bluuebunny/crossref_metadata_2025_split huggingface dataset:
Potential Materials for Enhanced Oil Production from Northern oilfield, Thailand
Authors: Maneeintr K , Jiravivitpanya J , Meekoch T , Boonpramote T 
Published: June 2020

Abstract
One of enhanced oil recovery techniques to produce more oil production is surfactant flooding. The surfactants are considered as the effective chemicals used in oilfield in Thailand. It is used to lower the interfacial tension (IFT) of two fluids and to increase mobility in the reservoir. For this study, various chemicals such as amine, fatty alcohol and glycerine are applied as the surfactants to reduce IFT between oil and water. Therefore, the aim of this work is to investigate the potential chemicals and measure the IFT reduction based on the conditions of subsurface at the oilfield in Thailand. These parameters such as temperature, pressure as well as the concentration of surfactant are adjusted to investigate the effects on IFT reduction. From the results, it is reported that pressure from 1, 000 to 2, 000 psi and temperature varied from 70 °C to 90 °C can reduce IFT insignificantly. However, types of chemicals and surfactant concentration are the main parameters that impact on the IFT reduction. Monoethanolamine at 4.0 wt. % can greatly decrease IFT up to 87 % for surfactant concentration. Finally, the results can be applied to use in the real field for enhanced oil production in Thailand.
An Experimental Study on the Technique Optimization in Localization Process of 4J36 Invar Alloy-A Micro-Electrochemical Machining Perspective
Authors: Bian Jianxiao , Ma Baoji , Hu Yanwei , Jing Zhichen , Liu Xin 
Published: June 2020

Abstract
This study introduces electrochemical processing into the processing of 4J36 Invar alloy to obtain higher processing accuracy. An experimental study based on central composite design (CCD) was carried out to analyze the effects of voltage, duty cycle, feed rate, and inter-electrode gap on the localization of Invar processing. The response surface method is used to establish a mathematical model between process parameters and processing locality. The model shows that the minimum Side Gap is 158.7μm, and the prediction results are verified by experiments. The prediction error of the mathematical model is 1.44%, which means that the proposed optimal mathematical model can solve the optimal processing parameters of 4J36 Invar alloy.It has a positive significance for the wide application of Invar.
Early Warning of Position Accuracy for Pin Hole using Rules and Model based on LSSVM and PSO during Tractor Manufacturing Process
Authors: Jiang Chao , Li Ying , Zhao Zhilin , Cheng Fang 
Published: June 2020

Abstract
The factors affecting the processing quality of pin hole on the end face of tractor gearbox were analyzed. The main influencing factors on position accuracy of hole group include ambient temperature, the number of workpieces processed by drilling cutter and so on during precision manufacturing. The early warning rules of processing quality during tractor manufacturing process were proposed based on single-factor analysis and double-factors analysis. Then an early warning model for position accuracy of pin hole was established based on LSSVM while PSO was used to optimize the unknown parameters. The experimental results show that the RMSE of the model is 0.0058 and the RE is 0.075%, which verifies the validity of the established processing quality early warning model.
Job Shop Layout Improvement with Simulation Technique: A Case of Metal Sheet Production
Authors: Laosiritaworn Wimalin , Pinchai Nuchjira , Jarupuncharadsri Panitan 
Published: June 2020

Abstract
This paper investigates the improvement of job shop layout with simulation technique. A case study of Siam GN metal sheet, the manufacturer of customized metal sheet products was used. The objective is to increase production efficiency and reduce materials handling distance and time. Data regarding product and machine type were collected. CORELAP (Computerized Relationship Layout Planning) and Group technology based on ROC (rank order clustering) algorithm were applied to design the improved layouts. ARENA software was used to simulate the new layout from both techniques. The simulation show that CORELAP layout reduce production time by 17.12% while group technology layout reduces materials handling time by 11.41%. CORELAP layout therefore, was chosen for implementation. Simulation techniques allows user to experiment with different scenario hence selecting the most appropriate one without interfering with the actual process.
Fog-based Logistic Application Modeling in an Industry 4.0 Framework
Authors: BOUZARKOUNA Imen , SAHNOUN M’hammed , BAUDRY David , Amine BENATIA Mohamed , GOUT Christian 
Published: June 2020

Abstract
The industrial growth introduced the Industry 4.0 revolution, which uses several IoT-based technologies to manage the huge amount of data generated by its connected systems. This revolution aims to exchange data between the different parts and improve the performance of the manufacturing process. Facing several limitations, this paradigm needs the Fog Computing to ameliorate the Cloud services and the distribution of real-time decision-making and the secure and interoperable data analysis. The internal logistics presents the need to transmit and treat the data in real-time to take a more efficient decisions in a shorter delay. The Fog-based architecture is composed of terminal devices, Edge, Fog and Gateway devices. A model is presented to optimize the Fog integration (The cost of the links and nodes). Experimental results of an exact method optimization using Fico Xpress show a reduction of the Fog Computing integration cost in an internal logistic center.
Understanding the impact of gamma irradiation of epoxy titania nanocomposites on surface and bulk charge characteristics
Authors: Naveen J , Sarathi R , Imai T 
Published: June 2020

Abstract
Epoxy titania nanocomposites were prepared under optimum process conditions through shear mixing of titania nanoparticles in to epoxy resin, for its potential application as insulant in nuclear power plants and space applications. The complex intrinsic nature of properties, its characteristic variation due to ageing of nanocomposite insulating material upon its continuous exposure to gamma irradiation, and their charge trap and space charge characteristics are explored. Surface potential variation studies were carried out under DC voltage. In the present study, the charge trap performance was assessed under switching impulse voltage. It is observed that surface potential decay and shallow trap formation are high with gamma irradiated specimen. In addition, the potential decay is high under switching impulse voltage compared to DC voltage. Also, the trap depth formed is less under switching impulse voltage compared to DC voltage and it is high under negative DC voltage. The space charge analysis through Pulsed electro acoustic (PEA) studies has shown increase in accumulation of space charge and enhancement of electric field with increase in dosage of gamma-irradiation. Polarity reversal tests have revealed that the electric field enhancement is high before reversal of polarity, irrespective of level of gamma irradiation dosage. The direct correlation between characteristic variation in trap depth values with the gamma irradiated specimen and its contact angle was observed.
Review of Current Advances in Serologic Testing for COVID-19
Authors: Espejo Andrea P , Akgun Yamac , Al Mana Abdulaziz F , Tjendra Youley , Millan Nicolas C , Gomez-Fernandez Carmen , Cray Carolyn 
Published: June 2020

Abstract

Objectives
To examine and summarize the current literature on serologic methods for the detection of antibodies to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2).

Methods
A literature review was performed using searches in databases including PubMed, medRxiv, and bioRxiv. Thirty-two peer-reviewed papers and 23 preprints were examined.

Results
The studies included lateral flow immunoassay, enzyme-linked immunosorbent assay, chemiluminescence immunoassay, and neutralizing antibody assays. The use of all major SARS-CoV-2 antigens was demonstrated to have diagnostic value. Assays measuring total antibody reactivity had the highest sensitivity. In addition, all the methods provided opportunities to characterize the humoral immune response by isotype. The combined use of IgM and IgG detection resulted in a higher sensitivity than that observed when detecting either isotype alone. Although IgA was rarely studied, it was also demonstrated to be a sensitive marker of infection, and levels correlated with disease severity and neutralizing activity.

Conclusions
The use of serologic testing, in conjunction with reverse transcription polymerase chain reaction testing, was demonstrated to significantly increase the sensitivity of detection of patients infected with SARS-CoV-2. There was conflicting evidence regarding whether antibody titers correlated with clinical severity. However, preliminary investigations indicated some immunoassays may be a surrogate for the prediction of neutralizing antibody titers and the selection of recovered patients for convalescent serum donation.
Benchmarking variant callers in next-generation and third-generation sequencing analysis
Authors: Pei Surui , Liu Tao , Ren Xue , Li Weizhong , Chen Chongjian , Xie Zhi 
Published: June 2020

AbstractDNA variants represent an important source of genetic variations among individuals. Next- generation sequencing (NGS) is the most popular technology for genome-wide variant calling. Third-generation sequencing (TGS) has also recently been used in genetic studies. Although many variant callers are available, no single caller can call both types of variants on NGS or TGS data with high sensitivity and specificity. In this study, we systematically evaluated 11 variant callers on 12 NGS and TGS datasets. For germline variant calling, we tested DNAseq and DNAscope modes from Sentieon, HaplotypeCaller mode from GATK and WGS mode from DeepVariant. All the four callers had comparable performance on NGS data and 30× coverage of WGS data was recommended. For germline variant calling on TGS data, we tested DNAseq mode from Sentieon, HaplotypeCaller mode from GATK and PACBIO mode from DeepVariant. All the three callers had similar performance in SNP calling, while DeepVariant outperformed the others in InDel calling. TGS detected more variants than NGS, particularly in complex and repetitive regions. For somatic variant calling on NGS, we tested TNscope and TNseq modes from Sentieon, MuTect2 mode from GATK, NeuSomatic, VarScan2, and Strelka2. TNscope and Mutect2 outperformed the other callers. A higher proportion of tumor sample purity (from 10 to 20%) significantly increased the recall value of calling. Finally, computational costs of the callers were compared and Sentieon required the least computational cost. These results suggest that careful selection of a tool and parameters is needed for accurate SNP or InDel calling under different scenarios.
HaDeX: an R package and web-server for analysis of data from hydrogen–deuterium exchange mass spectrometry experiments
Authors: Puchała Weronika , Burdukiewicz Michał , Kistowski Michał , Dąbrowska Katarzyna A , Badaczewska-Dawid Aleksandra E , Cysewski Dominik , Dadlez Michał 
Published: June 2020

Abstract

Motivation
Hydrogen–deuterium mass spectrometry (HDX-MS) is a rapidly developing technique for monitoring dynamics and interactions of proteins. The development of new devices has to be followed with new software suites addressing emerging standards in data analysis.

Results
We propose HaDeX, a novel tool for processing, analysis and visualization of HDX-MS experiments. HaDeX supports a reproducible analytical process, including data exploration, quality control and generation of publication-quality figures.

Availability and implementation
HaDeX is available primarily as a web-server (http://mslab-ibb.pl/shiny/HaDeX/), but its all functionalities are also accessible as the R package (https://CRAN.R-project.org/package=HaDeX) and standalone software (https://sourceforge.net/projects/HaDeX/).

Supplementary information
Supplementary data are available at Bioinformatics online.
HAPPI GWAS: Holistic Analysis with Pre- and Post-Integration GWAS
Authors: Slaten Marianne L , Chan Yen On , Shrestha Vivek , Lipka Alexander E , Angelovici Ruthie 
Published: June 2020

AbstractMotivationAdvanced publicly available sequencing data from large populations have enabled informative genome-wide association studies (GWAS) that associate SNPs with phenotypic traits of interest. Many publicly available tools able to perform GWAS have been developed in response to increased demand. However, these tools lack a comprehensive pipeline that includes both pre-GWAS analysis, such as outlier removal, data transformation and calculation of Best Linear Unbiased Predictions or Best Linear Unbiased Estimates. In addition, post-GWAS analysis, such as haploblock analysis and candidate gene identification, is lacking.ResultsHere, we present Holistic Analysis with Pre- and Post-Integration (HAPPI) GWAS, an open-source GWAS tool able to perform pre-GWAS, GWAS and post-GWAS analysis in an automated pipeline using the command-line interface.Availability and implementationHAPPI GWAS is written in R for any Unix-like operating systems and is available on GitHub (https://github.com/Angelovici-Lab/HAPPI.GWAS.git).Supplementary informationSupplementary data are available at Bioinformatics online.
The postcoital test in the development of new vaginal contraceptives†
Authors: Mauck Christine K , Vincent Kathleen L 
Published: June 2020

AbstractPostcoital tests (PCTs) have been used for over a century in the clinical evaluation of infertile couples, and for nearly 70 years in the evaluation of new vaginal contraceptive products. PCTs have been largely replaced by more modern methods in the study of infertility, but they remain the most useful way to obtain preliminary data on the effectiveness of vaginal contraceptive products. The World Health Organization has described important aspects of the procedure. It involves collection of cervical mucus at a certain time point after intercourse and the counting and characterization of sperm found in the mucus. A wide range of progressively motile sperm (PMS) has been associated with pregnancy rates in infertility studies. Eligibility for contraceptive trials includes the requirement that couples achieve a certain threshold number of PMS per high power field at midcycle in a baseline cycle without the test product. The primary endpoint, or definition of a satisfactory result in test cycles, is predefined. A literature review identified 10 PCT studies of vaginal contraceptives involving nine test products. Phase II trials of vaginal contraceptives have not been deemed feasible in the development of any vaginal contraceptive to date. A PCT study of a test product can be predictive of contraceptive efficacy, although ultimate contraceptive effectiveness is influenced by the ease of use of the product, along with patient compliance. PCT results similar to results seen with products that later showed satisfactory performance in efficacy trials is the best indicator of likely success of a test product.
High-fat-diet induced obesity increases the proportion of linoleic acyl residues in dam serum and milk and in suckling neonate circulation
Authors: Suarez-Trujillo Aridany , Huff Katelyn , Ramires Ferreira Christina , Paschoal Sobreira Tiago Jose , Buhman Kimberly K , Casey Theresa 
Published: June 2020

AbstractMaternal obesity increases the risk of offspring to become obese and develop related pathologies. Exposure to maternal high-fat diet (HFD) only during lactation increases the risk of obesity-related diseases, suggesting that factors in milk affect long-term health. We hypothesized that prepregnancy obesity induced by HFD alters milk lipidome, and in turn, alterations may affect neonate serum lipidome. The objective of this study was to determine the effect of prepregnancy obesity induced by HFD on circulating lipids in dams and neonates and in milk. Female mice were fed an HFD (60% kcal fat) or control diet (CON, 10% kcal fat) beginning 4 weeks before breeding. On postnatal day 2 (PND2), pups were cross-fostered to create pup groups exposed to HFD during pregnancy, lactation, or both or exposed to CON. On PND12, dams were milked and then euthanized along with pups to collect blood. Serum and milk were processed for multiple reaction monitoring (MRM) lipidomics profiling to quantify the relative expression of lipid classes. Lipidome of HFD dam serum and milk had increased proportion of C18:2 free fatty acid and fatty acyl residues in all lipid classes. Lipidome of serum from pups exposed to maternal HFD during lactation was similarly affected. Thus, maternal HFD induced redistribution of fatty acyl residues in the dam’s circulation, which was associated with modification in milk and suckling neonate’s lipidome. Further studies are needed to determine if increased circulating levels of C18:2 in neonate affects development and predisposes offspring to obesity and metabolic syndrome.
Nesfatin-1-like peptide suppresses hypothalamo–pituitary–gonadal mRNAs, gonadal steroidogenesis, and oocyte maturation in fish†
Authors: Rajeswari Jithine Jayakumar , Hatef Azadeh , Unniappan Suraj 
Published: June 2020

AbstractNucleobindin (Nucb)-1 and Nucb2 are DNA and Ca2+ binding proteins with multiple functions in vertebrates. Prohormone convertase-mediated processing of Nucb2 results in the production of biologically active nesfatin-1. Nesfatin-1 is involved in the regulation of reproduction in many vertebrates, including fish. Our lab originally reported a nesfatin-1-like peptide (Nlp) encoded in Nucb1 that exhibits nesfatin-1-like metabolic effects. We hypothesized that Nlp has a suppressive role in the reproductive physiology of fish. In this research, whether Nlp regulates reproductive hormones and oocyte maturation in fish were determined. Single intraperitoneal (IP) injection of goldfish Nlp (50 ng/g body weight) suppressed salmon and chicken gonadotropin-releasing hormone (sgnrh and cgnrh2), gonadotropin-inhibiting hormone (gnih) and its receptor (gnihr), and kisspeptin and brain aromatase mRNA expression in the hypothalamus of both male and female goldfish. In the pituitary, Nlp decreased mRNAs encoding lhb, fshb and kisspeptin and its receptor, while a significant increase in gnih and gnihr was observed. In the gonads, lh (only in male fish) and fsh receptor mRNAs were also significantly downregulated in Nlp-injected fish. Sex-specific modulation of gnih, gnihr, and kisspeptin system in the gonads was also observed. Nlp decreased sex steroidogenic enzyme encoding mRNAs and circulating levels of testosterone and estradiol. In addition, incubation of zebrafish ovarian follicles with Nlp resulted in a reduction in oocyte maturation. These results provide evidence for a robust role for Nlp in regulating reproductive hormones in goldfish and oocyte maturation in zebrafish, and these effects resemble that of nesfatin-1.
Left ventricular mechanical dispersion in ischaemic cardiomyopathy: association with myocardial scar burden and prognostic implications
Authors: Abou Rachid , Prihadi Edgard A , Goedemans Laurien , van der Geest Rob , El Mahdiui Mohammed , Schalij Martin J , Ajmone Marsan Nina , Bax Jeroen J , Delgado Victoria 
Published: June 2020

Abstract

Aims
Left ventricular (LV) mechanical dispersion (MD) may result from heterogeneous electrical conduction and is associated with adverse events. The present study investigated (i) the association between LV MD and the extent of LV scar as assessed with contrast-enhanced cardiac magnetic resonance (CMR) and (ii) the prognostic implications of LV MD in patients after ST-segment elevation myocardial infarction.

Methods and results
LV MD was calculated by echocardiography and myocardial scar was analysed on CMR data retrospectively. Infarct core and border zone were defined as ≥50% and 35–50% of maximal signal intensity, respectively. Patients were followed for the occurrence of the combined endpoint (all-cause mortality and appropriate implantable cardioverter-defibrillator therapy). In total, 96 patients (87% male, 57 ± 10 years) were included. Median LV MD was 53.5 ms [interquartile range (IQR) 43.4–62.8]. On CMR, total scar burden was 11.4% (IQR 3.8–17.1%), infarct core tissue 6.2% (IQR 2.0–12.7%), and border zone was 3.5% (IQR 1.5–5.7%). Correlations were observed between LV MD and infarct core (r = 0.517, P &lt; 0.001), total scar burden (r = 0.497, P &lt; 0.001), and border zone (r = 0.298, P = 0.003). In total, 14 patients (15%) reached the combined endpoint. Patients with LV MD &gt;53.5 ms showed higher event rates as compared to their counterparts. Finally, LV MD showed the highest area under the curve for the prediction of the combined endpoint.

Conclusion
LV MD is correlated with LV scar burden. In addition, patients with prolonged LV MD showed higher event rates. Finally, LV MD provided the highest predictive value for the combined endpoint when compared with other parameters.
Evaluating Restoration Treatment Effectiveness through a Comparison of Residual Composition, Structure, and Spatial Pattern with Historical Reference Sites
Authors: LeFevre Miles E , Churchill Derek J , Larson Andrew J , Jeronimo Sean M A , Bass Jamie , Franklin Jerry F , Kane Van R 
Published: June 2020

AbstractForest-restoration efforts are increasing in the western United States in response to realized and expected changes in climate and disturbance regimes. Managers are challenged to find practical and defensible targets to shift forest composition, structure, and spatial pattern to a more resistant and resilient state. The Northeast Washington Forest Vision 2020 project on the Colville National Forest presented an opportunity to map and use previously uncaptured mesic stand-level historical reference conditions to a large restoration project. We reconstructed historical forest conditions in 12 plots across a range of plant-association groups and mapped five restoration treatment units after implementation. We evaluated treatment effectiveness both in terms of meeting the prescriptions’ stated objectives and by similarity to observed reference conditions using metrics of density, species composition, clump-size patterns, and open-space patterns. We found that dry plant associations were historically dominated by distributed clumps of large shade-intolerant trees, whereas cold mesic plant associations were structured as a gap-matrix spatial pattern. Treatments were effective at meeting prescribed density and species-composition targets, but generally resulted in stands that were overly uniform or clumped compared to historical reference conditions.