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https://www.readbyqxmd.com/read/28535593/simulating-soil-organic-carbon-stock-as-affected-by-land-cover-change-and-climate-change-hyrcanian-forests-northern-iran
#1
Azam Soleimani, Seyed Mohsen Hosseini, Ali Reza Massah Bavani, Mostafa Jafari, Rosa Francaviglia
Soil organic carbon (SOC) contains a considerable portion of the world's terrestrial carbon stock, and is affected by changes in land cover and climate. SOC modeling is a useful approach to assess the impact of land use, land use change and climate change on carbon (C) sequestration. This study aimed to: (i) test the performance of RothC model using data measured from different land covers in Hyrcanian forests (northern Iran); and (ii) predict changes in SOC under different climate change scenarios that may occur in the future...
May 19, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28535470/pharmacophore-guided-discovery-of-small-molecule-interleukin-15-inhibitors
#2
Barbara Żyżyńska-Granica, Bartosz Trzaskowski, Szymon Niewieczerzał, Sławomir Filipek, Oliwia Zegrocka-Stendel, Małgorzata Dutkiewicz, Piotr Krzeczyński, Magdalena Kowalewska, Katarzyna Koziak
Upregulation of interleukin 15 (IL-15) contributes directly i.a. to the development of inflammatory and autoimmune diseases. Selective blockade of IL-15 aimed to treat rheumatoid arthritis, psoriasis and other IL-15-related disorders has been recognized as an efficient therapeutic method. The aim of the study was to identify small molecules which would interact with IL-15 or its receptor IL-15Rα and inhibit the cytokine's activity. Based on the crystal structure of IL-15Rα·IL-15, we created pharmacophore models to screen the ZINC database of chemical compounds for potential IL-15 and IL-15Rα inhibitors...
May 12, 2017: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/28535449/the-center-for-epidemiological-studies-depression-scale-ces-d-measurement-equivalence-across-gender-groups-in-hispanic-college-students
#3
Consuelo Arbona, Andrea Burridge, Norma Olvera
BACKGROUND: This study examined among Hispanic college students the factor structure and gender measurement invariance of the Center for Epidemiologic Studies Depression (CES-D) scale. The CES-D's original 20 item four-factor model was compared to a recently proposed 14 item, three-factor model. METHODS: Participants included 858 Hispanic undergraduates at an ethnically diverse, major research, urban, public university in the Southwest United States (U.S.). Multigroup confirmatory factor analyses (CFAs) and structural equation modeling were used to examine the factor structure, gender invariance, and construct validity of the CES-D scores...
May 14, 2017: Journal of Affective Disorders
https://www.readbyqxmd.com/read/28535421/differentiation-of-crataegus-spp-guided-by-nuclear-magnetic-resonance-spectrometry-with-chemometric-analyses
#4
Jensen A Lund, Paula N Brown, Paul R Shipley
For compliance with US Current Good Manufacturing Practice regulations for dietary supplements, manufacturers must provide identity of source plant material. Despite the popularity of hawthorn as a dietary supplement, relatively little is known about the comparative phytochemistry of different hawthorn species, and in particular North American hawthorns. The combination of NMR spectrometry with chemometric analyses offers an innovative approach to differentiating hawthorn species and exploring the phytochemistry...
May 20, 2017: Phytochemistry
https://www.readbyqxmd.com/read/28535348/coarse-grained-modeling-of-polyethylene-melts-effect-on-dynamics
#5
Brandon L Peters, K Michael Salerno, Anupriya Agrawal, Dvora Perahia, Gary S Grest
The distinctive viscoelastic behavior of polymers results from a coupled interplay of motion on multiple length and time scales. Capturing the broad time and length scales of polymer motion remains a challenge. Using polyethylene (PE) as a model macromolecule, we construct coarse-grained (CG) models of PE with 3-6 methyl groups per CG bead and probe two critical aspects of the technique: pressure corrections required after iterative Boltzmann inversion (IBI) to generate CG potentials that match the pressure of reference fully-atomistic melt simulations and the transferability of CG potentials across temperatures...
May 23, 2017: Journal of Chemical Theory and Computation
https://www.readbyqxmd.com/read/28535263/gene-expression-variability-and-the-analysis-of-large-scale-rna-seq-studies-with-the-mdseq
#6
Di Ran, Z John Daye
Rapidly decreasing cost of next-generation sequencing has led to the recent availability of large-scale RNA-seq data, that empowers the analysis of gene expression variability, in addition to gene expression means. In this paper, we present the MDSeq, based on the coefficient of dispersion, to provide robust and computationally efficient analysis of both gene expression means and variability on RNA-seq counts. The MDSeq utilizes a novel reparametrization of the negative binomial to provide flexible generalized linear models (GLMs) on both the mean and dispersion...
May 23, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28535252/trypanosome-rna-editing-mediator-complex-proteins-have-distinct-functions-in-grna-utilization
#7
Rachel M Simpson, Andrew E Bruno, Runpu Chen, Kaylen Lott, Brianna L Tylec, Jonathan E Bard, Yijun Sun, Michael J Buck, Laurie K Read
Uridine insertion/deletion RNA editing is an essential process in kinetoplastid parasites whereby mitochondrial mRNAs are modified through the specific insertion and deletion of uridines to generate functional open reading frames, many of which encode components of the mitochondrial respiratory chain. The roles of numerous non-enzymatic editing factors have remained opaque given the limitations of conventional methods to interrogate the order and mechanism by which editing progresses and thus roles of individual proteins...
May 23, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/28535186/fxr-gankyrin-axis-is-involved-in-development-of-pediatric-liver-cancer
#8
Leila Valanejad, Kyle Lewis, Mary Wright, Yanjun Jiang, Amber D'Souza, Rebekah Karns, Rachel Sheridan, Anita Gupta, Kevin Bove, David Witte, James Geller, Gregory Tiao, David L Nelson, Lubov Timchenko, Nikolai Timchenko
The development of hepatoblastoma (HBL) is associated with failure of hepatic stem cells (HSC) to differentiate into hepatocytes. Despite intensive investigations, mechanisms of the failure of HSC to differentiate are not known. We found that oncogene Gankyrin (Gank) is involved in the inhibition of differentiation of HSC via triggering degradation of tumor suppressor proteins (TSPs) Rb, p53, C/EBPα and HNF4α. Our data show that the activation of a repressor of Gank, farnesoid X receptor, FXR, after initiation of liver cancer by Diethylnitrosamine (DEN) prevents the development of liver cancer by inhibiting Gank and rescuing tumor suppressor proteins...
May 23, 2017: Carcinogenesis
https://www.readbyqxmd.com/read/28535183/time-caloric-restriction-inhibits-the-neoplastic-transformation-of-cirrhotic-liver-in-rats-treated-with-diethylnitrosamine
#9
Christian Molina-Aguilar, María de Jesús Guerrero-Carrillo, Jesús Javier Espinosa-Aguirre, Sitlali Olguin-Reyes, Thania Castro-Belio, Olivia Vázquez-Martínez, Julieta Berenice Rivera-Zavala, Mauricio Díaz-Muñoz
Hepatocellular cancer is the most common type of primary liver cancer. Cirrhosis is the main risk factor that generates this malady. It has been proven that caloric restriction protocols and restricted feeding schedules are protective in experimental carcinogenic models. We tested the influence of a time-caloric restriction protocol (2 h of food access during the daytime for 18 weeks) in an experimental model of cirrhosis-hepatocarcinoma produced by weekly administration of diethylnitrosamine. Our results indicate that time-caloric restriction reduced hepatomegaly and prevented the increase in blood leukocytes promoted by diethylnitrosamine...
May 23, 2017: Carcinogenesis
https://www.readbyqxmd.com/read/28535182/characterization-of-liver-injury-oval-cell-proliferation-and-cholangiocarcinogenesis-in-glutathione-s-transferase-a3-knockout-mice
#10
Dana R Crawford, Zoran Ilic, Ian Guest, Ginger L Milne, John D Hayes, Stewart Sell
We recently generated glutathione S-transferase (GST) A3 knockout (KO) mice as a novel model to study the risk factors for liver cancer. GSTA3 KO mice are sensitive to the acute cytotoxic and genotoxic effects of aflatoxin B1 (AFB1), confirming the crucial role of GSTA3 in resistance to AFB1. We now report histopathological changes, tumor formation, biochemical changes and gender response following AFB1 treatment as well as the contribution of oxidative stress. Using a protocol of weekly 0.5 mg AFB1/kg administration, we observed extensive oval (liver stem) cell (OC) proliferation within 1-3 weeks followed by microvesicular lipidosis, megahepatocytes, nuclear inclusions, cholangiomas, and small nodules...
May 23, 2017: Carcinogenesis
https://www.readbyqxmd.com/read/28535153/high-energy-particle-beam-and-gamma-radiation-exposure-familial-relatedness-and-cancer-in-mice
#11
Pavel Chernyavskiy, Elijah F Edmondson, Michael M Weil, Mark P Little
BACKGROUND: Some highly penetrant familial cancer syndromes exhibit elevated leukaemia risk, and there is evidence for familial clustering of lung cancer and other common cancers. Lung cancer and leukaemia are strongly radiogenic, but there are few indications that high-energy beam irradiation is markedly more effective than lower-energy radiation. METHODS: We used a Cox model with familially structured random effects to assess 16 mortality end points in a group of 1850 mice in 47 families maintained in a circular-breeding scheme, exposed to accelerated Si or Fe ions (0...
May 23, 2017: British Journal of Cancer
https://www.readbyqxmd.com/read/28534810/non-invasive-fetal-monitoring-a-maternal-surface-ecg-electrode-placement-based-novel-approach-for-optimization-of-adaptive-filter-control-parameters-using-the-lms-and-rls-algorithms
#12
Radek Martinek, Radana Kahankova, Homer Nazeran, Jaromir Konecny, Janusz Jezewski, Petr Janku, Petr Bilik, Jan Zidek, Jan Nedoma, Marcel Fajkus
This paper is focused on the design, implementation and verification of a novel method for the optimization of the control parameters (such as step size μ and filter order N) of LMS and RLS adaptive filters used for noninvasive fetal monitoring. The optimization algorithm is driven by considering the ECG electrode positions on the maternal body surface in improving the performance of these adaptive filters. The main criterion for optimal parameter selection was the Signal-to-Noise Ratio (SNR). We conducted experiments using signals supplied by the latest version of our LabVIEW-Based Multi-Channel Non-Invasive Abdominal Maternal-Fetal Electrocardiogram Signal Generator, which provides the flexibility and capability of modeling the principal distribution of maternal/fetal ECGs in the human body...
May 19, 2017: Sensors
https://www.readbyqxmd.com/read/28534790/neighborhood-based-stopping-criterion-for-contrastive-divergence
#13
Enrique Romero Merino, Ferran Mazzanti Castrillejo, Jordi Delgado Pin
Restricted Boltzmann Machines (RBMs) are general unsupervised learning devices to ascertain generative models of data distributions. RBMs are often trained using the Contrastive Divergence (CD) learning algorithm, an approximation to the gradient of the data log-likelihood (logL). A simple reconstruction error is often used as a stopping criterion for CD, although several authors have raised doubts concerning the feasibility of this procedure. In many cases, the evolution curve of the reconstruction error is monotonic, while the logL is not, thus indicating that the former is not a good estimator of the optimal stopping point for learning...
May 17, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28534781/reviving-the-two-state-markov-chain-approach
#14
Andrzej Mizera, Jun Pang, Qixia Yuan
Probabilistic Boolean networks (PBNs) is a well-established computational framework for modelling biological systems. The steady-state dynamics of PBNs is of crucial importance in the study of such systems. However, for large PBNs, which often arise in systems biology, obtaining the steady-state distribution poses a significant challenge. In this paper, we revive the two-state Markov chain approach to solve this problem. This paper contributes in three aspects. First, we identify a problem of generating biased results with the approach and we propose a few heuristics to avoid such a pitfall...
May 16, 2017: IEEE/ACM Transactions on Computational Biology and Bioinformatics
https://www.readbyqxmd.com/read/28534776/globally-consistent-wrinkle-aware-shading-of-line-drawings
#15
Pradeep Kumar Jayaraman, Chi-Wing Fu, Jianmin Zheng, Xueting Liu, Tien-Tsin Wong
Shading is a tedious process for artists involved in 2D cartoon and manga production given the volume of contents that the artists have to prepare regularly over tight schedule. While we can automate shading production with the presence of geometry, it is impractical for artists to model the geometry for every single drawing. In this work, we aim to automate shading generation by analyzing the local shapes, connections, and spatial arrangement of wrinkle strokes in a clean line drawing. By this, artists can focus more on the design rather than the tedious manual editing work, and experiment with different shading effects under different conditions...
May 17, 2017: IEEE Transactions on Visualization and Computer Graphics
https://www.readbyqxmd.com/read/28534721/evaluation-of-3d-additively-manufactured-canine-brain-models-for-teaching-veterinary-neuroanatomy
#16
Regina M Schoenfeld-Tacher, Timothy J Horn, Tyler A Scheviak, Kenneth D Royal, Lola C Hudson
Physical specimens are essential to the teaching of veterinary anatomy. While fresh and fixed cadavers have long been the medium of choice, plastinated specimens have gained widespread acceptance as adjuncts to dissection materials. Even though the plastination process increases the durability of specimens, these are still derived from animal tissues and they require periodic replacement if used by students on a regular basis. This study investigated the use of three-dimensional additively manufactured (3D AM) models (colloquially referred to as 3D-printed models) of the canine brain as a replacement for plastinated or formalin-fixed brains...
May 23, 2017: Journal of Veterinary Medical Education
https://www.readbyqxmd.com/read/28534662/neuroprotection-of-brain-permeable-iron-chelator-vk-28-against-intracerebral-hemorrhage-in-mice
#17
Qian Li, Jieru Wan, Xi Lan, Xiaoning Han, Zhongyu Wang, Jian Wang
Iron overload plays a key role in the secondary brain damage that develops after intracerebral hemorrhage (ICH). The significant increase in iron deposition is associated with the generation of reactive oxygen species (ROS), which leads to oxidative brain damage. In this study, we examined the protective effects of VK-28, a brain-permeable iron chelator, against hemoglobin toxicity in an ex vivo organotypic hippocampal slice culture (OHSC) model and in middle-aged mice subjected to an in vivo, collagenase-induced ICH model...
January 1, 2017: Journal of Cerebral Blood Flow and Metabolism
https://www.readbyqxmd.com/read/28534661/characterization-of-human-fetal-brain-endothelial-cells-reveals-barrier-properties-suitable-for-in%C3%A2-vitro-modeling-of-the-bbb-with-syngenic-co-cultures
#18
Allison M Andrews, Evan M Lutton, Lee A Cannella, Nancy Reichenbach, Roshanak Razmpour, Matthew J Seasock, Steven J Kaspin, Steven F Merkel, Dianne Langford, Yuri Persidsky, Servio H Ramirez
Endothelial cells (ECs) form the basis of the blood-brain barrier (BBB), a physical barrier that selectively restricts transport into the brain. In vitro models can provide significant insight into BBB physiology, mechanisms of human disease pathology, toxicology, and drug delivery. Given the limited availability of primary human adult brain microvascular ECs ( aBMVECs), human fetal tissue offers a plausible alternative source for multiple donors and the opportunity to build syngenic tri-cultures from the same host...
January 1, 2017: Journal of Cerebral Blood Flow and Metabolism
https://www.readbyqxmd.com/read/28534628/exafs-ab-initio-molecular-dynamics-and-nicis-spectroscopy-studies-on-an-organic-dye-model-at-the-dye-sensitized-solar-cell-photoelectrode-interface
#19
Peng Liu, Viktor Johansson, Herri Trilaksana, Jan Rosdahl, Gunther G Andersson, Lars Kloo
The organization of dye molecules in the dye layer adsorbed on the semiconductor substrate in dye-sensitized solar cell has been studied using a combination of theoretical methods and experimental techniques. The model system is based on the simple D--A dye L0, which has been chemically modified to replace the acceptor group -CN by -Br (L0Br) in order to offer better X-ray contrast. Experimental EXAFS data based on the Br K-edge backscattering show no obvious difference between dye-sensitised titania powder and titania film samples, thus allowing model systems to be based on powder slurrys...
May 23, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28534558/-proposing-a-physiological-model-for-emergency-department-operating-principles-classification-of-overcrowding-and-guidelines-for-redesign
#20
M Herrera Carranza, F Aguado Correa, N Padilla Garrido, F López Camacho
The operation of Emergency Departments (ED) is determined by demand, their own organizational structures and the connection to other medical care levels. When these elements are not simultaneous, it hinders patient flow and decreases capacity, making it necessary to employ a systemic approach to the chain of emergency care as a single operational entity. With this theoretical orientation, we suggest a conceptual model similar to the physiological cardiac output, in which the preload is the demand, the contractile or flow pump is the organizational structure, the afterload is the hospital, the pre-ED valve is primary care and outpatient emergencies, and the post-ED valve is the diagnostic support services and the specialist consultants...
April 30, 2017: Anales del Sistema Sanitario de Navarra
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