Miracle-dz/UniFAR-FTUs huggingface dataset:
Identification of 8-Digit HLA-A, -B, -C, and -DRB1 Allele and Haplotype Frequencies in Koreans Using the One Lambda AllType Next-Generation Sequencing Kit

Background Recent studies have successfully implemented next-generation sequencing (NGS) in HLA typing. We performed HLA NGS in a Korean population to estimate HLA-A, -B, -C, and -DRB1 allele and haplotype frequencies up to an 8-digit resolution, which might be useful for an extended application of HLA results. Methods A total of 128 samples collected from healthy unrelated Korean adults, previously subjected to Sanger sequencing for 6-digit HLA analysis, were used. NGS was performed for HLA-A, -B, -C, and -DRB1 using the AllType NGS kit (One Lambda, West Hills, CA, USA), Ion Torrent S5 platform (Thermo Fisher Scientific, Waltham, MA, USA), and Type Steam Visual NGS analysis software (One Lambda). Results Eight HLA alleles showed frequencies of ≥10% in the Korean population, namely, A*24:02:01:01 (19.5%), A*33:03:01 (15.6%), A*02:01:01:01 (14.5%), A*11:01:01:01 (13.3%), B*15:01:01:01 (10.2%), C*01:02:01 (19.9%), C*03:04:01:02 (11.3%), and DRB1*09:01:02 (10.2%). Nine previous 6-digit HLA alleles were further identified as two or more 8-digit HLA alleles. Of these, eight alleles (A*24:02:01, B*35:01:01, B*40:01:02, B*55:02:01, B*58:01:01, C*03:02:02, C*07:02:01, and DRB1*07:01:01) were identified as two 8-digit HLA alleles, and one allele (B*51:01:01) was identified as three 8-digit HLA alleles. The most frequent four-loci haplotype was HLA-A*33:03:01-B*44:03:01:01-C*14:03-DRB1*13:02:01. Conclusions We identified 8-digit HLA-A, -B, -C, and -DRB1 allele and haplotype frequencies in a healthy Korean population using NGS. These new data can be used as a representative Korean data for further disease-related HLA type analysis.
Convergent Rewiring of the Virulence Regulatory Network Promotes Adaptation of Ralstonia solanacearum on Resistant Tomato

Abstract The evolutionary and adaptive potential of a pathogen is a key determinant for successful host colonization and proliferation but remains poorly known for most of the pathogens. Here, we used experimental evolution combined with phenotyping, genomics, and transcriptomics to estimate the adaptive potential of the bacterial plant pathogen Ralstonia solanacearum to overcome the quantitative resistance of the tomato cultivar Hawaii 7996. After serial passaging over 300 generations, we observed pathogen adaptation to within-plant environment of the resistant cultivar but no plant resistance breakdown. Genomic sequence analysis of the adapted clones revealed few genetic alterations, but we provide evidence that all but one were gain of function mutations. Transcriptomic analyses revealed that even if different adaptive events occurred in independently evolved clones, there is convergence toward a global rewiring of the virulence regulatory network as evidenced by largely overlapping gene expression profiles. A subset of four transcription regulators, including HrpB, the activator of the type 3 secretion system regulon and EfpR, a global regulator of virulence and metabolic functions, emerged as key nodes of this regulatory network that are frequently targeted to redirect the pathogen’s physiology and improve its fitness in adverse conditions. Significant transcriptomic variations were also detected in evolved clones showing no genomic polymorphism, suggesting that epigenetic modifications regulate expression of some of the virulence network components and play a major role in adaptation as well.
Rejection of organic micropollutants by high pressure membranes: comparison of bench-scale versus single element tests

There has been considerable information reported on rejection of trace organic compounds from pilot-scale and full-scale experiments with reverse osmosis (RO) and nanofiltration (NF), but this information has limited value in predicting the rejection of these compounds by high-pressure membranes. The goal of this research is to define relationships between compound properties, membrane properties, and operational conditions, e.g. pressure, recovery, affecting trace organic compound rejection, comparing bench-scale recirculation tests and bench-scale single-pass tests. In addition, bench-scale results are compared against single element tests to ascertain scale-up effects.
Nurse staffing practices and adverse events in acute care hospitals: The research protocol of a multisite patient‐level longitudinal study

Abstract Aims We describe an innovative research protocol to: (a) examine patient‐level longitudinal associations between nurse staffing practices and the risk of adverse events in acute care hospitals and; (b) determine possible thresholds for safe nurse staffing. Design A dynamic cohort of adult medical, surgical and intensive care unit patients admitted to 16 hospitals in Quebec (Canada) between January 2015–December 2019. Methods Patients in the cohort will be followed from admission until 30‐day postdischarge to assess exposure to selected nurse staffing practices in relation to the subsequent occurrence of adverse events. Five staffing practices will be measured for each shift of an hospitalization episode, using electronic payroll data, with the following time‐varying indicators: (a) nursing worked hours per patient; (b) skill mix; (c) overtime use; (d) education mix and; and (e) experience. Four high‐impact adverse events, presumably associated with nurse staffing practices, will be measured from electronic health record data retrieved at the participating sites: (a) failure‐to‐rescue; (b) in‐hospital falls; (c) hospital‐acquired pneumonia and; and (d) venous thromboembolism. To examine the associations between the selected nurse staffing exposures and the risk of each adverse event, separate multivariable Cox proportional hazards frailty regression models will be fitted, while adjusting for patient, nursing unit and hospital characteristics, and for clustering. To assess for possible staffing thresholds, flexible non‐linear spline functions will be fitted. Funding for the study began in October 2019 and research ethics/institutional approval was granted in February 2020. Discussion To our knowledge, this study is the first multisite patient‐level longitudinal investigation of the associations between common nurse staffing practices and the risk of adverse events. It is hoped that our results will assist hospital managers in making the most effective use of the scarce nursing resources and in identifying staffing practices that minimize the occurrence of adverse events.
Oxidized Lipoproteins Promote Resistance to Cancer Immunotherapy Independent of Patient Obesity

The influence of obesity on cancer immunotherapy is not clear. This study shows oxidized LDL promotes resistance to immunotherapy by suppressing T-cell function and driving tumor cytoprotection mediated by heme oxygenase-1 (HO-1), suggesting HO-1 is a promising therapeutic target. Antitumor immunity is impaired in obese mice. Mechanistic insight into this observation remains sparse and whether it is recapitulated in patients with cancer is unclear because clinical studies have produced conflicting and controversial findings. We addressed this by analyzing data from patients with a diverse array of cancer types. We found that survival after immunotherapy was not accurately predicted by body mass index or serum leptin concentrations. However, oxidized low-density lipoprotein (ox-LDL) in serum was identified as a suppressor of T-cell function and a driver of tumor cytoprotection mediated by heme oxygenase-1 (HO-1). Analysis of a human melanoma gene expression database showed a clear association between higher HMOX1 (HO-1) expression and reduced progression-free survival. Our in vivo experiments using mouse models of both melanoma and breast cancer revealed HO-1 as a mechanism of resistance to anti-PD1 immunotherapy but also exposed HO-1 as a vulnerability that could be exploited therapeutically using a small-molecule inhibitor. In conclusion, our clinical data have implicated serum ox-LDL as a mediator of therapeutic resistance in patients with cancer, operating as a double-edged sword that both suppressed T-cell immunity and simultaneously induced HO-1–mediated tumor cell protection. Our studies also highlight the therapeutic potential of targeting HO-1 during immunotherapy, encouraging further translational development of this combination approach. See article by Kuehm et al., p. 227
An Empirical Study on the Influencing Factors of the Corporate Performance of Listed Companies in the Transportation Industry – Evidence from China

Article History Received: 02.10. 2018 Accepted: 10.10. 2018 Published: 30.10. 2018 Abstract: According to the development trend of the transportation industry and rapid economic growth, China has carried out strategic layout and planning routes for the transportation industry. The National Development and Reform Commission have also issued a number of documents that promote the construction of a modern transportation system, and promote transportation projects such as railways, waterways, airports, and urban transportation. Besides, it continuously invests large amounts of money in companies in the transportation industry. The mission of companies in the transportation industry is of great importance. It can be seen that China’s transportation industry is at a stage of rapid development, and it has received strong support from the government. Nevertheless, it still has a long way to go. To improve the transportation infrastructure of the nation, companies in the transportation industry must strive to improve their corporate performance. This paper empirically investigates the impact of factors such as financial factors, internal operations, and corporate growth on the corporate performance of listed companies in the transportation industry, with the aim of helping listed companies in the transportation industry to develop a sound corporate strategy and conduct standardized and effective management to improve corporate performance. This paper selects data of 42 listed companies in the transportation industry from 2012 to 2016, and utilizes the fixed effect model that controls heteroskedasticity to analyze influencing factors of the corporate performance of listed companies in the transportation industry. Empirical results show that core ratio, return on personnel, long-term debt ratio, and quality of staff positively influences the corporate performance of listed companies in the transportation industry. Factors such as operation cost ratio, managerial cost ratio, size, and delay ratio have a negative impact on the corporate performance of listed companies in the transportation industry. Policy implications are proposed accordingly.
Indigenous phosphate-solubilizing bacteria enhance germination in deteriorated rice seed

Purwaningsih, Radian, Dewi, W. & Pujiasmanto, B. (2019). Indigenous phosphate-solubilizing bacteria enhance germination in deteriorated rice seed. Bulgarian Journal of Agricultural Science, 25(3), 486–493 Certain soil microorganisms have the potential to improve the growth of plants. The aim of this study was to isolate the indigenous bacteria from acid sulphate soil, and evaluate whether this could enhance the germination of deteriorating rice seeds. It was revealed that four bacteria isolates (4A, 6A, 8RH, 10RH) were able to solubilise phosphate and produce indole and siderophore. Molecular identifi cation, using the 16S rRNA gene, showed that these four isolates are Paenibacillus alvei strain NBRC 3343, P. alvei strain DSM 29, Bacillus cereus strain ATCC 14579 and B. cereus strain ATCC 14579. Evaluation showed that the four strains were able to increase the percentage of germination by up to 46.5%, the uniformity of germination by up to 30% and the germination rate by 7.1%/d on seed with ≤ 50% viability. Germination of seeds with 80% viability increased by only 14%, with a slight increase in the uniformity of germination (16%) and germination rate (8.81%/d).
Improving Execution Efficiency of Just-in-time Compilation based Query Processing on GPUs

In recent years, we have witnessed significant efforts to improve the performance of Online Analytical Processing (OLAP) on graphics processing units (GPUs). Most existing studies have focused on improving memory efficiency since memory stalls can play an essential role in query processing performance on GPUs. Motivated by the recent rise of just-in-time (JIT) compilation in query processing, we investigate whether and how we can further improve query processing performance on GPU. Specifically, we study the execution of state-of-the-art JIT compile-based query processing systems. We find that thanks to advanced techniques such as database compression and JIT compilation, memory stalls are no longer the most significant bottleneck. Instead, current JIT compile-based query processing encounters severe under-utilization of GPU hardware due to divergent execution and degraded parallelism arising from resource contention. To address these issues, we propose a JIT compile-based query engine named Pyper to improve GPU utilization during query execution. Specifically, Pyper has two new operators, Shuffle and Segment , for query plan transformation, which can be plugged into a physical query plan in order to reduce divergent execution and resolve resource contention, respectively. To determine the insertion points for these two operators, we present an analytical model that helps insert Shuffle and Segment operators into a query plan in a cost-based manner. Our experiments show that 1) the analytical analysis of divergent execution and resource contention helps to improve the accuracy of the cost model, 2) Pyper significantly outperforms other GPU query engines on TPC-H and SSB queries.
Impact of International Development Assistances (Ida) On Economic Growth in Nigeria (1986-2016)

This study has examined the impact of International Development Association (IDA) on the Nigerian economy for the period 1986 to 2016. The study used unit root test to determine the stationary state of the variables using the Augmented Dickey-Fuller Test. It also employs the Granger causality procedure, Johansen Co-integration and Error Correction Model (ECM) statistical techniques to establish both the direction of causality, short-run and long run dynamic relationship between the dependent and independent variables. The findings indicate that official development assistance increases the rate of economic growth of Nigerian; there is a unidirectional causal relationship between economic growth and official development assistance, i.e. the changes in the official development assistance are caused by the changes in economic growth and again, there exists a long run equilibrium relationship between official development assistance and economic growth. The study submits that the use of foreign aid should be encouraged since it promotes growth. It is therefore recommended that Government should create an enabling environment needed for investment of this official development assistance, Measures should be mapped out to ensure that every investment using official development assistance should be on capital project that will have a long term benefit and the Nigerian government should put stringent measures/policies to ensure the assistances from these body is well utilized to positively enhance both human and economic growth of the country.
Control of heterogeneous, layered successions on shallow-level magma emplacement and host rock deformation

25 Host rock deformation in active volcanic settings can signal and be used to constrain magma 26 emplacement. Yet it is difficult to evaluate the accuracy of intrusion parameters derived from 27 inversion of deformation signals because we cannot test estimates by directly accessing the 28 magma body. Physical modelling is thus critical to understanding how intrusion translates 29 into host rock deformation, particularly surface uplift and/or subsidence, because we can use 30 transparent materials or excavate models to view the actual intrusion geometry. However, 31 few physical models have investigated how a heterogeneous, layered host material impacts 32 magma emplacement, despite evidence suggesting the presence of weak layers can control 33 intrusion style and geometry. We conduct several models that simulate emplacement of a 34 felsic magma at ~6 km depth within a granular (sand) host rock; in two of our models we 35 incorporate two, thin, weak microbead layers into the layered host material. We show that 36 intrusion solely within the granular material is primarily accommodated by lateral contraction 37 (compaction and folding) of the host material, resulting in a dyke-like intrusion that erupted. 38 When the microbead layers were present, a cone sheet and saucer-shaped sill preferentially 39 formed, without erupting, accommodated by forced folding. Furthermore, we demonstrate 40 that surface deformation does not simply reflect the complexity of the intrusion geometry or 41 internal host material deformation. Overall, our results indicate that physical models should 42 further explore the role of host material heterogeneity on magma emplacement. 43 44
The modeling of effective factors on Qaenat saffron yield using GFA and ANFIS

Moghaddam, A. D. , Ramezani, S. , Hosseini, S. M. & Vandaki, A. (2020). The modeling of effective factors on Qaenat saffron yield using GFA and ANFIS. Bulg. J. Agric. Sci., 26 (4), 719–725 Saffron is one of main strategic crops in Iran that have exclusive position in non-oil export products of the country. There is special weather condition in Qaenat state for saffron production and so saffron allocated high proportion of agricultural products in this region. In current research, the modelling of affecting factors on saffron yield using Genetic function approximation and adaptive neuro-fuzzy inference system in Qaenat state was done. The statistical samples were taken using coincidence sampling among 120 saffron growers’ in Qaenat state at 2017. Results are shown that cultivation area, related education, total sale, product price, labor cost, irrigation and harvest cost are most effective factors on saffron yield. Price elasticity coefficient was higher in comparison with other factors that show growers reaction to price was higher than others. Labor cost elasticity coefficient was higher among saffron production inputs that means increase in labor cost have more portion in increasing of yield compared than other inputs. Results of comparison between genetic function approximation and adaptive neuro-fuzzy inference system showed that genetic function approximation was predicted in lower error compared than adaptive neuro-fuzzy inference system.
Graph Streaming Algorithms

In this class, we have encountered streaming algorithms for computing properties of a sequence of inputs with limited memory. One area of interest is in graph streaming algorithms, where the edges of a graph arrives in a stream and the algorithm computes properties of the graph such as connectivity, bipartiteness or the size of a maximum matching using space sublinear in the number of edges, which is O(n2) for a graph with n vertices. It can be proved 1 that in an adversarial stream (an adversary gets to choose what order the edges arrive in), at least Ω(n log n) space is needed to compute properties such as connectivity and bipartiteness. Therefore, most of the algorithms studied in this survey use Õ(n) space, where Õ hides log n factors. In fact, for the model mentioned above (insertion of edges, adversarial stream), we have seen algorithms using spaces that match these lower bounds, e.g., by maintaining the spanning forest, greedy matching, bipartite-labeling, etc. Here we will look at streaming algorithms for two modifications of this basic model:
FUNDAÇÃO GETULIO VARGAS ESCOLA BRASILEIRA DE ADMINISTRAÇÃO PÚBLICA E DE EMPRESAS MESTRADO EXECUTIVO EM GESTÃO EMPRESARIAL HOW EMPLOYEES’ MONITORING PERCEPTIONS AFFECT ORGANIZATIONAL TRUST: THE MODERATING ROLE OF ORGANIZATIONAL JUSTICE

How should organizations react to nowadays working context? Should employees’ behavioural surveillance be embraced and adopted by companies? What could be the implications of these practices? This study, based on an input-process-output model, seeks to investigate how monitoring employees may affect their attitudes towards the organization, more in specific, the focus will be on one variable: workers’ trust towards the organization. The research further proposes to determine whether the four organizational justice constructs significantly moderate the relationship between perceived monitoring and organizational trust. This research applied a quantitative research method, consisting of the analysis of responses obtained to a previously developed survey. Regression analysis was used in order to understand the relationship between monitoring in the workplace and trust towards the organization and to clarify the role played by the four dimensions of organizational justice. Inconsistently with the hypotheses developed, the results indicate that monitoring employees cannot be considered a factor, which negatively impacts the trust towards the organization. Likewise, the organizational justice domain does not significantly moderate this relationship: the four different organizational justice constructs reported statistically insignificant scores of interaction on the main relationship. Finally, the implications of the results are discussed with respect to clarifying possible explanation for the obtained outcomes and propose solutions to improve future studies in this area.
Impact of laser power density on tribological properties of Pulsed Laser Deposited DLC films

Fabrication of wear resistant and low friction carbon films on the engineered substrates is considered as a challenging task for expanding the applications of diamond-like carbon (DLC) films. In this paper, pulsed laser deposition (PLD) technique is used to deposit DLC films on two different types of technologically important class of substrates such as silicon and AISI 304 stainless steel. Laser power density is one of the important parameter used to tailor the fraction of sp2 bonded amorphous carbon (a-C) and tetrahedral amorphous carbon (ta-C) made by sp3 domain in the DLC film. The I(D)/I(G) ratio decreases with the increasing laser power density which is associated with decrease in fraction of a-C/ta-C ratio. The fraction of these chemical components is quantitatively analyzed by EELS which is well supported to the data obtained from the Raman spectroscopy. Tribological properties of the DLC are associated with chemical structure of the film. However, the super low value of friction coefficient 0.003.
OP-ICBJ200115 1..13

*Department of Biological Sciences, University of Illinois at Chicago, 845 West Taylor Street (MC066), Chicago, IL 60607, USA; SELVA: Investigaci on para la Conservaci on en el Neotr opico, Diagonal 42a No 20-37, Bogot a, Colombia; Negaunee Integrative Research Center, Field Museum of Natural History, 1400 South Lake Shore Drive, Chicago, IL 60605, USA; Departamento de Ecolog ıa, Gen etica y Evoluci on, Instituto IEGEBA (CONICET-UBA), Facultad de Ciencias Exactas y Naturales, Universidad de Buenos Aires, Intendente Güiraldes, Ciudad UniversitariaC1428EGA, Buenos Aires, 2160, Argentina; Departamento de Zoologia, Instituto de Biociências, Universidade Estadual Paulista, Avenida 24a, no. 1515, Rio Claro, S~ao Paulo, Brazil; kDepartment of Evolution, Ecology and Organismal Biology, University of California, Riverside, Riverside, CA 92521, USA