bluuebunny/crossref_metadata_2025 huggingface dataset:
Assessment of Density-Functional Tight-Binding Ionization Potentials and Electron Affinities of Molecules of Interest for Organic Solar Cells Against First-Principles GW Calculations
Authors: Darghouth Ala , Casida Mark , Taouali Walid , Alimi Kamel , Ljungberg Mathias , Koval Peter , Sánchez-Portal Daniel , Foerster Dietrich
Published: December 2015

Ionization potentials (IPs) and electron affinities (EAs) are important quantities input into most models for calculating the open-circuit voltage (Voc) of organic solar cells. We assess the semi-empirical density-functional tight-binding (DFTB) method with the third-order self-consistent charge (SCC) correction and the 3ob parameter set (the third-order DFTB (DFTB3) organic and biochemistry parameter set) against experiments (for smaller molecules) and against first-principles GW (Green’s function, G, times the screened potential, W) calculations (for larger molecules of interest in organic electronics) for the calculation of IPs and EAs. Since GW calculations are relatively new for molecules of this size, we have also taken care to validate these calculations against experiments. As expected, DFTB is found to behave very much like density-functional theory (DFT), but with some loss of accuracy in predicting IPs and EAs. For small molecules, the best results were found with ΔSCF (Δ self-consistent field) SCC-DFTB calculations for first IPs (good to ± 0.649 eV). When considering several IPs of the same molecule, it is convenient to use the negative of the orbital energies (which we refer to as Koopmans’ theorem (KT) IPs) as an indication of trends. Linear regression analysis shows that KT SCC-DFTB IPs are nearly as accurate as ΔSCF SCC-DFTB eigenvalues (± 0.852 eV for first IPs, but ± 0.706 eV for all of the IPs considered here) for small molecules. For larger molecules, SCC-DFTB was also the ideal choice with IP/EA errors of ± 0.489/0.740 eV from ΔSCF calculations and of ± 0.326/0.458 eV from (KT) orbital energies. Interestingly, the linear least squares fit for the KT IPs of the larger molecules also proves to have good predictive value for the lower energy KT IPs of smaller molecules, with significant deviations appearing only for IPs of 15–20 eV or larger. We believe that this quantitative analysis of errors in SCC-DFTB IPs and EAs may be of interest to other researchers interested in DFTB investigation of large and complex problems, such as those encountered in organic electronics.
Wavelet-Tsallis Entropy Detection and Location of Mean Level-Shifts in Long-Memory fGn Signals
Authors: Ramírez-Pacheco Julio , Rizo-Domínguez Luis , Cortez-González Joaquin
Published: December 2015

Long-memory processes, in particular fractional Gaussian noise processes, have been applied as models for many phenomena occurring in nature. Non-stationarities, such as trends, mean level-shifts, etc., impact the accuracy of long-memory parameter estimators, giving rise to biases and misinterpretations of the phenomena. In this article, a novel methodology for the detection and location of mean level-shifts in stationary long-memory fractional Gaussian noise (fGn) signals is proposed. It is based on a joint application of the wavelet-Tsallis q-entropy as a preprocessing technique and a peak detection methodology. Extensive simulation experiments in synthesized fGn signals with mean level-shifts confirm that the proposed methodology not only detects, but also locates level-shifts with high accuracy. A comparative study against standard techniques of level-shift detection and location shows that the technique based on wavelet-Tsallis q-entropy outperforms the one based on trees and the Bai and Perron procedure, as well.
Multiscale Entropy Analysis of Surface Electromyographic Signals from the Urethral Sphincter as a Prognostic Indicator for Surgical Candidates with Primary Bladder Neck Obstruction
Authors: Wu Hsien-Tsai , Jiang Yuan-Hong , Liu An-Bang , Liu Chun-Wei , Ou Yu-Nian , Kuo Hann-Chorng , Sun Cheuk-Kwan
Published: December 2015

To explore information hidden in the electromyographic (EMG) signals of the urethral sphincter that may be of prognostic significance for patients with primary bladder neck obstruction (PBNO), 41 patients with voiding difficulty were divided into four groups: 1) patients with primary bladder neck obstruction (PBNO) with successful (Group 1, n = 14) and 2) unsuccessful (Group 2, n = 8) surgical outcomes, 3) patients with detrusor overactivity (Group 3, n = 7), and 4) patients with detrusor-external sphincter dyssynergia (Group 4, n = 12). All patients underwent baseline urodynamic studies (preoperative for Group 1 and Group 2) for comparison. The results demonstrated that, despite no significant difference in urodynamic parameters between Group 1 and Group 2, the large-scale multiscale entropy (MSE) of preoperative EMG (i.e., MSELS(EMG)) of Group 1 was significantly higher than that of Group 2 without notable difference between Group 1 and Group 3 (i.e., patients with normal sphincter function). Moreover, the MSELS(EMG) and small-scale MSE of preoperative EMG (i.e., MSESS(EMG)) of Group 2 were notably higher than those of Group 4 (i.e., patients with abnormal sphincter function), while both MSELS(EMG) and MSESS(EMG) of Group 3 were notably higher than those of Group 2. In conclusion, using MSE analysis for assessing preoperative urethral sphincter EMG signals successfully distinguished between PBNO patients with subsequent successful surgery from those with surgical failure possibly due to subtle functional impairment of the urethral sphincter that cannot be detected by routine urodynamic studies. The results, therefore, highlight the potential clinical significance of this analytical tool in guiding urologists regarding their choice of medical versus surgical treatment for this patient population.
Effects of Variable Valve Lift on In-Cylinder Air Motion
Authors: Wang Tianyou , Liu Daming , Wang Gangde , Tan Bingqian , Peng Zhijun
Published: December 2015

An investigation into in-cylinder swirl and tumble flow characteristics with reduced maximum valve lifts (MVL) is presented. The experimental work was conducted in the modified four-valve optical spark-ignition (SI) test engine with three different MVL. Particle image velocimetry (PIV) was employed for measuring in-cylinder air motion and measurement results were analyzed for examining flow field, swirl and tumble ratio variation and fluctuating kinetic energy distribution. Results of ensemble-averaged flow fields show that reduced MVL could produce strong swirl flow velocity, then resulted in very regular swirl motion in the late stage of the intake process. The strong swirl flow can maintain very well until the late compression stage. The reduction of MVL can also increase both high-frequency and low-frequency swirl flow fluctuating kinetic energy remarkably. Regarding tumble flow, results demonstrate that lower MVLs result in more horizontal intake flow velocity vectors which can be easily detected under the valve seat area. Although the result of lower MVLs show a higher tumble ratio when the piston is close to the bottom dead centre (BDC), higher MVLs substantially produce higher tumble ratios which can be confirmed when most cylinder area lies in the measuring range.
Asymptotic Solutions of Serial Radial Fuel Shuffling
Authors: Chen Xue-Nong , Kiefhaber Edgar
Published: December 2015

In this paper, the mechanism of traveling wave reactors (TWRs) is investigated from the mathematical physics point of view, in which a stationary fission wave is formed by radial fuel drifting. A two dimensional cylindrically symmetric core is considered and the fuel is assumed to drift radially according to a continuous fuel shuffling scheme. A one-group diffusion equation with burn-up dependent macroscopic coefficients is set up. The burn-up dependent macroscopic coefficients were assumed to be known as functions of neutron fluence. By introducing the effective multiplication factor keff, a nonlinear eigenvalue problem is formulated. The 1-D stationary cylindrical coordinate problem can be solved successively by analytical and numerical integrations for associated eigenvalues keff. Two representative 1-D examples are shown for inward and outward fuel drifting motions, respectively. The inward fuel drifting has a higher keff than the outward one. The 2-D eigenvalue problem has to be solved by a more complicated method, namely a pseudo time stepping iteration scheme. Its 2-D asymptotic solutions are obtained together with certain eigenvalues keff for several fuel inward drifting speeds. Distributions of the neutron flux, the neutron fluence, the infinity multiplication factor kinf and the normalized power are presented for two different drifting speeds.
Power Transmission Scheduling for Generators in a Deregulated Environment Based on a Game-Theoretic Approach
Authors: Gao Bingtuan , Ma Tingting , Tang Yi
Published: December 2015

In a deregulated environment of the power market, in order to lower their energy price and guarantee the stability of the power network, appropriate transmission lines have to be considered for electricity generators to sell their energy to the end users. This paper proposes a game-theoretic power transmission scheduling for multiple generators to lower their wheeling cost. Based on the embedded cost method, a wheeling cost model consisting of congestion cost, cost of losses and cost of transmission capacity is presented. By assuming each generator behaves in a selfish and rational way, the competition among the multiple generators is formulated as a non-cooperative game, where the players are the generators and the strategies are their daily schedules of power transmission. We will prove that there exists at least one pure-strategy Nash equilibrium of the formulated power transmission game. Moreover, a distributed algorithm will be provided to realize the optimization in terms of minimizing the wheeling cost. Finally, simulations were performed and discussed to verify the feasibility and effectiveness of the proposed non-cooperative game approach for the generators in a deregulated environment.
A Two-stage Optimal Network Reconfiguration Approach for Minimizing Energy Loss of Distribution Networks Using Particle Swarm Optimization Algorithm
Authors: Huang Wei-Tzer , Chen Tsai-Hsiang , Chen Hong-Ting , Yang Jhih-Siang , Lian Kuo-Lung , Chang Yung-Ruei , Lee Yih-Der , Ho Yuan-Hsiang
Published: December 2015

This study aimed to minimize energy losses in traditional distribution networks and microgrids through a network reconfiguration and phase balancing approach. To address this problem, an algorithm composed of a multi-objective function and operation constraints is proposed. Network connection matrices based on graph theory and the backward/forward sweep method are used to analyze power flow. A minimizing energy loss approach is developed for network reconfiguration and phase balancing, and the particle swarm optimization (PSO) algorithm is adopted to solve this optimal combination problem. The proposed approach is tested on the IEEE 37-bus test system and the first outdoor microgrid test bed established by the Institute of Nuclear Energy Research (INER) in Taiwan. Simulation results demonstrate that the proposed two-stage approach can be applied in network reconfiguration to minimize energy loss.
Radiometric Characterization, Solar and Thermal Radiation in a Greenhouse as Affected by Shading Configuration in an Arid Climate
Authors: Abdel-Ghany Ahmed , Picuno Pietro , Al-Helal Ibrahim , Alsadon Abdullah , Ibrahim Abdullah , Shady Mohamed
Published: December 2015

Shading the greenhouses is necessary in summer to reduce the solar radiation load. This however generates a considerable amount of thermal radiation heat load that needs to be removed via cooling systems. This study aimed to evaluate the effect of different shading configurations on the solar and thermal radiation in a greenhouse. Nets at four different locations were employed to shade the roof and side-walls of a polycarbonate, mechanically ventilated greenhouse. The spectral radiative properties of all these plastic materials were measured in short and long wave spectrum bands. The net solar and thermal radiations and air temperature were measured outside and inside two identical shaded and unshaded greenhouses. The results showed that external roof-shading is desirable, as it reduced the generated thermal radiation in the greenhouse by 21% and 15% during the day and night time, respectively and reduced the greenhouse air temperature during the day. The internal shading (roof and side walls) is undesirable, since it drastically increased the generated thermal radiation in the greenhouse by 147% and strongly increased the greenhouse air temperature during the day. Shading the side-walls is not recommended because it significantly reduces the transmitted solar radiation in the morning and afternoon (when the outside irradiance is low) and is useless at around noon when the outside irradiance is extremely high.
“No More Boomerang”: Environment and Technology in Contemporary Aboriginal Australian Poetry
Authors: Ryan John
Published: December 2015

Based in oral traditions and song cycles, contemporary Aboriginal Australian poetry is full of allusions to the environment. Not merely a physical backdrop for human activities, the ancient Aboriginal landscape is a nexus of ecological, spiritual, material, and more-than-human overlays—and one which is increasingly compromised by modern technological impositions. In literary studies, while Aboriginal poetry has become the subject of critical interest, few studies have foregrounded the interconnections between environment and technology. Instead, scholarship tends to focus on the socio-political and cultural dimensions of the writing. How have contemporary Australian Aboriginal poets responded to the impacts of environmental change and degradation? How have poets addressed the effects of modern technology in ancestral environments, or country? This article will develop an ecocritical and technology-focused perspective on contemporary Aboriginal poetry through an analysis of the writings of three significant literary-activists: Jack Davis (1917–2000), Oodgeroo Noonuccal (1920–1993), and Lionel Fogarty (born 1958). Davis, Noonuccal, and Fogarty strive poetically to draw critical attention to the particular impacts of late modernist technologies on Aboriginal people and country. In developing a critique of invasive technologies that adversely affect the environment and culture, their poetry also invokes the Aboriginal technologies that sustained (and, in places, still sustain) people in reciprocal relation to country.
Scientific Symposium “Small Solution for Big Water-Related Problems: Innovative Microarrays and Small Sensors to Cope with Water Quality and Food Security”
Authors: Marcheggiani Stefania , Spurio Roberto , Cimarelli Lucia , Tito Duarte , Mancini Laura
Published: December 2015

This issue presents the conclusive results of two European Commission funded Projects, namely Universal Microarrays for the Evaluation of Fresh-water Quality Based on Detection of Pathogens and their Toxins (MicroAQUA) and Rationally Designed Aquatic Receptors (RADAR). These projects focused their activities on the quality of drinking water as an extremely important factor for public health of humans and animals. The MicroAQUA Project aimed at developing a universal microarray chip for the detection of various pathogens (cyanobacteria, bacteria, viruses and parasitic protozoa) and their toxins in waters. In addition, the project included the detection of select species of diatoms, which represent reliable bio-indicators to assess overall water quality. Large numbers of compounds are released into the environment; some of these are toxins such as endocrine disrupting compounds (EDCs) and can affect the endocrine, immune and nervous systems of a wide range of animals causing alterations such as reproductive disorders and cancer. Detection of these contaminants in water systems is important to protect sensitive environmental sites and reduce the risk of toxins entering the food chain. A modular platform for monitoring toxins in water and food production facilities, using biosensors derived from aquatic organisms, was the main goal of RADAR Project.
Competitive Degradation of Steroid Estrogens by Potassium Permanganate Combined with Ultrasound
Authors: Deng Jing , Tang Kai , Zhu Shijun , Ma Xiaoyan , Zhang Kejia , Song Yali , Li Xueyan , Li Qingsong , Liu Zhenhua , Zhou Kejin
Published: December 2015

The occurrence of natural estrogens including estrone (E1), 17β-estradiol (E2), and synthetic 17α-ethinylestradiol (EE2), which can be excreted by both humans and animals, and can enter the aqueous environment along with the discharge of domestic sewage, is a major concern since this may represent a serious health risk to humans even at extremely trace levels (ng·L−1). Simultaneous degradation of three coexisting steroid estrogens (SEs) in aqueous solutions by coupled ultrasound and KMnO4 systems (KMnO4/ultrasound) were investigated to find out whether there is a competitive degradation of multiple contaminants or not. Results indicate that the degradation ratios of target SEs were all more than 50% after 120 min reaction contact, greatly enhanced when compared with the single KMnO4 (2 mg·L−1) oxidation of E2 (37.0%), EE2 (34.4%), and E1 (34.0%), and the single sonochemical oxidation of E2 (37.1%), EE2 (31.1%), and E1 (29.7%). In the adopted processes, the degradations of SEs fit the first-order kinetic reaction, with different reaction rates. Kinetic parameters revealed there was little difference between coexisting SEs, which means there was almost no competitive degradation. The removal efficiency and degradation rate of SEs in natural water was higher than those in pure water, which suggested that the coupled KMnO4/ultrasound technology had prospective applications in the removal of complex contaminants in actual drinking water treatment.
Asthma and Wheeze Prevalence among Nursing Professionals in Western Japan: A Cross-Sectional Study
Authors: Kurai Jun , Watanabe Masanari , Sano Hiroyuki , Torai Saeko , Yanase Hirokazu , Funakoshi Tomoaki , Fukada Atsuko , Hayakawa Sachiko , Shimizu Eiji , Kitano Hiroya
Published: December 2015

Although adult asthma is attributable to occupational factors, few reports are available on asthma prevalence among health care workers in Japan. The objective of this study was to estimate the prevalence of asthma and wheeze among Japanese nursing professionals. A cross-sectional study was conducted by postal survey using a translated version of the European Community Respiratory Health Survey questionnaire from April to June 2013. The analysis included 4634 nursing professionals (257 men and 4377 women) and the overall response rate was 84.8%. The prevalence of current asthma and wheeze were 10.7% (95% confidence interval (CI), 9.9%–11.7%) and 15.6% (95% CI, 14.5%–16.6%), respectively. More than one year of work experience as a nursing professional and more than one year of experience with bed-making tasks were associated with odds ratios (ORs) of 1.95 (95% CI, 1.12–3.39) and 1.64 (95% CI, 1.15–2.23) for wheeze, respectively. Current smoking was significantly associated with the presence of wheeze, with ORs of 2.27 for men (95% CI, 1.11–4.64) and 2.01 for women (95% CI, 1.54–2.64). Among female nurses, latex allergy was associated with wheeze (OR, 1.87; 95% CI, 1.56–2.23), as was body mass index ≥30 (OR, 2.76; 95% CI, 1.65–4.62). This study has provided the prevalence of asthma and wheeze among Japanese nursing professionals. Employment period, bed-making tasks, latex allergy, obesity, and smoking may be risk factors for prevalent wheeze among nursing professionals.
Associations Between Excessive Sodium Intake and Smoking and Alcohol Intake Among Korean Men: KNHANES V
Authors: Choi Kyung-Hwa , Park Myung-Sook , Kim Jung , Lim Ji-Ae
Published: December 2015

In this study, we evaluated the associations of smoking and alcohol intake, both independently and collectively, with sodium intake in Korean men. Subjects (6340 men) were from the fifth Korean National Health Examination Survey (2010–2012). Smoking-related factors included smoking status, urinary cotinine level, and pack-years of smoking. Food intake was assessed using a 24-h recall. The odds of excessive sodium intake were estimated using survey logistic regression analysis. The smoking rate was 44.1%. The geometric mean of the urinary cotinine level was 0.05 µg/mL, and the median (min–max) pack-years of smoking was 13.2 (0–180). When adjusted for related factors, the odds (95% confidence interval) of excessive sodium intake were 1.54 (1.00, 2.37), 1.55 (1.23, 1.94), 1.44 (1.07, 1.95), and 1.37 (1.11, 1.68) times higher in the group exposed to smoking and drinking than in the group that never smoked nor drank, the group that never smoked and drank <5 times per month, the group that did not currently smoke and never drank, and the group that did not currently smoke or drink <5 times per month, respectively. There was an interaction effect between smoking and alcohol intake (p-interaction = 0.02). The results suggest that simultaneous exposure to smoking and alcohol intake is associated with increased odds of excessive sodium intake.
Adult Lifespan Cognitive Variability in the Cross-Sectional Cam-CAN Cohort
Authors: Green Emma , Shafto Meredith , Matthews Fiona , Cam-CAN  , White Simon
Published: December 2015

This study examines variability across the age span in cognitive performance in a cross-sectional, population-based, adult lifespan cohort from the Cambridge Centre for Ageing and Neuroscience (Cam-CAN) study (n = 2680). A key question we highlight is whether using measures that are designed to detect age-related cognitive pathology may not be sensitive to, or reflective of, individual variability among younger adults. We present three issues that contribute to the debate for and against age-related increases in variability. Firstly, the need to formally define measures of central tendency and measures of variability. Secondly, in addition to the commonly addressed location-confounding (adjusting for covariates) there may exist changes in measures of variability due to confounder sub-groups. Finally, that increases in spread may be a result of floor or ceiling effects; where the measure is not sensitive enough at all ages. From the Cam-CAN study, a large population-based dataset, we demonstrate the existence of variability-confounding for the immediate episodic memory task; and show that increasing variance with age in our general cognitive measures is driven by a ceiling effect in younger age groups.
Sex-Dependent Depression-Like Behavior Induced by Respiratory Administration of Aluminum Oxide Nanoparticles
Authors: Zhang Xin , Xu Yan , Zhou Lian , Zhang Chengcheng , Meng Qingtao , Wu Shenshen , Wang Shizhi , Ding Zhen , Chen Xiaodong , Li Xiaobo , Chen Rui
Published: December 2015

Ultrafine aluminum oxide, which are abundant in ambient and involved occupational environments, are associated with neurobehavioral alterations. However, few studies have focused on the effect of sex differences following exposure to environmental Al2O3 ultrafine particles. In the present study, male and female mice were exposed to Al2O3 nanoparticles (NPs) through a respiratory route. Only the female mice showed depression-like behavior. Although no obvious pathological changes were observed in mice brain tissues, the neurotransmitter and voltage-gated ion channel related gene expression, as well as the small molecule metabolites in the cerebral cortex, were differentially modulated between male and female mice. Both mental disorder-involved gene expression levels and metabolomics analysis results strongly suggested that glutamate pathways were implicated in sex differentiation induced by Al2O3 NPs. Results demonstrated the potential mechanism of environmental ultrafine particle-induced depression-like behavior and the importance of sex dimorphism in the toxic research of environmental chemicals.
Investigation of the Effects of Perfluorooctanoic Acid (PFOA) and Perfluorooctane Sulfonate (PFOS) on Apoptosis and Cell Cycle in a Zebrafish (Danio rerio) Liver Cell Line
Authors: Cui Yuan , Liu Wei , Xie Wenping , Yu Wenlian , Wang Cheng , Chen Huiming
Published: December 2015

This study aimed to explore the effects of perfluorooctanoic acid (PFOA) and perfluorooctane sulfonate (PFOS) on apoptosis and cell cycle in a zebrafish (Danio rerio) liver cell line (ZFL). Treatment groups included a control group, PFOA-IC50, PFOA-IC80, PFOS-IC50 and PFOS-IC80 groups. IC50 and IC80 concentrations were identified by cellular modeling and MTT assays. mRNA levels of p53, Bcl-2, Bax, Caspase-3 and NF-κB p65 were detected by qPCR. Cell apoptosis and cell cycle were detected by flow cytometry and the protein levels of p53, Bcl-2, Bax, Caspase-3 and NF-κB p65 were determined by western blotting. Both PFOA and PFOS inhibited the growth of zebrafish liver cells, and the inhibition rate of PFOS was higher than that of PFOA. Bcl-2 expression levels in the four groups were significantly higher than the control group and Bcl-2 increased significantly in the PFOA-IC80 group. However, the expression levels of Bax in the four treatment groups were higher than the control group. The percentage of cell apoptosis increased significantly with the treatment of PFOA and PFOS (p < 0.05). Cell cycle and cell proliferation were blocked in both the PFOA-IC80 and PFOS-IC80 groups, indicating that PFOA-IC80 and PFOS-IC50 enhanced apoptosis in ZFL cells.
Spatial Sampling Strategies for the Effect of Interpolation Accuracy
Authors: Zhang Hairong , Lu Lijiang , Liu Yanhua , Liu Wei
Published: December 2015

Spatial interpolation methods are widely used in various fields and have been studied by several scholars with one or a few specific sampling datasets that do not reflect the complexity of the spatial characteristics and lead to conclusions that cannot be widely applied. In this paper, three factors that affect the accuracy of interpolation have been considered, i.e., sampling density, sampling mode, and sampling location. We studied the inverse distance weighted (IDW), regular spline (RS), and ordinary kriging (OK) interpolation methods using 162 DEM datasets considering six sampling densities, nine terrain complexities, and three sampling modes. The experimental results show that, in selective sampling and combined sampling, the maximum absolute errors of interpolation methods rapidly increase and the estimated values are overestimated. In regular-grid sampling, the RS method has the highest interpolation accuracy, and IDW has the lowest interpolation accuracy. However, in both selective and combined sampling, the accuracy of the IDW method is significantly improved and the RS method performs worse. The OK method does not significantly change between the three sampling modes. The following conclusion can be obtained from the above analysis: the combined sampling mode is recommended for sampling, and more sampling points should be added in the ridges, valleys, and other complex terrain. The IDW method should not be used in the regular-grid sampling mode, but it has good performance in the selective sampling mode and combined sampling mode. However, the RS method shows the opposite phenomenon. The sampling dataset should be analyzed before using the OK method, which can select suitable models based on the analysis results of the sampling dataset.
The Historical Development of Immunoendocrine Concepts of Psychiatric Disorders and Their Therapy
Authors: Steinberg Holger , Kirkby Kenneth , Himmerich Hubertus
Published: December 2015

Relationships between the central nervous, immune and endocrine systems are a focus of psychiatric research, particularly in depression and schizophrenia. The field has long antecedents. Observed phenomena attributable to these relationships date back to the Neolithic era. Immunoendocrine theories in the broadest sense are recorded in antiquity. In the 19th century, Kraepelin and Wagner-Jauregg reported pioneering clinical observations in psychiatric patients. Von Basedow, Addison and Cushing described psychiatric symptoms in patients suffering from endocrine diseases. The 20th century opened with the identification of hormones, the first, adrenaline, chemically isolated independently by Aldrich und Takamine in 1901. Berson and Yalow developed the radioimmunoassay (RIA) technique in 1959 making it possible to measure levels of hormones and cytokines. These developments have enabled great strides in psychoimmunoendocrinology. Contemporary research is investigating diagnostic and therapeutic applications of these concepts, for example by identifying biomarkers within the endocrine and immune systems and by synthesizing and testing drugs that modulate these systems and show antidepressant or antipsychotic properties.
Non-Coding RNAs in Castration-Resistant Prostate Cancer: Regulation of Androgen Receptor Signaling and Cancer Metabolism
Authors: Shih Jing-Wen , Wang Ling-Yu , Hung Chiu-Lien , Kung Hsing-Jien , Hsieh Chia-Ling
Published: December 2015

Hormone-refractory prostate cancer frequently relapses from therapy and inevitably progresses to a bone-metastatic status with no cure. Understanding of the molecular mechanisms conferring resistance to androgen deprivation therapy has the potential to lead to the discovery of novel therapeutic targets for type of prostate cancer with poor prognosis. Progression to castration-resistant prostate cancer (CRPC) is characterized by aberrant androgen receptor (AR) expression and persistent AR signaling activity. Alterations in metabolic activity regulated by oncogenic pathways, such as c-Myc, were found to promote prostate cancer growth during the development of CRPC. Non-coding RNAs represent a diverse family of regulatory transcripts that drive tumorigenesis of prostate cancer and various other cancers by their hyperactivity or diminished function. A number of studies have examined differentially expressed non-coding RNAs in each stage of prostate cancer. Herein, we highlight the emerging impacts of microRNAs and long non-coding RNAs linked to reactivation of the AR signaling axis and reprogramming of the cellular metabolism in prostate cancer. The translational implications of non-coding RNA research for developing new biomarkers and therapeutic strategies for CRPC are also discussed.
De Novo Transcriptome Sequencing Analysis of cDNA Library and Large-Scale Unigene Assembly in Japanese Red Pine (Pinus densiflora)
Authors: Liu Le , Zhang Shijie , Lian Chunlan
Published: December 2015

Japanese red pine (Pinus densiflora) is extensively cultivated in Japan, Korea, China, and Russia and is harvested for timber, pulpwood, garden, and paper markets. However, genetic information and molecular markers were very scarce for this species. In this study, over 51 million sequencing clean reads from P. densiflora mRNA were produced using Illumina paired-end sequencing technology. It yielded 83,913 unigenes with a mean length of 751 bp, of which 54,530 (64.98%) unigenes showed similarity to sequences in the NCBI database. Among which the best matches in the NCBI Nr database were Picea sitchensis (41.60%), Amborella trichopoda (9.83%), and Pinus taeda (4.15%). A total of 1953 putative microsatellites were identified in 1784 unigenes using MISA (MicroSAtellite) software, of which the tri-nucleotide repeats were most abundant (50.18%) and 629 EST-SSR (expressed sequence tag- simple sequence repeats) primer pairs were successfully designed. Among 20 EST-SSR primer pairs randomly chosen, 17 markers yielded amplification products of the expected size in P. densiflora. Our results will provide a valuable resource for gene-function analysis, germplasm identification, molecular marker-assisted breeding and resistance-related gene(s) mapping for pine for P. densiflora.
Innate Immunity and Inflammation Post-Stroke: An α7-Nicotinic Agonist Perspective
Authors: Neumann Silke , Shields Nicholas , Balle Thomas , Chebib Mary , Clarkson Andrew
Published: December 2015

Stroke is one of the leading causes of death and long-term disability, with limited treatment options available. Inflammation contributes to damage tissue in the central nervous system across a broad range of neuropathologies, including Alzheimer’s disease, pain, Schizophrenia, and stroke. While the immune system plays an important role in contributing to brain damage produced by ischemia, the damaged brain, in turn, can exert a powerful immune-suppressive effect that promotes infections and threatens the survival of stroke patients. Recently the cholinergic anti-inflammatory pathway, in particular its modulation using α7-nicotinic acetylcholine receptor (α7-nAChR) ligands, has shown potential as a strategy to dampen the inflammatory response and facilitate functional recovery in stroke patients. Here we discuss the current literature on stroke-induced inflammation and the effects of α7-nAChR modulators on innate immune cells.
The Role of the Neuroprotective Factor Npas4 in Cerebral Ischemia
Authors: Choy Fong , Klarić Thomas , Koblar Simon , Lewis Martin
Published: December 2015

Stroke is one of the leading causes of death and adult disability in the world. Although many molecules have been documented to have a neuroprotective effect, the majority of these molecules failed to improve the neurological outcomes for patients with brain ischemia. It has been proposed that neuroprotection alone may, in fact, not be adequate for improving the prognosis of ischemic stroke. Neuroprotectants that can regulate other processes which occur in the brain during ischemia could potentially be targets for the development of effective therapeutic interventions in stroke. Neuronal Per-Arnt-Sim domain protein 4 (Npas4) is an activity-dependent transcription factor whose expression is induced in various brain insults, including cerebral ischemia. It has been shown that Npas4 plays an important role in protecting neurons against many types of neurodegenerative insult. Recently, it was demonstrated that Npas4 indeed has a neuroprotective role in ischemic stroke and that Npas4 might be involved in modulating the cell death pathway and inflammatory response. In this review, we summarize the current knowledge of the roles that Npas4 may play in neuroinflammation and ischemia. Understanding how ischemic lesion size in stroke may be reduced through modulation of Npas4-dependent apoptotic and inflammatory pathways could lead to the development of new stroke therapies.
Protective Role of Proton-Sensing TDAG8 in Lipopolysaccharide-Induced Acute Lung Injury
Authors: Tsurumaki Hiroaki , Mogi Chihiro , Aoki-Saito Haruka , Tobo Masayuki , Kamide Yosuke , Yatomi Masakiyo , Sato Koichi , Dobashi Kunio , Ishizuka Tamotsu , Hisada Takeshi , Yamada Masanobu , Okajima Fumikazu
Published: December 2015

Acute lung injury is characterized by the infiltration of neutrophils into lungs and the subsequent impairment of lung function. Here we explored the role of TDAG8 in lung injury induced by lipopolysaccharide (LPS) administrated intratracheally. In this model, cytokines and chemokines released from resident macrophages are shown to cause neutrophilic inflammation in the lungs. We found that LPS treatment increased TDAG8 expression in the lungs and confirmed its expression in resident macrophages in bronchoalveolar lavage (BAL) fluids. LPS administration remarkably increased neutrophil accumulation without appreciable change in the resident macrophages, which was associated with increased penetration of blood proteins into BAL fluids, interstitial accumulation of inflammatory cells, and damage of the alveolar architecture. The LPS-induced neutrophil accumulation and the associated lung damage were enhanced in TDAG8-deficient mice as compared with those in wild-type mice. LPS also increased several mRNA and protein expressions of inflammatory cytokines and chemokines in the lungs or BAL fluids. Among these inflammatory mediators, mRNA and protein expression of KC (also known as CXCL1), a chemokine of neutrophils, were significantly enhanced by TDAG8 deficiency. We conclude that TDAG8 is a negative regulator for lung neutrophilic inflammation and injury, in part, through the inhibition of chemokine production.
Advances in Intracranial Pressure Monitoring and Its Significance in Managing Traumatic Brain Injury
Authors: Kawoos Usmah , McCarron Richard , Auker Charles , Chavko Mikulas
Published: December 2015

Intracranial pressure (ICP) measurements are essential in evaluation and treatment of neurological disorders such as subarachnoid and intracerebral hemorrhage, ischemic stroke, hydrocephalus, meningitis/encephalitis, and traumatic brain injury (TBI). The techniques of ICP monitoring have evolved from invasive to non-invasive—with both limitations and advantages. Some limitations of the invasive methods include short-term monitoring, risk of infection, restricted mobility of the subject, etc. The invasiveness of a method limits the frequency of ICP evaluation in neurological conditions like hydrocephalus, thus hampering the long-term care of patients with compromised ICP. Thus, there has been substantial interest in developing noninvasive techniques for assessment of ICP. Several approaches were reported, although none seem to provide a complete solution due to inaccuracy. ICP measurements are fundamental for immediate care of TBI patients in the acute stages of severe TBI injury. In severe TBI, elevated ICP is associated with mortality or poor clinical outcome. ICP monitoring in conjunction with other neurological monitoring can aid in understanding the pathophysiology of brain damage. This review article presents: (a) the significance of ICP monitoring; (b) ICP monitoring methods (invasive and non-invasive); and (c) the role of ICP monitoring in the management of brain damage, especially TBI.
Bioinformatics Mining and Modeling Methods for the Identification of Disease Mechanisms in Neurodegenerative Disorders
Authors: Hofmann-Apitius Martin , Ball Gordon , Gebel Stephan , Bagewadi Shweta , De Bono Bernard , Schneider Reinhard , Page Matt , Kodamullil Alpha , Younesi Erfan , Ebeling Christian , Tegnér Jesper , Canard Luc
Published: December 2015

Since the decoding of the Human Genome, techniques from bioinformatics, statistics, and machine learning have been instrumental in uncovering patterns in increasing amounts and types of different data produced by technical profiling technologies applied to clinical samples, animal models, and cellular systems. Yet, progress on unravelling biological mechanisms, causally driving diseases, has been limited, in part due to the inherent complexity of biological systems. Whereas we have witnessed progress in the areas of cancer, cardiovascular and metabolic diseases, the area of neurodegenerative diseases has proved to be very challenging. This is in part because the aetiology of neurodegenerative diseases such as Alzheimer´s disease or Parkinson´s disease is unknown, rendering it very difficult to discern early causal events. Here we describe a panel of bioinformatics and modeling approaches that have recently been developed to identify candidate mechanisms of neurodegenerative diseases based on publicly available data and knowledge. We identify two complementary strategies—data mining techniques using genetic data as a starting point to be further enriched using other data-types, or alternatively to encode prior knowledge about disease mechanisms in a model based framework supporting reasoning and enrichment analysis. Our review illustrates the challenges entailed in integrating heterogeneous, multiscale and multimodal information in the area of neurology in general and neurodegeneration in particular. We conclude, that progress would be accelerated by increasing efforts on performing systematic collection of multiple data-types over time from each individual suffering from neurodegenerative disease. The work presented here has been driven by project AETIONOMY; a project funded in the course of the Innovative Medicines Initiative (IMI); which is a public-private partnership of the European Federation of Pharmaceutical Industry Associations (EFPIA) and the European Commission (EC).
Mast Cell-Mediated Mechanisms of Nociception
Authors: Aich Anupam , Afrin Lawrence , Gupta Kalpna
Published: December 2015

Mast cells are tissue-resident immune cells that release immuno-modulators, chemo-attractants, vasoactive compounds, neuropeptides and growth factors in response to allergens and pathogens constituting a first line of host defense. The neuroimmune interface of immune cells modulating synaptic responses has been of increasing interest, and mast cells have been proposed as key players in orchestrating inflammation-associated pain pathobiology due to their proximity to both vasculature and nerve fibers. Molecular underpinnings of mast cell-mediated pain can be disease-specific. Understanding such mechanisms is critical for developing disease-specific targeted therapeutics to improve analgesic outcomes. We review molecular mechanisms that may contribute to nociception in a disease-specific manner.
Phenolic Phytoalexins in Rice: Biological Functions and Biosynthesis
Authors: Cho Man-Ho , Lee Sang-Won
Published: December 2015

Phytoalexins are inducible secondary metabolites possessing antimicrobial activity against phytopathogens. Rice produces a wide array of phytoalexins in response to pathogen attacks and environmental stresses. With few exceptions, most phytoalexins identified in rice are diterpenoid compounds. Until very recently, flavonoid sakuranetin was the only known phenolic phytoalexin in rice. However, recent studies have shown that phenylamides are involved in defense against pathogen attacks in rice. Phenylamides are amine-conjugated phenolic acids that are induced by pathogen infections and abiotic stresses including ultra violet (UV) radiation in rice. Stress-induced phenylamides, such as N-trans-cinnamoyltryptamine, N-p-coumaroylserotonin and N-cinnamoyltyramine, have been reported to possess antimicrobial activities against rice bacterial and fungal pathogens, an indication of their direct inhibitory roles against invading pathogens. This finding suggests that phenylamides act as phytoalexins in rice and belong to phenolic phytoalexins along with sakuranetin. Phenylamides also have been implicated in cell wall reinforcement for disease resistance and allelopathy of rice. Synthesis of phenolic phytoalexins is stimulated by phytopathogen attacks and abiotic challenges including UV radiation. Accumulating evidence has demonstrated that biosynthetic pathways including the shikimate, phenylpropanoid and arylmonoamine pathways are coordinately activated for phenolic phytoalexin synthesis, and related genes are induced by biotic and abiotic stresses in rice.
Antioxidant and ACE Inhibitory Bioactive Peptides Purified from Egg Yolk Proteins
Authors: Yousr Marwa , Howell Nazlin
Published: December 2015

Protein by-products from the extraction of lecithin from egg yolk can be converted into value-added products, such as bioactive hydrolysates and peptides that have potential health enhancing antioxidant, and antihypertensive properties. In this study, the antioxidant and angiotensin converting enzyme (ACE) inhibitory activities of peptides isolated and purified from egg yolk protein were investigated. Defatted egg yolk was hydrolyzed using pepsin and pancreatin and sequentially fractionated by ultrafiltration, followed by gel filtration to produce egg yolk gel filtration fractions (EYGF). Of these, two fractions, EYGF-23 and EYGF-33, effectively inhibited the peroxides and thiobarbituric acid reactive substance (TBARS) in an oxidizing linoleic acid model system. The antioxidant mechanism involved superoxide anion and hydroxyl radicals scavenging and ferrous chelation. The presence of hydrophobic amino acids such as tyrosine (Y) and tryptophan (W), in sequences identified by LC-MS as WYGPD (EYGF-23) and KLSDW (EYGF-33), contributed to the antioxidant activity and were not significantly different from the synthetic BHA antioxidant. A third fraction (EYGF-56) was also purified from egg yolk protein by gel filtration and exhibited high ACE inhibitory activity (69%) and IC50 value (3.35 mg/mL). The SDNRNQGY peptide (10 mg/mL) had ACE inhibitory activity, which was not significantly different from that of the positive control captopril (0.5 mg/mL). In addition, YPSPV in (EYGF-33) (10 mg/mL) had higher ACE inhibitory activity compared with captopril. These findings indicated a substantial potential for producing valuable peptides with antioxidant and ACE inhibitory activity from egg yolk.
IL-18 and Cutaneous Inflammatory Diseases
Authors: Lee Ji , Cho Dae , Park Hyun
Published: December 2015

Interleukin (IL)-18, an IL-1 family cytokine, is a pleiotropic immune regulator. IL-18 plays a strong proinflammatory role by inducing interferon (IFN)-γ. Previous studies have implicated IL-18 in the pathogenesis of various diseases. However, it is not well understood biologic activities of IL-18 in the diverse skin diseases. Here, we have reviewed the expression and function of IL-18 in skin diseases including inflammatory diseases. This article provides an evidence-based understanding of the role of IL-18 in skin diseases and its relationship with disease activities.
MicroRNAs in Nonalcoholic Fatty Liver Disease
Authors: Baffy György
Published: December 2015

Nonalcoholic fatty liver disease (NAFLD) has become the most common liver disorder. Strongly linked to obesity and diabetes, NAFLD has the characteristics of complex diseases with substantial heterogeneity. Accordingly, our ability to predict the risk of advanced NAFLD and provide efficient treatment may improve by a better understanding of the relationship between genotype and phenotype. MicroRNAs (miRNAs) play a major role in the fine-tuning of gene expression and they have recently emerged as novel biomarkers and therapeutic tools in the management of NAFLD. These short non-coding RNA sequences act by partial repression or degradation of targeted mRNAs. Deregulation of miRNAs has been associated with different stages of NAFLD, while their biological role in the pathogenesis remains to be fully understood. Systems biology analyses based on predicted target genes have associated hepatic miRNAs with molecular pathways involved in NAFLD progression such as cholesterol and lipid metabolism, insulin signaling, oxidative stress, inflammation, and pathways of cell survival and proliferation. Moreover, circulating miRNAs have been identified as promising noninvasive biomarkers of NAFLD and linked to disease severity. This rapidly growing field is likely to result in major advances in the pathomechanism, prognostication, and treatment of NAFLD.
An Oil Fate Model for Shallow-Waters
Authors: Restrepo Juan , Ramírez Jorge , Venkataramani Shankar
Published: December 2015

We introduce a model for the dynamics of oil in suspension, appropriate for shallow waters, including the nearshore environment. This model is capable of oil mass conservation and does so by evolving the oil on the sea surface as well as the oil in the subsurface. The shallower portion of the continental shelf poses compounding unique modeling challenges. Many of these relate to the complex nature of advection and dispersion of oil in an environment in which wind, waves, as well as currents all play a role, as does the complex bathymetry and the nearshore geography. In this study we present an overview of the model as well as derive the most fundamental of processes, namely, the shallow water advectiion and dispersion processes. With regard to this basic transport, we superate several fundamental challenges associated with creating a transport model for oil and other buoyant pollutants, capable of capturing the dynamics at the large spatio-temporal scales demanded by environmental and hazard mitigation studies. Some of the strategies are related to dimension reduction and upscaling, and leave discussion of these to companion papers. Here we focus on wave-filtering, ensemble and depth-averaging. Integral to the model is the proposal of an ocean dynamics model that is consistent with the transport. This ocean dynamics model is detailed here. The ocean/oil transport model is applied to a couple of physically-inspired oil-spill problems in demonstrate its specialized capabilities.