bluuebunny/crossref_metadata_2025_split huggingface dataset:
SCODE: An efficient regulatory network inference algorithm from single-cell RNA-Seq during differentiation
Authors: Matsumoto Hirotaka , Kiryu Hisanori , Furusawa Chikara , Ko Minoru S.H. , Ko Shigeru B.H. , Gouda Norio , Hayash Tetsutaro , Nikaido Itoshi 
Published: November 2016

AbstractThe analysis of RNA-Seq data from individual differentiating cells enables us to reconstruct the differentiation process and the degree of differentiation (in pseudo-time) of each cell. Such analyses can reveal detailed expression dynamics and functional relationships for differentiation. To further elucidate differentiation processes, more insight into gene regulatory networks is required. The pseudo-time can be regarded as time information and, therefore, single-cell RNA-Seq data are time-course data with high time resolution. Although time-course data are useful for inferring networks, conventional inference algorithms for such data suffer from high time complexity when the number of samples and genes is large. Therefore, a novel algorithm is necessary to infer networks from single-cell RNA-Seq during differentiation.In this study, we developed the novel and efficient algorithm SCODE to infer regulatory networks, based on ordinary differential equations. We applied SCODE to three single-cell RNA-Seq datasets and confirmed that SCODE can reconstruct observed expression dynamics. We evaluated SCODE by comparing its inferred networks with use of a DNaseI-footprint based network. The performance of SCODE was best for two of the datasets and nearly best for the remaining dataset. We also compared the runtimes and showed that the runtimes for SCODE are significantly shorter than for alternatives. Thus, our algorithm provides a promising approach for further single-cell differentiation analyses.The R source code of SCODE is available athttps://github.com/hmatsu1226/SCODE.
Logic Synthesis of Recombinase-Based Genetic Circuits
Authors: Chiu Tai-Yin , Jiang Jie-Hong R. 
Published: November 2016

AbstractA synthetic approach to biology is a promising technique for various applications. Recent advancements have demonstrated the feasibility of constructing synthetic two-input logic gates inEscherichia colicells with long-term memory based on DNA inversion induced by recombinases. On the other hand, recent evidences indicate that DNA inversion mediated by genome editing tools is possible; powerful genome editing technologies, such as CRISPR-Cas9 systems, have great potential to be exploited to implement large-scale recombinase-based circuits. What remains unclear is how to construct arbitrary Boolean functions based on these emerging technologies. In this paper, we lay the theoretical foundation formalizing the connection between recombinase-based genetic circuits and Boolean functions. It enables systematic construction of any given Boolean function using recombinase-based logic gates. We further develop a methodology leveraging existing electronic design automation (EDA) tools to automate the synthesis of complex recombinase-based genetic circuits with respect to area and delay optimization. Experimental results demonstrate the feasibility of our proposed method.
G protein-coupled estrogen receptor regulates heart rate by modulating thyroid hormone levels in zebrafish embryos
Authors: Romano Shannon N , Edwards Hailey E , Cui Xiangqin , Gorelick Daniel A 
Published: November 2016

AbstractEstrogens act by binding to estrogen receptors alpha and beta (ERα, ERβ), ligand-dependent transcription factors that play crucial roles in sex differentiation, tumor growth and cardiovascular physiology. Estrogens also activate the G protein-coupled estrogen receptor (GPER), however the function of GPERin vivois less well understood. Here we find that GPER is required for normal heart rate in zebrafish embryos. Acute exposure to estrogens increased heart rate in wildtype and in ERα and ERβ mutant embryos but not in GPER mutants. GPER mutant embryos exhibited reduced basal heart rate, while heart rate was normal in ERα and ERβ mutants. We detectedgpertranscript in discrete regions of the brain and pituitary but not in the heart, suggesting that GPER acts centrally to regulate heart rate. In the pituitary, we observedgperexpression in cells that regulate levels of thyroid hormone triiodothyronine (T3), a hormone known to increase heart rate. GPER mutant embryos showed a mean 50% reduction in T3 levels compared to wildtype, while exposure to exogenous T3 rescued the reduced heart rate phenotype in GPER mutants. Our results demonstrate that estradiol plays a previously unappreciated role in the acute modulation of heart rate during zebrafish embryonic development and suggest that GPER regulates basal heart rate by altering total T3 levels.
“A whole new future” – identity construction among disadvantaged young adults
Authors: Koen Jessie , Van Vianen Annelies , Klehe Ute-Christine , Zikic Jelena 
Published: November 2016

Purpose
The purpose of this paper is to explore how disadvantaged young adults construct a positive work-related identity in their transition from unemployment to employment, and what enables or constrains a successful transition.

Design/methodology/approach
The authors conducted semi-structured interviews with 29 apprentices of a reemployment program (Jamie Oliver’s Fifteen). The qualitative data were complemented by data on participants’ reemployment status one year after the program ended.

Findings
Identity construction was not preceded by clear motives or “possible selves.” Rather, serendipitous events led to participation in the reemployment program, after which provisional selves seemed to emerge through different pathways. The data also suggested that disadvantaged young adults had to discard their old selves to consolidate their new identity.

Research limitations/implications
A successful transition from unemployment to employment may require that old selves must be discarded before new selves can fully emerge. Given that our qualitative design limits the generalizability of the findings, the authors propose a process model that deserves further empirical examination.

Practical implications
A clear employment goal is not always required for the success of a reemployment intervention: interventions should rather focus on accommodating the emergence and consolidation of provisional selves. Yet, such programs can be simultaneously effective and unhelpful: especially group identification should be monitored.

Originality/value
Most research assumes that people are driven by specific goals when making a transition. The current study shows otherwise: the factors that enable or constrain a successful transition are not to be found in people’s goals, but rather in the process of identity construction itself.
Jellinek revalued
Authors: Kelemen Gabor , Mark Monika Andrea 
Published: November 2016

Purpose
Since the Jellinekian Foundation of modern alcohol studies 75 years ago, no one has yet systematically studied the role of his ethnographic studies, his university attendance and engagement in psychoanalytic work leading to the birth of his first book (published in 1917), which applied an ethnographic approach. The purpose of this paper is to uncover and show the ethnographic, experimental psychological and psychoanalytic roots in Jellinek’s different models of alcohol problems, from the conventional medical one, though the Alcoholics Anonymous-inspired concept, to the species of alcoholism theory.

Design/methodology/approach
Using the data from their research in the archives of Budapest, Berlin, Leipzig and Grenoble, the authors examine Jellinek’s scientific output in alcohol studies. They focus on data related to Jellinek’s activity in statistics, ethnography including field work and the business model of psychoanalysis.

Findings
Drawing from various traditions of science, Jellinek acquired considerable sources of knowledge with the help of his friends and teachers during his formative years, which later led him to renew and transform his models of alcohol problems. New data on Jellinek’s personal history, a by-product of the archival research, is also presented.

Practical implications
The Jellinekian heritage, including his cross-fertilisation approach, represents a vast reserve for addiction science.

Originality/value
This paper not only adds to the understanding of the history of addiction, but might also lead to a rearranging of our knowledge about the founder of the field.
Exploring the impact of emotional intelligence on portfolio performance
Authors: El-Chaarani Hani 
Published: November 2016

Purpose
The main purpose of this research is to empirically test the impacts of emotional intelligence score and emotional intelligence processing on the performance of investor’s portfolio.

Design/methodology/approach
A mail questionnaire survey was conducted on a sample of 983 international investors. The total number of usable responses received was 197 giving a response rate of 20.4 per cent. From 197 investors, 46 accepted to complete the experiment study during two trading hours for each investor from January first until February 19, 2015.

Findings
The results reveal a positive impact of emotional intelligence on portfolio performance. Additional analysis shows that the emotional intelligence process has a significant impact on the portfolio performance. The higher impact is revealed when the investors understand the markets tendency, manage their own emotions, take their financial decisions and finally control their personnel emotions during market fluctuations. The lower impact is detected when investors take reactive decisions after perceiving the markets tendency. This research also reveals that the investors have high capacity to manage and control their emotions during market fluctuations especially who are characterized by high emotional intelligence level.

Research limitations/implications
The first limit of this research is the exploration of limited number of investors and financial operations during limited period. Therefore, the results could not be generalized, and further studies should include larger samples during larger period. The second limitation concerns the used variables to measure the portfolio performance and the emotional intelligence level. For future studies, it will be preferred to use other quantitative and qualitative variables lead to measure the different analytical dimensions of portfolio performance and emotional intelligence.

Practical implications
The results hold implications for investors that seek to enhance efficiently and effectively the portfolio performance. It also prompts investors to focus on effort that can improve the management and the control of personnel emotions.

Originality/value
This paper presents one of the first empirical studies that attempt to explore how emotional intelligence and, particularly, emotional process serve to sustain the performance of portfolio during market fluctuations.
Re-evaluating the practice of hibah trust in Malaysia
Authors: Noordin Nazrul Hazizi , Ismail Muhammad Issyam , Abd Rahman Muhammad Abd Hadi , Haron Siti Nurah , Abdullah Adam 
Published: November 2016

Purpose
This paper aims to re-evaluate and thus recommends possible ways in improving the current practice of hibah trust in Malaysia.

Design/methodology/approach
This study conducts a thorough and critical review on relevant literature on Islamic wealth management and estate distribution. Besides, the current practice and application of hibah trust by the Malaysian trustee companies such as Amanah Raya Berhad and As-Salihin Trustee Berhad is analyzed based on information gathered from their publications and direct consultation.

Findings
Based on the comparison made between hibah trust and its conventional counterpart, living trust, this study found that that the hibah trust product mirrors the conventional living trust, which provides a high degree of freedom to the benefactor to decide on the distribution of his wealth without taking into consideration the interest of the eligible heirs under farai’d. Nevertheless, it is undeniable that the practice of hibah trust would be able to expedite the lengthy and complex procedures of inheritance, reduce administrative costs and avoid legal impediments and inheritance tax.

Practical implications
This paper proposes a comprehensive framework for an improved asset distribution under hibah trust within the Malaysian Islamic wealth management industry by highlighting the significance of fara’id and wasiyyah rules. This proposed framework of hibah trust would become a useful reference for the policy makers in designing a dedicated regulation or legal provisions in the established laws that will govern the practice of hibah trust in Malaysia.

Originality/value
The novelty of this paper lies in highlighting the importance of adhering to the law of Islamic inheritance rules as ordained by Allah s.w.t in structuring contemporary Islamic estate planning instruments such as hibah trust, which is not evident in the current practice.
Enhancing management integrity through auditability concept: a literature review
Authors: Johari Razana Juhaida , Sayed Hussin Sayed Alwee Hussnie 
Published: November 2016

Purpose
The purpose of this paper is to highlight the importance of auditability concept as one of the corporate governance indicators that could increase the management integrity practices and public confidence toward the organizations. Nowadays, most business organizations having issues related to the complexity of the transactions, which make it difficult to collect audit evidence and eventually may affect the company’s good governance. This paper highlights the importance of management integrity practices through auditability concept that needs to be emphasized in today’s business environment. Auditability is the ability of the organizations to provide accurate adequate records to be audited by auditors.

Design/methodology/approach
A number of databases in fields such as social sciences and economics were used to acquire literature on the topic.

Findings
A discussion on the auditability concept through auditability triangle and auditability model and how management could strengthen the governance practices.

Originality/value
This paper provides new inputs to related parties in preparing more comprehensive guidelines on the implementation of auditability practice among the management as to increase the public confidence on the reported financial statements.
Measuring Latin America’s export dependency on China
Authors: Casanova Carlos , Xia Le , Ferreira Romina 
Published: November 2016

PurposeThe purpose of this paper is to deploy an export dependency index to identify the sectors and countries in Latin America which are most exposed to fluctuations in Chinese demand. Bilateral trade between China and Latin America has grown very quickly in the past decade. As a consequence, economic relationships with Latin America intensified tremendously, as growing demand for resources drove China into relatively unexplored frontiers.Design/methodology/approachThe Index measures the relative exposure of Latin American exporters to shifts in demand from China and is scaled from 0 to 1 (the higher the score, the more exposed an exporter is to disruptions of trade with China). The authors undertook the analysis using six-digit trade figures from the United Nations COMTRADE database (Harmonized System 2007 nomenclature) to ensure granularity and consistency and contrasted their results across two points in time, 2008 and 2014. The analysis was very comprehensive, covering the products that accounted for 80 per cent or more of all exports to China in 2014, for all countries in Latin America and the Caribbean.FindingsAccording to our estimates, dependency on China increased overboard across Latin America for all countries and all sectors between 2008 and 2014. Absolute dependency levels were highest in Costa Rica, Colombia, Uruguay, Venezuela, Brazil, Panama, Peru, Chile, Guyana and Argentina. Of these, the largest exporters to China, namely, Brazil, Argentina, Chile, Peru, Colombia and Venezuela, featured high dependencies concentrated around just four commodities: soy in the form of soybeans and soybean oil; crude oil; copper in the form of copper ore, copper cathodes and unrefined copper; and iron ore. These four commodities accounted for 80 per cent of the regions’ total exports to China.Originality/valueThis is one of few studies that look into Latin America’s commodity export dependency on China at such granular level.
Mexico, Brazil and Chile: potential links with China and South Korea
Authors: Fung K.C. , Hwang Hsiang-Chih , Seade Jesús , Tung Rocky 
Published: November 2016

PurposeIn this paper, the authors aim to examine trade in parts and components of Mexico, Chile and Brazil, focusing in particular on trade of television parts (SITC 7711) and semiconductors (SITC 7763) with China and South Korea. They also study the impact of foreign direct investment (FDI) on supply chain activities.Design/methodology/approachThe authors use sub-categories of trade data to look at export and import of parts and components involving China, South Korea, Mexico, Brazil and Chile. They also use two-stage regressions to examine the impact of FDI on supply chain trade.FindingsThe authors found preliminary evidence that there may be early signs of an emerging Trans-Pacific production network between these three Latin American economies and the China-based and South Korea-based East Asian supply chains. The authors argue that this budding network will improve economic welfare. To deepen the Trans-Pacific supply chain, it would be desirable for China and South Korea to consider joining the Trans-Pacific Partnership (TPP). In addition, FDI enhances trade in components.Practical implicationsTo deepen the Trans-Pacific supply chain, it would be desirable for China and South Korea to consider joining the TPP. In addition, it would be beneficial for these Latin American economies to encourage more direct investment in infrastructure and in manufacturing facilities from Asia.Originality/valueThis paper is one of the earliest research papers examining the Trans-Pacific supply chain, linking China, South Korea with Mexico, Brazil and Chile. The authors also study the impact of FDI on supply chain activities.
Evaluation of non-cost factors affecting the life cycle cost: an exploratory study
Authors: Alqahtani Ayedh , Whyte Andrew 
Published: November 2016

Purpose
This paper aims to identify the main non-cost factors affecting accurate estimation of life cycle cost (LCC) in building projects.

Design/methodology/approach
Ten factors affecting LCC in building project cost estimates are identified through literature and interviews. A questionnaire survey is conducted to rank these factors in order of priority and provide the views of cost practitioners about the significance of these factors in the accurate estimation of LCC. The data from 138 construction building projects completed in UK were collected and analysed via multiple regression to discover the relationship between capital and LCCs and between non-cost factors and cost estimation at each stage of the life cycle (capital, operation, maintenance and LCC).

Findings
The results of analysis of existing LCC data of completing project and survey data from cost professionals are mostly consistent with many literature views and provide a reasonable description of the non-cost factors affecting the accuracy of estimates.

Originality/value
The value of this study is in the method used, which involves analysis of existing life data and survey data from cost professionals. The results provide a plausible description of the non-cost factors affecting the accuracy of estimates.
The role of the architect using integrated contracts for social housing renovation projects
Authors: Salcedo Rahola Tadeo Baldiri , Straub Ad 
Published: November 2016

PurposeThis paper aims to gain more in-depth knowledge in the tendering procedures and organisational typologies of consortia working with integrated contracts for social housing renovation projects and especially in the inherent changes in the role of the architect and his or her relations with the client and consortium members.Design/methodology/approachIn total, 21 Dutch social housing renovation projects using an integrated contract with the involvement of an architect were identified in the period 2005-2013. The study is based on interviews with 13 from 21 architects working in these projects.FindingsThe findings indicate that in the majority of these projects, the architect is contracted by the main contractor rather than by the client, the social housing organisation. The new contractual relationship has no significant effect on the relationship of the architect with the social housing organisation and improves the relationship of the architect with the main contractor, consultants, advisors and other consortium members, such as specialist contractors. The architect switches from the role of designer to that of technical and aesthetic advisor, compared to traditional design-bid-build projects.Research limitations/implicationsThe findings are based on the first experiences of architects working with integrated contracts for social housing renovation projects. Results may be different for other types of projects.Practical implicationsArchitects involved in integrated contracts for housing renovation projects can foresee the implications for their daily work. The study provides useful insights for educational reform to prepare students and practising architects to make the most of the new situation.Originality/valueThe few studies into integrated contracts that refer to the role of the architect have flagged up changes in this role relative to the traditional design-bid-build approach. This study provides in-depth knowledge of the role of the architect in integrated contracts.