 2017: IEEE Transactions on Visualization and Computer Graphics
https://www.readbyqxmd.com/read/28092560/diffeomorphic-multi-frame-non-rigid-registration-of-cell-nuclei-in-2d-and-3d-live-cell-images
#20
Marco Tektonidis, Karl Rohr
To gain a better understanding of cellular and molecular processes it is important to quantitatively analyze the motion of subcellular particles in live cell microscopy image sequences. Since generally the subcellular particles move and cell nuclei move as well as deform, it is important to decouple the movement of particles from that of the cell nuclei using nonrigid registration methods. We have developed a diffeomorphic multi-frame approach for non-rigid registration of cell nuclei in 2D and 3D live cell fluorescence microscopy images...
January 16, 2017: IEEE Transactions on Image Processing: a Publication of the IEEE Signal Processing Society
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