bluuebunny/crossref_metadata_2025_split huggingface dataset:
LD Hub: a centralized database and web interface to perform LD score regression that maximizes the potential of summary level GWAS data for SNP heritability and genetic correlation analysis
Authors: Zheng Jie , Erzurumluoglu A. Mesut , Elsworth Benjamin L. , Howe Laurence , Haycock Philip C. , Hemani Gibran , Tansey Katherine , Laurin Charles ,   Early Genetics and Lifecourse Epidemiology (EAGLE) Eczema Consortium, St. Pourcain Beate , Warrington Nicole M. , Finucane Hilary K. , Price Alkes L. , Bulik-Sullivan Brendan K. , Anttila Verneri , Paternoster Lavinia , Gaunt Tom R. , Evans David M. , Neale Benjamin M. 
Published: May 2016

AbstractMotivationLD score regression is a reliable and efficient method of using genome-wide association study (GWAS) summary-level results data to estimate the SNP heritability of complex traits and diseases, partition this heritability into functional categories, and estimate the genetic correlation between different phenotypes. Because the method relies on summary level results data, LD score regression is computationally tractable even for very large sample sizes. However, publicly available GWAS summary-level data are typically stored in different databases and have different formats, making it difficult to apply LD score regression to estimate genetic correlations across many different traits simultaneously.ResultsIn this manuscript, we describe LD Hub – a centralized database of summary-level GWAS results for 177 diseases/traits from different publicly available resources/consortia and a web interface that automates the LD score regression analysis pipeline. To demonstrate functionality and validate our software, we replicated previously reported LD score regression analyses of 49 traits/diseases using LD Hub; and estimated SNP heritability and the genetic correlation across the different phenotypes. We also present new results obtained by uploading a recent atopic dermatitis GWAS meta-analysis to examine the genetic correlation between the condition and other potentially related traits. In response to the growing availability of publicly accessible GWAS summary-level results data, our database and the accompanying web interface will ensure maximal uptake of the LD score regression methodology, provide a useful database for the public dissemination of GWAS results, and provide a method for easily screening hundreds of traits for overlapping genetic aetiologies.Availability and implementationThe web interface and instructions for using LD Hub are available athttp://ldsc.broadinstitute.org/
Dual functions of Intraflagellar Transport Protein IFT20 in spermiogenesis: formation of sperm flagella and removal of cytoplasm by autophagy
Authors: Zhang Zhengang , Li Wei , Zhang Yong , Zhang Ling , Teves Maria E , Liu Hong , Liu Junpin , Strauss Jerome F , Pazour Gregory J , Foster James A , Hess Rex A. , Zhang Zhibing 
Published: May 2016

AbstractIntraflagellar transport (IFT) is a conserved mechanism thought to be essential for the assembly and maintenance of cilia and flagella. However, little is known about mammalian sperm flagella formation. To fill this gap, we disrupted theIft20gene in male germ cells. Homozygous mutant mice were infertile with significantly reduced sperm counts and motility. In addition, abnormally shaped elongating spermatid heads and bulbous round spermatids were found in the lumen of the seminiferous tubules. Electron microscopy revealed increased cytoplasmic vesicles, fiber-like structures, abnormal accumulation of mitochondria and decreased mature lysosomes. The few developed sperm had disrupted axoneme and retained cytoplasmic lobe components on the flagella. ODF2 and SPAG16L, two sperm flagella proteins failed to be incorporated into sperm tails of the mutant mice. Expression levels of an autophagy core protein that associates with IFT20, Atg16, were significantly reduced in the testis of theIft20mutant mice. Our studies suggest that IFT20 is essential for spermiogenesis in mice, and it plays a role in sperm flagella formation, and removing excess cytoplasmic components by regulating autophagy core proteins.
Description of a new genus of primitive ants from Canadian amber, with the study of relationships between stem- and crown-group ants (Hymenoptera: Formicidae)
Authors: Borysenko Leonid H. 
Published: May 2016

AbstractA detailed study of the holotype ofSphecomyrma canadensisWilson, 1985 from Canadian amber has led to the conclusion that the specimen belongs to a new genus, here namedBoltonimeciagen.n. Since the taxonomy of stem-group ants is not well understood, in order to find the taxonomic position of this genus, it is necessary to review the classification of stem-group ants in a study of their relation to crown-group ants. In the absence of data for traditional taxonomic approaches, a statistical study was done based on a morphometric analysis of antennae. Scape elongation is believed to play an important role in the evolution of eusociality in ants; however, this hypothesis has never been confirmed statistically. The statistical analysis presented herein lends support to the view that antennal morphology reliably distinguishes stem-group ants from crown-group ants to determine whether a species belongs to one or the other group. This, in turn, may indicate a relationship exists between eusociality and scape elongation. A review of Cretaceous records of ants is made and the higher classification of Formicidae with definitions of stem and crown groups is proposed. Newly obtained data are discussed focusing particularly on the origin, evolution and diversity of ants.
Performance in a GO/NOGO perceptual task reflects a balance between impulsive and instrumental components of behaviour
Authors: Berditchevskaia A. , Cazé R.D. , Schultz S.R. 
Published: May 2016

AbstractIn recent years, simple GO/NOGO behavioural tasks have become popular due to the relative ease with which they can be combined with technologies such asin vivomultiphoton imaging. To date, it has been assumed that behavioural performance can be captured by the average performance across a session, however this neglects the effect of motivation on behaviour within individual sessions. We investigated the effect of motivation on mice performing a GO/NOGO visual discrimination task. Performance within a session tended to follow a stereotypical trajectory on a Receiver Operating Characteristic (ROC) chart, beginning with an over-motivated state with many false positives, and transitioning through a more or less optimal regime to end with a low hit rate after satiation. Our observations are reproduced by a new model, the Motivated Actor-Critic, introduced here. Our results suggest that standard measures of discriminability, obtained by averaging across a session, may significantly underestimate behavioural performance.
Pan- and core- network analysis of co-expression genes in a model plant
Authors: He Fei , Maslov Sergei 
Published: May 2016

AbstractGenome-wide gene expression experiments have been performed using the model plant Arabidopsis during the last decade. Some studies involved construction of coexpression networks, a popular technique used to identify groups of co-regulated genes, to infer unknown gene functions. One approach is to construct a single coexpression network by combining multiple expression datasets generated in different labs. We advocate a complementary approach in which we construct a large collection of 134 coexpression networks based on expression datasets reported in individual publications. To this end we reanalyzed public expression data. To describe this collection of networks we introduced concepts of ‘pan-network’ and ‘core-network’ representing union and intersection between a sizeable fractions of individual networks, respectively. We showed that these two types of networks are different both in terms of their topology and biological function of interacting genes. For example, the modules of the pan-network are enriched in regulatory and signaling functions, while the modules of the core-network tend to include components of large macromolecular complexes such as ribosomes and photosynthetic machinery. Our analysis is aimed to help the plant research community to better explore the information contained within the existing vast collection of gene expression data in Arabidopsis.Research AreaSystems and Synthetic BiologySummaryBy analyzing 134 microarray datasets for Arabidopsis, we found that gene coexpression networks are highly context-dependent.Financial sourceWork at Brookhaven was supported by grants PM-031 from the Office of Biological Research of the U.S. Department of Energy.
International benchmarking for performance improvement in construction safety and health
Authors: Saunders Lance W. , McCoy Andrew P , Kleiner Brian M. , Lingard Helen , Cooke Tracy , Mills Thomas , Blismas Nick , Wakefield Ronald 
Published: May 2016

Purpose
– The purpose of this paper is to advance knowledge on the advantages of integrating safety earlier in the construction project lifecycle.

Design/methodology/approach
– A case study approach is used to collect data from construction sites in the USA, which performs poorly in construction safety and health, and Australia (AU), which performs well in construction safety and health. Qualitative data are collected to determine how and when safety is considered in the project lifecycle in both countries, and then the results are benchmarked to determine the benefits of addressing safety earlier in the process.

Findings
– Data show that addressing a potential hazard earlier in the project lifecycle has performance benefits in terms of the level of hazard control.

Research limitations/implications
– The processes that are identified as possibly explaining the performance difference are just based on qualitative data from interviews. Targeted research addressing the relationship between these processes and safety outcomes is an opportunity for further research.

Practical implications
– The case study data are used to identify specific processes that are used in AU that might be adopted in the USA to improve performance by integrating safety earlier into the decision-making process.

Social implications
– This paper highlights the advantages of integrating safety as a decision factor early in the process. Worker safety is not just an issue in the construction industry, and thus the findings are applicable to all industries in which worker safety is an issue.

Originality/value
– This paper advances the safety in design literature by quantitatively supporting the link between when a hazard is addressed and performance. It also links the results to specific processes across countries, which advances the literature because most research in this area to data is within a single country.
Research on the transmission mechanism between the money market interest rates and the capital market interest rates
Authors: Zhang Xiu , Chen Shoudong , Liu Yang 
Published: May 2016

Purpose– The purpose of this paper is to empirically analyze the transmission mechanism between benchmark interest rate of financial market, money market interest rate and capital market yields in order to reveal the dynamic evolution characters and core influential structure between different market interest rates.Design/methodology/approach– Using Dirichlet-VAR (DVAR) model, this study analyze the relationship between markets rates according to the equilibrium model in money market and capital market.Findings– Empirical results show that the interest rate transmission mechanism functions smoothly between interest rates of different levels. Interest rate of bills issued by the central bank can effectively reflect changes in monetary policy and guide the fluidity of market, playing the anchor role in interest rate pricing. There exists a closed loop feedback between interest rate of bills issued by the central bank, and money market interest rate, as well as between money market interest rate and bond market interest rate. The former is a loop by administrative means while the latter is the one mainly affected by market-oriented means. The response by money market and bond market toward the change of benchmark interest rate is unsymmetrical as money market is more sensitive to a loose monetary policy while bond market is more sensitive to a tight monetary policy. Stock market is strongly affected by uncertainty of benchmark interest rate.Originality/value– DVAR model is the extension of research on instable data and multiple variable causality test, which expands the causality analysis between two variables to multiple variables causality impact analysis which contains non-stable and structurally instable economic data.
Multi-physics coupling aid uniformity improvement in pattern plating
Authors: Ji Linxian , Wang Chong , Wang Shouxu , Zhu Kai , He Wei , Xiao Dingjun 
Published: May 2016

PurposeThe uniformity of electrodeposition is the key to successful application of pattern plating because the quality of electrodeposited copper layer has a huge impact on the performance of printed circuit boards (PCBs). The multi-physics coupling technology was used to accurately analyze and forecast the characteristics of electrochemical system. Further, an optimized plating bath was used to achieve a uniform electrodeposition.Design/methodology/approachA multi-physics coupling numerical simulation based on the finite element method was used to optimize electrodeposition conditions in pattern plating process. The influences of geometric and electrochemical factors on uniformity of current distribution and electrodeposited layer thickness were discussed by multi-physics coupling.FindingsThe model results showed that the distance between cathode and anode and the insulating shield had a great impact on uniformity of electrodeposition. By numerical simulation, it had been proved that using an auxiliary cathode was an effective and simple way to improve uniformity of electrodeposition due to redistributing of the current. This helped to achieve more uniform surface of the copper patterns by preventing the edge effect and the roughness of the copper layer was reduced to 1 per cent in the secondary current distribution model.Research limitations/implicationsThe research is still in progress with the development of high-performance computers.Practical implicationsA multi-physics coupling platform is an excellent tool for quickly and cheaply studying the process behaviors under a variety of operating conditions.Social implicationsThe numerical simulation method has laid the foundation for the design and improvement of the plating bath.Originality/valueBy multi-physics coupling technology, we built a bridge between theoretical and experimental study for control of uniformity of pattern plating in PCB manufacturing. This method can help optimize the design of plating bath and uniformity of pattern plating in PCB manufacturing.
The polluter pays principle and the remediation of the land
Authors: Lees Emma 
Published: May 2016

Purpose
The purpose of this article is to examine the national law regimes related to the remediation of contaminated land.

Design/methodology/approach
The methodology used is comparative. Models for different systems are described on the basis of varying interpretations of the polluter pays principle. The regimes present in the Member States are then analysed to see which model they have adopted. A comparator from each model group is then considered.

Findings
This article presents three key findings. First, it concludes that the extent to which additional national legislation relating to environmental damage is permitted, which depends upon the notion of “more stringent” legislation, is incoherent where more than one interpretation is given to the polluter pays principle. Second, the different interpretations given to the principle undermine harmonisation. Finally, this has wider implications for how we justify liability for contaminated land.

Originality/value
This comparative study of the interpretation of the polluter pays principle, through its implementation in Member States, provides a valuable and novel insight into environmental liability regimes in Europe. It also demonstrates the different type of regimes that are developed on the basis of such different interpretations. Although the different national attitudes to contaminated land policy and remediation have been considered before, this article adds to this debate by suggesting a central cause of such variation in the shape of different interpretations of a principle of the European Union.
Optimal strategies for manufacturer with strategic customer behavior under carbon emissions-sensitive random demand
Authors: Jiang Wen , Chen Xu 
Published: May 2016

Purpose
– The purpose of this paper is to investigate the manufacturer’s production, pricing and green technology investment decision problem when strategic customer behavior and carbon emissions-sensitive random demand is taken into consideration and discuss the impact of carbon emissions-sensitive demand on the manufacturer’s operation strategies, total carbon emissions and maximum expected profit.

Design/methodology/approach
– The authors formulate a model to introduce carbon emissions-sensitive demand into the newsvendor framework with strategic customer behavior. The authors characterize the rational expectations equilibrium to derive the optimal solutions to the manufacturer. The authors analyze the effects of carbon emissions-sensitive demand on the manufacturer’s optimal strategies, total carbon emissions and maximum expected profit by comparative analysis.

Findings
– The authors obtain the manufacturer’s optimal production, pricing and green technology investment strategies under rational expectations equilibrium in scenario of price-sensitive demand and that of carbon emissions-sensitive demand, respectively. The authors find that as customer demand changes from price-sensitive demand to carbon emissions-sensitive demand, the manufacturer’s optimal prices are the same but optimal production quantity, optimal unit carbon emissions and maximum expected profit go down. Though the total emissions decrease, the carbon emissions reduction would not increase as the demand is more carbon emissions-sensitive. Whether it increases or decreases depends on the model parameters.

Originality/value
– Carbon emissions-sensitive demand and strategic customer behavior are considered simultaneously in an integrated model. The result can guide the manufacturer decision-making. The proposed model are hoped to shed light to the future works in the field of sustainable supply chain management.
Constrained clustering method for class-based storage location assignment in warehouse
Authors: Yang Chao-Lung , Nguyen Thi Phuong Quyen 
Published: May 2016

Purpose
– Class-based storage has been studied extensively and proved to be an efficient storage policy. However, few literature addressed how to cluster stuck items for class-based storage. The purpose of this paper is to develop a constrained clustering method integrated with principal component analysis (PCA) to meet the need of clustering stored items with the consideration of practical storage constraints.

Design/methodology/approach
– In order to consider item characteristic and the associated storage restrictions, the must-link and cannot-link constraints were constructed to meet the storage requirement. The cube-per-order index (COI) which has been used for location assignment in class-based warehouse was analyzed by PCA. The proposed constrained clustering method utilizes the principal component loadings as item sub-group features to identify COI distribution of item sub-groups. The clustering results are then used for allocating storage by using the heuristic assignment model based on COI.

Findings
– The clustering result showed that the proposed method was able to provide better compactness among item clusters. The simulated result also shows the new location assignment by the proposed method was able to improve the retrieval efficiency by 33 percent.

Practical implications
– While number of items in warehouse is tremendously large, the human intervention on revealing storage constraints is going to be impossible. The developed method can be easily fit in to solve the problem no matter what the size of the data is.

Originality/value
– The case study demonstrated an example of practical location assignment problem with constraints. This paper also sheds a light on developing a data clustering method which can be directly applied on solving the practical data analysis issues.
Enablers of supply chain integration
Authors: Wang Bill , Childerhouse Paul , Kang Yuanfei , Huo Baofeng , Mathrani Sanjay 
Published: May 2016

Purpose– Previous research on supply chain integration (SCI) enablers has primarily focussed on interorganizational relationships, the purpose of this paper is to broaden the discussion to include interpersonal relationships (IPRs).Design/methodology/approach– Based on a comprehensive literature review, a series of propositions are postulated and synthesized into a conceptual model of how IPRs maintain and enable SCI, which is decomposed into strategic alliance, information sharing, and process coordination.Findings– The authors find that IPRs including personal affection, communication, and credibility, have a positive influence on SCI, and these links are mediated by interorganizational relationships including trust, commitment, and power.Originality/value– The framework developed in this study provides new insights into the role of interpersonal networks in interorganizational relationships, which lead to SCI.