bluuebunny/crossref_metadata_2025 huggingface dataset:
Molecular Analysis of Liquid-Based Cytological Specimen Using Virtually Positive Sputum with Adenocarcinoma Cells
Authors: Nishikawa Takeshi , Fujii Tomomi , Tatsumi Shigenobu , Sugimoto Aya , Sekita-Hatakeyama Yoko , Shimada Keiji , Yamazaki Masaharu , Hatakeyama Kinta , Ohbayashi Chiho
Published: February 2020

Liquid-based cytology (LBC) analysis of sputum is a useful diagnostic and prognostic tool for detecting lung cancer. DNA and RNA derived from lung cancer cells can be used for this diagnosis. However, the quality of cytological material is not always adequate for molecular analysis due to the effect of formalin in the commercially available fixation kits. In this study, we examined DNA and RNA extraction methods for LBC analysis with formalin fixation, using lung carcinoma cell lines and sputum. The human non-small cell lung cancer cell lines were fixed with LBC fixation reagents, such as CytoRich red preservative. Quantification of thyroid transcription factor-1 (TTF-1) and actin mRNA, epidermal growth factor receptor (EGFR) DNA in HCC827, H1975, and H1299 cells, and mutation analysis of EGFR in HCC827 and H1975 cells were performed by quantitative PCR (qPCR) and fluorescence resonance energy transfer (FRET)-based preferential homoduplex formation assay (F-PHFA) method, respectively. mRNA and DNA extracted from cell lines using RNA and/or DNA extraction kits for formalin-fixed paraffin-embedded (FFPE) fixed with various LBC solutions were efficiently detected by qPCR. The detection limit of EGFR mutations was at a rate of 5% mutated positive cells in LBC. The detection limit of the EGFR exon 19 deletion in HCC827 was detected in more than 1.5% of the positive cells in sputum. In contrast, the detection limit of the T790M/L858R mutation in H1975 was detected in more than 13% of the positive cells. We also detected EGFR mutations using next generation sequencing (NGS). The detection limit of NGS for EGFR mutation was lower than that of the F-PHFA method. Furthermore, more than 0.1% of positive cells could be cytomorphologically detected. Our results demonstrate that LBC systems are powerful tools for cytopathological and genetic analyses. However, careful attention should be paid to the incidence of false negative results in the genetic analysis of EGFR mutations detected by LBC.
From Boltzmann to Zipf through Shannon and Jaynes
Authors: Corral Álvaro , García del Muro Montserrat
Published: February 2020

The word-frequency distribution provides the fundamental building blocks that generate discourse in natural language. It is well known, from empirical evidence, that the word-frequency distribution of almost any text is described by Zipf’s law, at least approximately. Following Stephens and Bialek (2010), we interpret the frequency of any word as arising from the interaction potentials between its constituent letters. Indeed, Jaynes’ maximum-entropy principle, with the constrains given by every empirical two-letter marginal distribution, leads to a Boltzmann distribution for word probabilities, with an energy-like function given by the sum of the all-to-all pairwise (two-letter) potentials. The so-called improved iterative-scaling algorithm allows us finding the potentials from the empirical two-letter marginals. We considerably extend Stephens and Bialek’s results, applying this formalism to words with length of up to six letters from the English subset of the recently created Standardized Project Gutenberg Corpus. We find that the model is able to reproduce Zipf’s law, but with some limitations: the general Zipf’s power-law regime is obtained, but the probability of individual words shows considerable scattering. In this way, a pure statistical-physics framework is used to describe the probabilities of words. As a by-product, we find that both the empirical two-letter marginal distributions and the interaction-potential distributions follow well-defined statistical laws.
A Bijective Image Encryption System Based on Hybrid Chaotic Map Diffusion and DNA Confusion
Authors: ElKamchouchi Dalia H. , Mohamed Heba G. , Moussa Karim H.
Published: February 2020

Modern multimedia communications technology requirements have raised security standards, which allows for enormous development in security standards. This article presents an innovative symmetric cryptosystem that depends on the hybrid chaotic Lorenz diffusion stage and DNA confusion stage. It involves two identical encryption and decryption algorithms, which simplifies the implementation of transmitting and receiving schemes of images securely as a bijective system. Both schemes utilize two distinctive non-consecutive chaotic diffusion stages and one DNA scrambling stage in between. The generation of the coded secret bit stream employs a hybrid chaotic system, which is employed to encrypt or decrypt the transmitted image and is utilized in the diffusion process to dissipate the redundancy in the original transmitted image statistics. The transmitted image is divided into eight scrambled matrices according to the position of the pixel in every splitting matrix. Each binary matrix is converted using a different conversion rule in the Watson–Crick rules. The DNA confusion stage is applied to increase the complexity of the correlation between the transmitted image and the utilized key. These stages allow the proposed image encryption scheme to be more robust against chosen/known plaintext attacks, differential attacks, cipher image attacks, and information entropy. The system was revealed to be more sensitive against minimal change in the generated secret key. The analysis proves that the system has superior statistical properties, bulkier key space, better plain text sensitivity, and improved key sensitivity compared with former schemes.
Numerical Analysis of the Combustion of Gases Generated during Biomass Carbonization
Authors: Zarzycki Robert , Kobyłecki Rafał , Bis Zbigniew
Published: February 2020

The paper deals with the analysis of the combustion of volatiles evolved during thermolysis (thermal treatment) of biomass feedstock. The process is tailored to produce charcoal (biochar), heat and electricity and the whole system consists of a carbonizer, afterburning chamber and steam recovery boiler. In order to maintain safe operation of the carbonizer the process temperature has to be maintained at an acceptable level and thus the majority of gases evolved during biomass processing have to be combusted outside in the afterburning chamber. In this paper the combustion of those gases in a specially-designed combustion chamber was investigated numerically. The calculation results indicated that the production of the biochar has to be carried out with tight integration and management of the heat produced from the combustion of the volatiles and the emission of CO and methane may be maintained at a low level by optimization of the combustion process. The most promising effects were achieved in cases C4 and C5 where the gas was fed tangentially into the afterburning chamber. The calculation results were then used for the design and manufacture of a pilot reactor—from which the parameters and operational data will be presented and discussed in a separate paper.
Multiplexing Gains under Mixed-Delay Constraints on Wyner’s Soft-Handoff Model
Authors: Nikbakht Homa , Wigger Michèle Angela , Shamai (Shitz) Shlomo
Published: February 2020

This paper analyzes the multiplexing gains (MG) achievable over Wyner’s soft-handoff model under mixed-delay constraints, that is, when delay-sensitive and delay-tolerant data are simultaneously transmitted over the network. In the considered model, delay-sensitive data cannot participate or profit in any ways from transmitter or receiver cooperation, but delay-tolerant data can. Cooperation for delay-tolerant data takes place over rate-limited links and is limited to a fixed number of cooperation rounds. For the described setup, inner and outer bounds are derived on the set of MG pairs that are simultaneously achievable for delay-sensitive and delay-tolerant data. The bounds are tight in special cases and allow us to obtain the following conclusions. For large cooperation rates, and when both transmitters and receivers can cooperate, it is possible to simultaneously attain maximum MG for delay-sensitive messages and maximum sum MG for all messages. For comparison, in scheduling schemes (also called time-sharing schemes), the largest achievable sum MG decreases linearly with the MG of delay-sensitive messages. A similar linear decrease is proved for any coding scheme, not only for scheduling schemes, if only transmitters or only receivers can cooperate (but not both) and if delay-sensitive messages have moderate MG. In contrast, if the MG of delay-sensitive messages is small, the maximum sum MG can be achieved even with only transmitter or only receiver cooperation. To summarise, when cooperation rates are high and both transmitters and receivers can cooperate or when delay-sensitive messages have small MG, then transmitting delay-sensitive messages causes no penalty on the sum-MG. In other regimes, this penalty increases proportionally to the delay-tolerant MG in the sense that increasing the delay-sensitive MG by Δ penalises the largest achievable delay-tolerant MG by 2 Δ and thus the sum MG by Δ .
Deep Learning-Enhanced Framework for Performance Evaluation of a Recommending Interface with Varied Recommendation Position and Intensity Based on Eye-Tracking Equipment Data Processing
Authors: Sulikowski Piotr , Zdziebko Tomasz
Published: February 2020

The increasing amount of marketing content in e-commerce websites results in the limited attention of users. For recommender systems, the way recommended items are presented becomes as important as the underlying algorithms for product selection. In order to improve the effectiveness of content presentation, marketing experts experiment with the layout and other visual aspects of website elements to find the most suitable solution. This study investigates those aspects for a recommending interface. We propose a framework for performance evaluation of a recommending interface, which takes into consideration individual user characteristics and goals. At the heart of the proposed solution is a deep neutral network trained to predict the efficiency a particular recommendation presented in a selected position and with a chosen degree of intensity. The proposed Performance Evaluation of a Recommending Interface (PERI) framework can be used to automate an optimal recommending interface adjustment according to the characteristics of the user and their goals. The experimental results from the study are based on research-grade measurement electronics equipment Gazepoint GP3 eye-tracker data, together with synthetic data that were used to perform pre-assessment training of the neural network.
Wireless Epidermal Electromyogram Sensing System
Authors: Lee Sungjun , Yoon Jiyong , Lee Daewoong , Seong Duhwan , Lee Sangkyu , Jang Minsu , Choi Junho , Yu Ki Jun , Kim Jinseok , Lee Sangyoup , Son Donghee
Published: February 2020

Massive efforts to build walking aid platforms for the disabled have been made in line with the needs of the aging society. One of the core technologies that make up these platforms is a realization of the skin-like electronic patch, which is capable of sensing electromyogram (EMG) and delivering feedback information to the soft, lightweight, and wearable exosuits, while maintaining high signal-to-noise ratio reliably in the long term. The main limitations of the conventional EMG sensing platforms include the need to apply foam tape or conductive gel on the surface of the device for adhesion and signal acquisition, and also the bulky size and weight of conventional measuring instruments for EMG, limiting practical use in daily life. Herein, we developed an epidermal EMG electrode integrated with a wireless measuring system. Such the stretchable platform was realized by transfer-printing of the as-prepared EMG electrodes on a SiO2 wafer to a polydimethylsiloxane (PDMS) elastomer substrate. The epidermal EMG patch has skin-like properties owing to its unique mechanical characteristics: i) location on a neutral mechanical plane that enables high flexibility, ii) wavy design that allows for high stretchability. We demonstrated wireless EMG monitoring using our skin-attachable and stretchable EMG patch sensor integrated with the miniaturized wireless system modules.
A Framework for the Synthesis of Optimum Operating Profiles Based on Dynamic Simulation and a Micro Genetic Algorithm
Authors: Rosado-Tamariz Erik , Zuniga-Garcia Miguel A. , Campos-Amezcua Alfonso , Batres Rafael
Published: February 2020

This paper presents an approach to managing the thermal power plant’s flexible operation based on the steam generation process optimization. A strategy at the process level, as a first step in the operational optimization of the entire power plant, is proposed. The proposed approach focuses on minimizing the drum boiler startup time, since it is considered the most critical element in the steam generation process and in the thermal power plant’s efficient operation. An approach that addresses the problem to find the optimal sequences of control valves that minimize the drum boiler startup time as a dynamic optimization problem is proposed. To solve the optimization problem, a dynamic optimization framework based on a micro genetic algorithm (mGA) coupled with a dynamic simulation model is implemented. The dynamic simulation model is validated against data available in the literature, and the proposed optimization algorithm is characterized by the use of variable length chromosomes and the use of small population sizes. The results show that optimized operating profiles minimize the drum boiler startup time by at least 35 percent and generate control valve operating sequences that must be carried out to achieve the desired profile, while the structural integrity constraints are fulfilled at all times.
Properties of Thermally Evaporated Titanium Dioxide as an Electron-Selective Contact for Silicon Solar Cells
Authors: Lee Changhyun , Bae Soohyun , Park HyunJung , Choi Dongjin , Song Hoyoung , Lee Hyunju , Ohshita Yoshio , Kim Donghwan , Kang Yoonmook , Lee Hae-Seok
Published: February 2020

Recently, titanium oxide has been widely investigated as a carrier-selective contact material for silicon solar cells. Herein, titanium oxide films were fabricated via simple deposition methods involving thermal evaporation and oxidation. This study focuses on characterizing an electron-selective passivated contact layer with this oxidized method. Subsequently, the SiO2/TiO2 stack was examined using high-resolution transmission electron microscopy. The phase and chemical composition of the titanium oxide films were analyzed using X-ray diffraction and X-ray photoelectron spectroscopy, respectively. The passivation quality of each layer was confirmed by measuring the carrier lifetime using quasi-steady-state photoconductance, providing an implied open circuit voltage of 644 mV. UV–vis spectroscopy and UV photoelectron spectroscopy analyses demonstrated the band alignment and carrier selectivity of the TiO2 layers. Band offsets of ~0.33 and ~2.6 eV relative to the conduction and valence bands, respectively, were confirmed for titanium oxide and the silicon interface.
Arc Discharge–Induced Ignition of Combustibles Placed on a Damaged AC Power Supply Cord
Authors: Takenaka Kiyoto , Ishikawa Yusuke , Mizuno Yukio , Lin Wenyi
Published: February 2020

One of the major causes of unintentional electrical fires is short circuit of an electrically and/or mechanically damaged alternating power supply cord. Detecting of such an event and interrupting the power supply may be beyond the capability of a conventional electro-mechanical circuit breaker. A lot of research papers have been published related to arc fault of wiring and its detection method. Furthermore, arc fault circuit interrupters have been put into practical use. The objective of the present paper is to understand fault of damaged power supply cord under two selected situations observed in practical use or considered suitable to understand fire ignition. Using two kinds of samples similar to but different from samples prescribed in UL1699 standard, the ignition mechanism of combustibles is discussed based on the results of laboratory experiments. The findings herein underscore the important role of the arc in the ignition of combustibles that are placed on the damaged part of a power supply cord, which is normally followed by a short circuit of broken element conductors or breakage of intact element conductors. Moreover, a possible arc detection feature in the two situations is discussed based on a distorted voltage waveform.
Experimental Measurement of Bulk Thermal Conductivity of Activated Carbon with Adsorbed Natural Gas for ANG Energy Storage Tank Design Application
Authors: Ertas Atila , Boyce Christopher T. R. , Gulbulak Utku
Published: February 2020

The development of adsorptive natural gas storage tanks for vehicles requires the synthesis of many technologies. The design for an effective Adsorbed Natural Gas (ANG) tank requires that the tank be filled isothermally within a five-minute charge time. The heat generated within the activated carbon is on the order of 150 MJ/m 3 of storage volume. The tank can be effectively buffered using Phase Change Material (PCM) to absorb the heat. The effective design of these tanks requires knowledge of the thermal properties of activated carbon with adsorbed methane. This paper discusses experimental measurements of the thermal conductivity of activated carbon with adsorbed methane. It was found that within the tank the thermal conductivity remains almost constant within the temperature and pressure ranges that ANG tanks will operate.
A Spatial Statistic Based Risk Assessment Approach to Prioritize the Pipeline Inspection of the Pipeline Network
Authors: Hou Peng , Yi Xiaojian , Dong Haiping
Published: February 2020

The identification of high risk regions is an important aim of risk-based inspections (RBIs) in pipeline networks. As the most vital part of risk-based inspections, risk assessment makes a significant contribution to achieving this aim. Accurate assessment can target high risk inspected regions so that limited resources can mitigate considerable risks in the face of increased spatial distribution of a pipeline network. However, the existing approaches for risk assessment face grave challenges due to a lack of sufficient data and an assessment’s vulnerability to human biases and errors. This paper attempts to tackle those challenges through spatial statistics, which is used to estimate the uncertainty of risk based on a dataset of locations of pipeline network failure events without having to acquire additional data. The consequence of risk in each inspected region is measured by the total cost caused by the failure events that have occurred in the region, which is also calculated in the assessment. Then, the risks of the different inspected regions are obtained by integrating the uncertainty and consequences. Finally, the feasibility of our approach is validated in a case study. Our results in the case study demonstrate that uncertainty is less instructive for prioritizing pipeline inspections than the consequences of risk due to the low significant difference in risk uncertainty in different regions. Our results also have implications for understanding the correlation between the spatial location and consequences of risk.
Forecasting the Intra-Day Spread Densities of Electricity Prices
Authors: Abramova Ekaterina , Bunn Derek
Published: February 2020

Intra-day price spreads are of interest to electricity traders, storage and electric vehicle operators. This paper formulates dynamic density functions, based upon skewed-t and similar representations, to model and forecast the German electricity price spreads between different hours of the day, as revealed in the day-ahead auctions. The four specifications of the density functions are dynamic and conditional upon exogenous drivers, thereby permitting the location, scale and shape parameters of the densities to respond hourly to such factors as weather and demand forecasts. The best fitting and forecasting specifications for each spread are selected based on the Pinball Loss function, following the closed-form analytical solutions of the cumulative distribution functions.
Effect of RF Power on the Properties of Sputtered-CuS Thin Films for Photovoltaic Applications
Authors: Shin Donghyeok , Lee SangWoon , Kim Dong Ryeol , Park Joo Hyung , Kim Yangdo , Choi Woo-Jin , Son Chang Sik , Son Young Guk , Hwang Donghyun
Published: February 2020

Copper sulfide (CuS) thin films were deposited on a glass substrate at room temperature using the radio-frequency (RF) magnetron-sputtering method at RF powers in the range of 40–100 W, and the structural and optical properties of the CuS thin film were investigated. The CuS thin films fabricated at varying deposition powers all exhibited hexagonal crystalline structures and preferred growth orientation of the (110) plane. Raman spectra revealed a primary sharp and intense peak at the 474 cm−1 frequency, and a relatively wide peak was found at 265 cm−1 frequency. In the CuS thin film deposited at an RF power of 40 W, relatively small dense particles with small void spacing formed a smooth thin-film surface. As the power increased, it was observed that grain size and grain-boundary spacing increased in order. The binding energy peaks of Cu 2p3/2 and Cu 2p1/2 were observed at 932.1 and 952.0 eV, respectively. Regardless of deposition power, the difference in the Cu2+ state binding energies for all the CuS thin films was equivalent at 19.9 eV. We observed the binding energy peaks of S 2p3/2 and S 2p1/2 corresponding to the S2− state at 162.2 and 163.2 eV, respectively. The transmittance and band-gap energy in the visible spectral range showed decreasing trends as deposition power increased. For the CuS/tin sulfide (SnS) absorber-layer-based solar cell (glass/Mo/absorber(CuS/SnS)/cadmium sulfide (CdS)/intrinsic zinc oxide (i-ZnO)/indium tin oxide (ITO)/aluminum (Al)) with a stacked structure of SnS thin films on top of the CuS layer deposited at 100 W RF power, an open-circuit voltage (Voc) of 115 mA, short circuit current density (Jsc) of 9.81 mA/cm2, fill factor (FF) of 35%, and highest power conversion efficiency (PCE) of 0.39% were recorded.
Numerical Study of Lightning Protection of Wind Turbine Blade with De-Icing Electrical Heating System
Authors: Zhao Yang , Wang Xi , Zhou Qibin , Wang Zhenxing , Bian Xiaoyan
Published: February 2020

In order to solve the problem of icing on the surface of wind turbine blade, a heating system that includes a carbon fiber net (CFN) and power cables is proposed recently. When lightning strikes at the blade with a de-icing heating system, the blade and its heating system are more easily damaged due to the overvoltage between the lightning protection system (LPS) of the blade and the heating system. In this paper, the models of a wind turbine blade with the de-icing heating system are established by Alternative Transients Program/Electromagnetic Transients Program (ATP–EMTP) and the accuracy of models is verified through an experiment. With these models, the influence of lightning current, surge protective devices (SPDs) and earthing resistance of wind turbine are analyzed by calculating the voltage between the down-conductor of the LPS and the heating system. The results show that the voltage is positively correlated with lightning current amplitude and negatively correlated with the front time of lightning current. SPDs are quite useful to reduce the voltage, and an optimal installation scheme of SPDs is obtained by simulation. It is noted that voltage decreases slightly with the increasing earthing resistance with the optimal installation scheme of SPDs.
An Experimental Investigation of the Impact of Washcoat Composition on Gasoline Particulate Filter (GPF) Performance
Authors: Wang Junjun , Yan Fuwu , Fang Na , Yan Dong , Zhang Guoqing , Wang Yu , Yang Wulin
Published: February 2020

The forthcoming implementation of the China VI emission regulations, which are currently the most stringent around the world targeted at light-duty gasoline engine vehicles, will not only further restrict the emissions of gaseous pollutants, but also put forward, for the first time, the requirements of particulate number (PN) emissions with a limit set at 6 × 1011#/km. To achieve the stringent emission targets, the ceramic wall-flow gasoline particulate filter (GPF) will be effective to achieve the reduction of the particulate number tailpipe emissions in a way similar to the widely applied diesel particulate filter (DPF) in diesel engines. This paper investigated the effect of a coated gasoline particulate filter (GPF) on the PN emission and engine performance. The effects of two factors, including the washcoat powder material bulk density and type of coating, were studied with regard to three primary performances of GPF, including high three-way catalytic performance, low pressure drop, and high PN filtration efficiency, according to the original equipment manufacturer (OEM) requirements. The outcomes show that the use of high bulk density materials resulted in a low washcoat volume and hence a decrease of flow resistance and backpressure, in addition to high PN filtration efficiency. The type of coating had notable influence on the backpressure and PN filtration efficiency. The coating length and coating amount both had notable influence on the backpressure and PN filtration efficiency.
Impacts of Initial Sugar, Nitrogen and Calcium Carbonate on Butanol Fermentation from Sugarcane Molasses by Clostridium beijerinckii
Authors: Narueworanon Patthranit , Laopaiboon Lakkana , Phukoetphim Niphaphat , Laopaiboon Pattana
Published: February 2020

Low-cost nitrogen sources, i.e., dried spent yeast (DSY), rice bran (RB), soybean meal (SM), urea and ammonium sulfate were used for batch butanol fermentation from sugarcane molasses by Clostridium beijerinckii TISTR 1461 under anaerobic conditions. Among these five low-cost nitrogen sources, DSY at 1.53 g/L (nitrogen content equal to that of 1 g/L of yeast extract) was found to be the most suitable. At an initial sugar level of 60 g/L, the maximum butanol concentration (PB), productivity (QB) and yield (YB/S) were 11.19 g/L, 0.23 g/L·h and 0.31 g/g, respectively. To improve the butanol production, the concentrations of initial sugar, DSY and calcium carbonate were varied using response surface methodology (RSM) based on Box–Behnken design. It was found that the optimal conditions for high butanol production were initial sugar, 50 g/L; DSY, 6 g/L and calcium carbonate, 6.6 g/L. Under these conditions, the highest experimental PB, QB and YB/S values were 11.38 g/L, 0.32 g/L·h and 0.40 g/g, respectively with 50% sugar consumption (SC). The PB with neither DSY nor CaCO3 was only 8.53 g/L. When an in situ gas stripping system was connected to the fermenter to remove butanol produced during the fermentation, the PB was increased to 15.33 g/L, whereas the YB/S (0.39 g/g) was not changed. However, the QB was decreased to 0.21 g/L·h with 75% SC.
Robust Economic Model Predictive Control Based on a Zonotope and Local Feedback Controller for Energy Dispatch in Smart-Grids Considering Demand Uncertainty
Authors: Nassourou Mohamadou , Blesa Joaquim , Puig Vicenç
Published: February 2020

Electrical smart grids are complex MIMO systems whose operation can be noticeably affected by the presence of uncertainties such as load demand uncertainty. In this paper, based on a restricted representation of the demand uncertainty, we propose a robust economic model predictive control method that guarantees an optimal energy dispatch in a smart micro-grid. Load demands are uncertain, but viewed as bounded. The proposed method first decomposes control inputs into dependent and independent components, and then tackles the effect of demand uncertainty by tightening the system constraints as the uncertainty propagates along the prediction horizon using interval arithmetic and local state feedback control law. The tightened constraints’ upper and lower limits are computed off-line. The proposed method guarantees stability through a periodic terminal state constraint. The method is faster and simpler compared to other approaches based on Closed-loop min–max techniques. The applicability of the proposed approach is demonstrated using a smart micro-grid that comprises a wind generator, some photovoltaic (PV) panels, a diesel generator, a hydroelectric generator and some storage devices linked via two DC-buses, from which load demands can be adequately satisfied.
Efficient Fingerprinting of the Tetraploid Salix psammophila Using SSR Markers
Authors: Hao Lei , Zhai Yongguang , Zhang Guosheng , Lu Dongye , Huang Haiguang
Published: February 2020

Salix psammophila C. Wang et Ch. Y. Yang is an important desert shrub that is mainly distributed in northwest China, including the Mu Us sandland and Kubuqi desert. It plays a crucial role in vegetation rehabilitation and as a forestation plant. The traditional identification of its accessions based on phenotypic traits is usually unreliable. SSR (Simple Sequence Repeat) has the advantages of repeatability and codominant inheritance, and most species have had specific SSR primers developed for them already. Currently, there is no simple and rapid method used for identifying the tetraploid Salix psammophila with SSR markers. In this study, we construct fingerprints among 261 accessions of S. psammophila by screening of marker combinations. We identified a nine-marker combination which could completely distinguish each of the 261 accessions to their unique fingerprinting profiles. For this marker combination (G+I+J+N+O+Q+S+T+U), identification rate of combined markers (MC2) and total Polymorphism Information Content (PIC) were the highest, at 100% and 6.05, respectively. We used fingerprinting profiles with the nine-marker combination to produce two-dimensional barcodes, which could be screened rapidly and conveniently using a barcode scanned by a computer. The results of this study can provide an efficient genetic toolkit for identification, traceability management and protection of intellectual property rights of particular accessions of tetraploid S. psammophila.
Ethnobotanical Survey of Wild Edible Fruit Tree Species in Lowland Areas of Ethiopia
Authors: Dejene Tatek , Agamy Mohamed Samy , Agúndez Dolores , Martín-Pinto Pablo
Published: February 2020

This study aimed to provide baseline information about wild edible tree species (WETs) through surveying of different ethnic groups in dryland areas in Ethiopia. Here the data about WETs are scant, and WETs status is unexplained under the rampant habitat degradation. Use forms, plant parts used, status, ethnobotanical knowledge, conservation needs as well as those threats affecting WETs were reviewed. The study identified 88 indigenous wild edible plants, of which 52 species were WETs. In most cases, fruits were found as the dominant use part, and they were used as raw but were occasionally cooked and preserved. Roots and bark uses are also reported from Ximenia americana and Racosperma melanoxylon respectively. June, July and August were critical periods observed for food shortage in most of the regions. However, in the Gambella region, food shortages occurred in most months of the year. The respondents in this region suggested that WETs could potentially provide them with enough food to make up for the shortage of food from conventional agricultural crops. From the respondents’ perception, Opuntia ficus-indica, Carissa edulis and Ficus vasta were among the most difficult to locate species, and they also received the highest conservation attention. Because of the variety of WETs and existing different threats, a management strategy is required for future conservation, as WETs are vital for the livelihood of local communities and are also necessary to devise a food security strategy for Ethiopia. The lesson obtained could also be useful in other dryland parts in developing countries with similar contexts.
Whole Genome Sequencing Indicates Heterogeneity of Hyperostotic Disorders in Dogs
Authors: Letko Anna , Leuthard Fabienne , Jagannathan Vidhya , Corlazzoli Daniele , Matiasek Kaspar , Schweizer Daniela , Hytönen Marjo K. , Lohi Hannes , Leeb Tosso , Drögemüller Cord
Published: February 2020

Craniomandibular osteopathy (CMO) and calvarial hyperostotic syndrome (CHS) are proliferative, non-neoplastic disorders affecting the skull bones in young dogs. Different forms of these hyperostotic disorders have been described in many dog breeds. However, an incompletely dominant causative variant for CMO affecting splicing of SLC37A2 has been reported so far only in three Terrier breeds. The purpose of this study was to identify further possible causative genetic variants associated with CHS in an American Staffordshire Terrier, as well as CMO in seven affected dogs of different breeds. We investigated their whole-genome sequences (WGS) and filtered variants using 584 unrelated genomes, which revealed no variants shared across all affected dogs. However, filtering for private variants of each case separately yielded plausible dominantly inherited candidate variants in three of the eight cases. In an Australian Terrier, a heterozygous missense variant in the COL1A1 gene (c.1786G>A; p.(Val596Ile)) was discovered. A pathogenic missense variant in COL1A1 was previously reported in humans with infantile cortical hyperostosis, or Caffey disease, resembling canine CMO. Furthermore, in a Basset Hound, a heterozygous most likely pathogenic splice site variant was found in SLC37A2 (c.1446+1G>A), predicted to lead to exon skipping as shown before in SLC37A2-associated canine CMO of Terriers. Lastly, in a Weimaraner, a heterozygous frameshift variant in SLC35D1 (c.1021_1024delTCAG; p.(Ser341ArgfsTer22)) might cause CMO due to the critical role of SLC35D1 in chondrogenesis and skeletal development. Our study indicates allelic and locus heterogeneity for canine CMO and illustrates the current possibilities and limitations of WGS-based precision medicine in dogs.
A Fast and Scalable Workflow for SNPs Detection in Genome Sequences Using Hadoop Map-Reduce
Authors: Tahir Muhammad , Sardaraz Muhammad
Published: February 2020

Next generation sequencing (NGS) technologies produce a huge amount of biological data, which poses various issues such as requirements of high processing time and large memory. This research focuses on the detection of single nucleotide polymorphism (SNP) in genome sequences. Currently, SNPs detection algorithms face several issues, e.g., computational overhead cost, accuracy, and memory requirements. In this research, we propose a fast and scalable workflow that integrates Bowtie aligner with Hadoop based Heap SNP caller to improve the SNPs detection in genome sequences. The proposed workflow is validated through benchmark datasets obtained from publicly available web-portals, e.g., NCBI and DDBJ DRA. Extensive experiments have been performed and the results obtained are compared with Bowtie and BWA aligner in the alignment phase, while compared with GATK, FaSD, SparkGA, Halvade, and Heap in SNP calling phase. Experimental results analysis shows that the proposed workflow outperforms existing frameworks e.g., GATK, FaSD, Heap integrated with BWA and Bowtie aligners, SparkGA, and Halvade. The proposed framework achieved 22.46% more efficient F-score and 99.80% consistent accuracy on average. More, comparatively 0.21% mean higher accuracy is achieved. Moreover, SNP mining has also been performed to identify specific regions in genome sequences. All the frameworks are implemented with the default configuration of memory management. The observations show that all workflows have approximately same memory requirement. In the future, it is intended to graphically show the mined SNPs for user-friendly interaction, analyze and optimize the memory requirements as well.
Testing Differential Gene Networks under Nonparanormal Graphical Models with False Discovery Rate Control
Authors: Zhang Qingyang
Published: February 2020

The nonparanormal graphical model has emerged as an important tool for modeling dependency structure between variables because it is flexible to non-Gaussian data while maintaining the good interpretability and computational convenience of Gaussian graphical models. In this paper, we consider the problem of detecting differential substructure between two nonparanormal graphical models with false discovery rate control. We construct a new statistic based on a truncated estimator of the unknown transformation functions, together with a bias-corrected sample covariance. Furthermore, we show that the new test statistic converges to the same distribution as its oracle counterpart does. Both synthetic data and real cancer genomic data are used to illustrate the promise of the new method. Our proposed testing framework is simple and scalable, facilitating its applications to large-scale data. The computational pipeline has been implemented in the R package DNetFinder, which is freely available through the Comprehensive R Archive Network.
Preface of Special Issue "Molecular Therapies for Inherited Retinal Diseases"
Authors: Collin Rob  W.J. , Garanto Alejandro
Published: February 2020

Inherited retinal diseases (IRDs) are a group of progressive disorders that lead to severe visual impairment or even complete blindness [...]
Occupational Factors Associated with Health-Related Quality of Life in Nursing Professionals: A Multi-Centre Study
Authors: Ruiz-Fernández María Dolores , Ortega-Galán Ángela María , Fernández-Sola Cayetano , Hernández-Padilla José Manuel , Granero-Molina José , Ramos-Pichardo Juan Diego
Published: February 2020

Background: Nursing professionals are exposed to stressful situations arising from the work context that may affect health-related quality of life (HRQoL). The objective of this study was to analyse the relationship between sociodemographic and work-related variables regarding HRQoL in nursing professionals. Methods: A multi-centre, cross-sectional descriptive design was used. The participants consisted 1521 nurses working in healthcare centres, in both primary care and hospital care, in the eight provinces of the Andalusian Public Health System (APHS), Spain. Sociodemographic and work-related variables were analysed: Compassion fatigue, compassion satisfaction and burnout were measured using the professional quality of life questionnaire (ProQOL), and HRQoL was measured using the SF-12 health questionnaire. Results: Compassion fatigue, burnou, and, to a lesser extent, compassion satisfaction significantly influence the physical and mental components of HRQoL. The simple regression analysis showed that burnout and compassion fatigue were significantly associated with the mental component of HRQoL. Gender influenced the mental component of HRQoL. The rest of the sociodemographic and work-related variables were not significantly related to HRQoL. Conclusion: Work-related stress and repeated contact with situations of suffering influence HRQoL. Health systems must implement programmes to increase the emotional well-being of workers.
Assessing the Effects of Desertification Control Projects from the Farmers’ Perspective: A Case Study of Yanchi County, Northern China
Authors: Wei Xuan , Zhou Lihua , Yang Guojing , Wang Ya , Chen Yong
Published: February 2020

Desertification has inflicted severe damage on the natural environment and social economy for decades, particularly in the arid and semi-arid regions of northern China. In Yanchi County, a series of projects were implemented to combat desertification after 2000. To assess the effects of these Desertification Control Projects from the farmers’ perspective, we divided Yanchi County into two regions (the northern and southern regions) according to their different environmental conditions. We collected data including basic family information, farmers’ perceptions and attitudes, and farmers’ suggestions, in a questionnaire investigation following the Participatory Rural Appraisal approach. Data analysis using the Mann–Whitney U test and Fisher’s exact test revealed that the Desertification Control Projects were generally successful, as the local environment and farmers’ incomes were both improved. Farmers were all satisfied with the effects of the projects, but the farmers in the southern region had a higher acceptance of the projects than those in the northern region. In addition, three problems with the Desertification Control Projects were noted: the farmers had a low degree of participation in the projects, the farmer’s low incomes affected the sustainability of the projects, and the implementation of the complete grazing ban had several adverse effects. We provided suggestions for solving these problems. Our findings have important implications for assessing the effects of environmental conservation projects, especially from a participant’s perspective.
The Intercontinental Terminals Chemical Fire Study: A Rapid Response to an Industrial Disaster to Address Resident Concerns in Deer Park, Texas
Authors: An Han Heyreoun , Han Inkyu , McCurdy Sheryl , Whitworth Kristina , Delclos George , Rammah Amal , Symanski Elaine
Published: February 2020

On Sunday, 17 March 2019, a fire erupted at the Intercontinental Terminals Company (ITC, Deer Park, La Porte, TX, USA), resulting in a large fire that blazed for several days. In response, we rapidly launched disaster response activities to monitor air pollutants (total volatile organic compounds (TVOCs), fine particulate matter (PM2.5), black carbon (BC), and ultra-fine particles (UFPs) during the fire in two affected communities. To assess immediate health effects and residential air quality, we also rapidly launched a pilot study, the Deer Park Chemical Fire (DeeP Fire) Study, in which we administered health surveys and installed samplers to monitor air quality outdoors of resident homes for up to six weeks. In both communities, mean ambient concentrations of PM2.5, BC and TVOCs were higher during the first week of the fire than a week after it was extinguished. Thirteen residents participated in the DeeP Fire Study. Most residents reported experiencing respiratory symptoms and some reported being bothered by at least one post-traumatic stress disorder symptom during the fire and two weeks afterwards. In the months following the fire, the 7-day mean ambient concentration of benzene from 12 homes was 0.13 ± 0.10 parts per billion (ppb) and the 6-week mean ambient concentrations of PM2.5 and TVOCs were 13 ± 6 µg/m3 and 108 ± 98 ppb, respectively. All residents requested and received individualized air monitoring reports. Surveillance systems that enable real-time monitoring of the environmental health impact during a major industrial incident are needed to provide timely information to adequately respond to a disaster in the future.
Setting Priorities to Inform Assessment of Care Homes’ Readiness to Participate in Healthcare Innovation: A Systematic Mapping Review and Consensus Process
Authors: Bunn Frances , Goodman Claire , Corazzini Kirsten , Sharpe Rachel , Handley Melanie , Lynch Jennifer , Meyer Julienne , Dening Tom , Gordon Adam L
Published: February 2020

Organisational context is known to impact on the successful implementation of healthcare initiatives in care homes. We undertook a systematic mapping review to examine whether researchers have considered organisational context when planning, conducting, and reporting the implementation of healthcare innovations in care homes. Review data were mapped against the Alberta Context Tool, which was designed to assess organizational context in care homes. The review included 56 papers. No studies involved a systematic assessment of organisational context prior to implementation, but many provided post hoc explanations of how organisational context affected the success or otherwise of the innovation. Factors identified to explain a lack of success included poor senior staff engagement, non-alignment with care home culture, limited staff capacity to engage, and low levels of participation from health professionals such as general practitioners (GPs). Thirty-five stakeholders participated in workshops to discuss findings and develop questions for assessing care home readiness to participate in innovations. Ten questions were developed to initiate conversations between innovators and care home staff to support research and implementation. This framework can help researchers initiate discussions about health-related innovation. This will begin to address the gap between implementation theory and practice.
Association between Generalized Anxiety Disorder and Premenstrual Dysphoric Disorder in a Diagnostic Interviewing Study
Authors: Yen Ju-Yu , Lin Pai-Cheng , Huang Mei-Feng , Chou Wei-Po , Long Cheng-Yu , Ko Chih-Hung
Published: February 2020

Background: Premenstrual dysphoric disorder (PMDD) demonstrates predictable, cyclic, affective and somatic symptoms that are aggravated in the late luteal phase and are resolved by menstruation. Generalized anxiety disorder (GAD) is characterized by excessive and persistant worry. The present study aims to evaluate the association between PMDD and GAD. The fluctuations of behavior inhibition, anxiety, depression, and irritability were also evaluated during the menstrual cycle among women with PMDD and healthy women. Methods: There were 100 women diagnosed with PMDD based on a psychiatric interview and on a prospective evaluation in three menstrual cycles. A total of 96 healthy women were recruited as controls. Each individual’s GAD diagnosis, behavior inhibition, behavior activation, depression, anxiety, and irritability were assessed in both luteal and follicular phases. Results: The odds ratio of women with GAD having PMDD was 7.65 (95% CI: 1.69–34.63) in relation to those without it. This association was partially mediated by behavior inhibition and irritability and was completely mediated by depression. Women with PMDD and GAD had higher anxiety during the luteal phase and higher PMDD severity, depression, and irritability than those without GAD in the follicular phase. There is no difference in anxiety, depression, or irritability between the luteal and follicular phases among women with PMDD and GAD. Conclusions: Women with GAD were more likely to have PMDD. Anxiety, depression, and irritability symptoms in women with PMDD and GAD were not relieved in the follicular phase. Thus, GAD should be assessed for women with PMDD. Their anxiety, depression, and irritability should be intervened not only in the luteal phase, but also in the follicular phase. Depression, irritability and behavior inhibition mediated the association between PMDD and GAD. Intervening with these mediators to attenuate GAD and PMDD comorbidity should be researched in the future.