bluuebunny/crossref_metadata_2025_split huggingface dataset:
Gene Regulatory Cross Networks: Inferring Gene Level Cell-to-Cell Communications of Immune Cells
Authors: Altay Gokmen , Peters Bjoern 
Published: September 2018

AbstractBackgroundGene level cell-to-cell communications are crucial part of biology as they may be potential targets of drugs and vaccines against a disease condition of interest. Yet, there are only few studies that propose algorithms on this particularly important research field.ResultsIn this study, we first overview the current literature and define two general terms for the types of approaches in general for gene level cell-to-cell communications: Gene Regulatory Cross Networks (GRCN) and Gene Co-Expression Cross Networks (GCCN). We then propose two algorithms for each type, named as GRCNone and GCCNone. We applied them to reveal communications among 8 different immune cell types and evaluate their performances mainly via membrane protein database. Also, we show the biological relevance of the predicted cross-networks with pathway enrichment analysis. We then provide an approach that prioritize the targets by ranking them before experimental validations.ConclusionsWe establish two main approaches and propose algorithms for genome-wide scale gene level cell-to-cell communications between any two different cell-types. This study aims accelerating this relatively new avenue of research in cross-networks and points out the gap of it with the well-established single cell type gene networks. The proposed algorithms have the potential to reveal gene level interactions between normal and disease cell types. For instance, they might reveal the interaction of genes between tumor and normal cells, which are the potential drug-targets and thus can help finding new cures that might prevent the prevailing of tumor cells.
Tension suppresses Aurora B kinase-triggered release of reconstituted kinetochore-microtubule attachments
Authors: de Regt Anna K. , Clark Cordell J. , Asbury Charles L. , Biggins Sue 
Published: September 2018

SummaryChromosome segregation requires kinetochores to attach to microtubules from opposite spindle poles. Proper attachments come under tension and are stabilized, but defective attachments lacking tension are released, giving another chance for correct attachments to form. This error correction process requires the Aurora B kinase, which phosphorylates kinetochores to destabilize microtubule attachments. However, the mechanism by which Aurora B can distinguish kinetochore tension remains unclear because it is difficult to detect kinase-triggered detachment and manipulate kinetochore tension in vivo. To address these challenges, we developed an optical trapping-based flow assay with soluble Aurora B and reconstituted kinetochore-microtubule attachments. Strikingly, we found that tension on these attachments suppressed their Aurora B-triggered release, suggesting that tension-dependent changes in the conformation of kinetochores can regulate Aurora B activity or its outcome. Our work uncovers the basis for a key mechano-regulatory event that ensures accurate segregation and may inform studies of other mechanically regulated enzymes.
High prevalence of neurocognitive disorders observed among adult people living with HIV/AIDS in Southern Ethiopia: a cross-sectional study
Authors: Animut Megbaru Debalkie , Sorrie Muluken Bekele , Workneh Yinager , Teshale Manaye yihune 
Published: September 2018

AbstractBackgroundComprehensive care given to people living with HIV/AIDS is improving from time to time; however, their concurrent cognitive illness is still ignored, under screened and treated particularly in developing countries. And this problem is also striking in Ethiopia. Therefore, the objective of this study was to assess HIV-associated neurocognitive disorders and associated factors among adult people living with HIV/AIDS.MethodsAn institution based cross sectional study was conducted in Gamo Gofa zone public Hospitals from April to May, 2017. The systematic random sampling technique was used to select a total of 697 people living with HIV/AIDS. Data was collected using structured interviewer administered questionnaire and International HIV Dementia Scale was used to screen HIV-associated neurocognitive deficits. Data was entered using Epidata version 3.1 and analyzed using SPSS version 20. Both bivariable and multivariable logistic regression analyses were performed to identify associated factors. A P value 0.05 with 95% confidence level was used to declare statistical significance.ResultA total of 684 study participants were included with a 98 % response rate. From the total participants, 56% were females while 44% were males. The mean (±SD) age of the participants was 38.8±8.8years.The prevalence of HIV-associated neurocognitive disorder was 67.1% (95%CI; 63.6, 70.5). The multivariable logistic analysis indicated that body mass index 16 kg/m2 (AOR 4.149 (1.512-11.387)), being married (AOR 0.9 (0.604-0.623), unemployment (AOR 5.930 (3.013-11.670) and being in WHO clinical stage T3 category (AOR 2.870 (1.098-7.500) were the key predictors of HIV-associated neurocognitive disorders among people living with HIV/AIDS.ConclusionIn this study the prevalence of HIV-associated neurocognitive disorder is higher than the earlier reports in Ethiopia and Africa. The associated factors also vary from that of earlier studies. This indicates the need for formulating preventive mental health programs and policies for people living with HIV/AIDS.
Identification of a Distinct Metabolomic Subtype of Sporadic ALS Patients
Authors: Chen Qiuying , Sandhu Davinder , Konrad Csaba , Roychoudhury Dipa , Schwartz Benjamin I. , Cheng Roger R. , Bredvik Kirsten , Kawamata Hibiki , Calder Elizabeth L. , Studer Lorenz , Fischer Steven. M. , Manfredi Giovanni , Gross Steven. S. 
Published: September 2018

AbstractSporadic amyotrophic lateral sclerosis (sALS) is a progressive motor neuron disease resulting in paralysis and death. Genes responsible for familial ALS have been identified, however the molecular basis for sALS is unknown. To discover metabotypic biomarkers that inform on disease etiology, untargeted metabolite profiling was performed on 77 patient-derived dermal fibroblast lines and 45 age/sex-matched controls. Surprisingly, 25% of sALS lines showed upregulated methionine-derived homocysteine, channeled to cysteine and glutathione (GSH). Stable isotope tracing of [U-13C]-glucose showed activation of the trans-sulfuration pathway, associated with accelerated glucose flux into the TCA cycle, glutamate, GSH, alanine, aspartate, acylcarnitines and nucleotide phosphates. A four-molecule support vector machine model distinguished the sALS subtype from controls with 97.5% accuracy. Plasma metabolite profiling identified increased taurine as a hallmark metabolite for this sALS subset, suggesting systemic perturbation of cysteine metabolism. Furthermore, integrated multiomics (mRNAs/microRNAs/metabolites) identified the super-trans-sulfuration pathway as a top hit for the sALS subtype. We conclude that sALS can be stratified into distinct metabotypes, providing for future development of personalized therapies that offer new hope to sufferers.
Stem cell mitotic drive ensures asymmetric epigenetic inheritance
Authors: Ranjan Rajesh , Snedeker Jonathan , Chen Xin 
Published: September 2018

SUMMARYThrough the process of symmetric cell division, one mother cell gives rise to two identical daughter cells. Many stem cells utilize asymmetric cell division (ACD) to produce a self-renewed stem cell and a differentiating daughter cell. Since both daughter cells inherit the identical genetic information during ACD, a crucial question concerns how non-genic factors could be inherited differentially to establish distinct cell fates. It has been hypothesized that epigenetic differences at sister centromeres could contribute to biased sister chromatid attachment and segregation. However, directin vivoevidence has never been shown. Here, we report that a stem cell-specific ‘mitotic drive’ ensures biased sister chromatid attachment and segregation. We have found during stem cell ACD, sister centromeres become asymmetrically enriched with proteins involved in centromere specification and kinetochore function. Furthermore, we show that that temporally asymmetric microtubule activities direct polarized nuclear envelope breakdown, allowing for the preferential recognition and attachment of microtubules to asymmetric sister kinetochores and sister centromeres. This communication occurs in a spatiotemporally regulated manner. Abolishment of either the establishment of asymmetric sister centromeres or the asymmetric microtubule emanation results in randomized sister chromatid segregation, which leads to stem cell loss. Our results demonstrate that thecis-asymmetry at sister centromeres tightly coordinates with thetrans-asymmetry from the mitotic machinery to allow for differential attachment and segregation of genetically identical yet epigenetically distinct sister chromatids. Together, these results provide the first directin vivomechanisms for partitioning epigenetically distinct sister chromatids in asymmetrically dividing stem cells, which opens a new direction to study how this mechanism could be used in other developmental contexts to achieve distinct cell fates through mitosis.One Sentence SummaryDuringDrosophilamale germline stem cell asymmetric division, sister centromeres communicate with spindle microtubules for differential attachment and segregation of sister chromatids.
Drug-induced increase in lysobisphosphatidic acid reduces the cholesterol overload in Niemann-Pick type C cells and mice
Authors: Moreau Dimitri , Vacca Fabrizio , Vossio Stefania , Scott Cameron , Colaco Alexandria , Montoya Jonathan Paz , Ferguson Charles , Damme Markus , Moniatte Marc , Parton Robert G. , Platt Frances M. , Gruenberg Jean 
Published: September 2018

ABSTRACTMost cells acquire cholesterol by endocytosis of circulating LDLs. After cholesteryl ester de-esterification in endosomes, free cholesterol is redistributed to intracellular membranes via unclear mechanisms. Our previous work suggested that the unconventional phospholipid lysobisphosphatidic acid (LBPA) may play a role in modulating the cholesterol flux through endosomes. In this study, we used the Prestwick library of FDA-approved compounds in a high content, image-based screen of the endosomal lipids, lysobisphosphatidic acid and LDL-derived cholesterol. We report that thioperamide maleate, an inverse agonist of the histamine H3 receptor HRH3, increases highly selectively the levels of lysobisphosphatidic acid, without affecting any endosomal protein or function that we tested. Our data also show that thioperamide significantly reduces the endosome cholesterol overload in fibroblasts from patients with the cholesterol storage disorder Niemann-Pick type C (NPC), as well as in liver ofNpc1−/−mice. We conclude that LBPA controls endosomal cholesterol mobilization and export to cellular destinations, perhaps by fluidifying or buffering cholesterol in endosomal membranes, and that thioperamide has repurposing potential for the treatment of NPC.
Reciprocal space mapping and strain scanning using X-ray diffraction microscopy
Authors: Poulsen H. F. , Cook P. K. , Leemreize H. , Pedersen A. F. , Yildirim C. , Kutsal M. , Jakobsen A. C. , Trujillo J. X. , Ormstrup J. , Detlefs C. 
Published: September 2018

Dark-field X-ray microscopy is a new full-field imaging technique for nondestructively mapping the structure of deeply embedded crystalline elements in three dimensions. Placing an objective in the diffracted beam generates a magnified projection image of a local volume. By placing a detector in the back focal plane, high-resolution reciprocal space maps are generated for the local volume. Geometrical optics is used to provide analytical expressions for the resolution and range of the reciprocal space maps and the associated field of view in the sample plane. To understand the effects of coherence a comparison is made with wavefront simulations using the fractional Fourier transform. Reciprocal space mapping is demonstrated experimentally at an X-ray energy of 15.6 keV. The resolution function exhibits suppressed streaks and an FWHM resolution in all directions of ΔQ/Q = 4 × 10−5 or better. It is demonstrated by simulations that scanning a square aperture in the back focal plane enables strain mapping with no loss in resolution to be combined with a spatial resolution of 100 nm.
The airbus A320 family fan cowl door safety modification: a human factors scenario analysis
Authors: Kourousis Kyriakos I. , Chatzi Anna V. , Giannopoulos Ioannis K. 
Published: September 2018

Purpose
The Airbus A320 family engine fan cowl doors (FCDs) safety issue is known to the industry for almost 18 years; however, it has not been addressed adequately by the aircraft manufacturer and the various operators and regulating authorities. The purpose of this paper is to examine in a systematic way the possible operational and safety implications of a new modification on the engine FCDs.

Design/methodology/approach
An array of error-prone scenarios is presented and analysed under the prism of human factors in a non-exhaustive qualitative scenario analysis.

Findings
All examined scenarios are considered more or less probable. A number of accident prevention solutions are proposed for each of the scenario examined, in view of the acceptance and implementation of this modification by operators.

Research limitations/implications
As these scenarios are neither exhaustive nor have been tested/validated in actual aircraft maintenance practice, the further analysis is necessary. A substantial follow-up survey should take place, which should include a wider array of scenarios. This would allow obtaining the necessary data for a quantitative (statistical) analysis.

Practical implications
This case study identifies issues in relation to this modification, introduced by Airbus and the European Aviation Safety Agency (EASA), which may prove problematic from the point of view of safety effectiveness and disruption of operations.

Originality/value
This case study examines a long-standing aviation safety issue and the implications of a solution proposed by the aircraft manufacturer and adopted by EASA. This can be useful in increasing the awareness around these issues and highlight the importance of a human-centric and scenario-based design of engineering modifications towards minimising error in aircraft technical operations.
Nature of construction project cultures in the public sector: case studies in Sri Lanka
Authors: Samaraweera Aparna , Senaratne Sepani , Sandanayake Y.G. 
Published: September 2018

Purpose
Cultural differences cause conflicts amongst construction project participants, deterring the success of projects. Understanding such different cultural manifestations could help the removal of the misunderstandings amongst sub-cultural groups and removal of formal irrationalities deterring the progress of construction projects. The purpose of this paper is to explore the nature of project cultures in the public sector construction projects.

Design/methodology/approach
An exploratory case study was selected as the research strategy to achieve the research aim. Three public sector building construction projects were used as case studies. Nine semi-structured interviews and observation of two progress review meetings per case were used for data collection.

Findings
As per the research findings, contractors believed that construction project culture emerged and transferred through continuous interactions and socialisations with time. Consultants believed that culture was emerged focusing on clearly defined project objectives. In addition, all members assumed that project members at high authority levels were contributing more for the emergence and transfer of cultural aspects. Levels of culture and power existed within the public sector project culture as clients with the highest power, consultants the next and contractors with the least power. Public sector project culture was not leader centred. Shared behavioural norms were not much popular in project culture. Highly differentiated behavioural norms, demonstrating clear professional sub-cultures for the client, contractor and consultant, were available.

Originality/value
The research findings are helpful to construction project managers to enhance the level of motivation, productivity, commitment, continuous interactions and socialisations of project participants and to avoid any negative outcomes in behaviours.
Figuring the pecking order
Authors: Bettany Shona M. , Kerrane Ben 
Published: September 2018

PurposeUsing the family activity of hobby stock-keeping (“petstock”) as a context, this paper aims to extend singularization theory to model the negotiations, agencies and resistances of children, parents and petstock, as they work through how animals become food within the boundaries of the family home. In doing so, the authors present an articulation of this process, deciphering the cultural biographies of petstock and leading to an understanding of the emergent array of child animal food-product preferences.Design/methodology/approachData were collected from petstock-keeping parents through a mixture of ethnographic, in-depth interviewing and netnographic engagements in this qualitative, interpretive study; with parents offering experiential insights into animal meat and food-product socialization behaviours played out within the family environments.FindingsThe findings discuss the range of parental behaviours, motivations and activities vis-à-vis petstock, and their children’s responses, ranging from transgression to full compliance, in terms of eating home-raised animal food-products. The discussion illustrates that in the context of petstock, a precocious child food preference agency towards animal meat and food products is reported to emerge.Research limitations/implicationsThis research has empirical and theoretical implications for the understanding of the development of child food preference agency vis-à-vis animal food products in the context of family petstock keeping.Practical implicationsThe research has the potential to inform policy makers around child education and food in regard to how child food preferences emerge and can inform marketers developing food-based communications aimed at children and parents.Originality/valueTwo original contributions are presented: an analysis of the under-researched area of how children’s food preferences towards eating animal food products develop, taking a positive child food-choice agency perspective, and a novel extension of singularization theory, theorizing the radical transformation, from animal to food, encountered by children in the petstock context.
Women’s financial planning for retirement
Authors: Kumar Satish , Tomar Sweta , Verma Deepak 
Published: September 2018

PurposeThe purpose of this paper is to examine the status of the research on women’s financial planning for retirement. This paper provides a brief review of the work carried out so far along with a conceptual framework of factors influencing women’s retirement financial planning. In addition, it lists significant gaps and recommends avenues for future research.Design/methodology/approachThe review is based on 151 articles appearing in various peer-reviewed journals published during 1980–2017. The study establishes its prominence by studying the publication activities based on the year of publication and region, citation analysis, research designs, data analysis techniques and findings from the selected articles.FindingsMost of the literature on women’s financial planning for retirement indicates a lack of financial management amongst women and their susceptibility to poverty in postretirement years. The majority of the research works in this field have taken place in developed economies. Empirical research with regression-based models for analysis is the most popular research design. This review also highlights the significant determinants of women’s retirement financial planning as identified through literature. These include socio-demographic factors, psychological constructs, financial literacy, economic and circumstantial forces.Originality/valueThis paper covers the research works done in this area in the past 38 years. To the best of authors’ knowledge, this is the first attempt to provide a systematic and comprehensive compilation of the knowledge in this subject. It further synthesizes the findings of various studies on factors influencing women’s retirement financial planning and gives recommendations for future studies.
Navigating institutional challenges in Mexico
Authors: Estrada-Robles Mariana , Williams Nick , Vorley Tim 
Published: September 2018

PurposeFocusing on the family as the central unit of analysis, the purpose of this paper is to examine how entrepreneurial families, with more than one owner/entrepreneur, utilise social capital in a challenging institutional environment.Design/methodology/approachThe empirical focus of this paper is the institutional context of Mexico and how it impacts on entrepreneurial families and their access to social capital. The authors employ an in-depth qualitative approach to understand entrepreneurs’ perspective as being part of an entrepreneurial family. A total of 36 semi-structured interviews were conducted with multiple respondents of each entrepreneurial family.FindingsThis study shows that social capital allows members in the entrepreneurial family to access a wider pool of resources to utilise to benefit their ventures, while also helping them to operate in a challenging institutional environment. It also illustrates how social capital is used to overcome institutional asymmetries.Originality/valueThis paper contributes to research by examining the links between institutions and entrepreneurial families through a focus on social capital. It provides a nuanced understanding of how the entrepreneurial family serves as an intermediary through which social capital gives family members access to resources and capabilities to enable their pursuit of entrepreneurial endeavours and overcome the institutional challenges they face in Mexico.
A multi-layer framework for quality of context in ubiquitous context-aware systems
Authors: Al-Shargabi Asma Abdul Ghani , Siewe Francois 
Published: September 2018

PurposeThis paper aims to introduce a comprehensive framework for quality of context in pervasive context-aware systems. The framework includes the context quality characteristics, the quality policy, the quality calculation methods and the quality control algorithm.Design/methodology/approachThis study used the constructive research method to introduce the framework. The data of a context-aware flooding prediction system to evaluate the approach were used.FindingsThe framework improves the quality of captured context by resolving the missing, error context and the context conflicts using the quality characteristics and quality control process that are introduced in the framework.Originality/valueThis work is original. It is based on the author’s PhD work in De Montfort University.