bluuebunny/crossref_metadata_2025_split huggingface dataset:
MaCroDNA: Accurate integration of single-cell DNA and RNA data for a deeper understanding of tumor heterogeneity
Authors: Edrisi Mohammadamin , Huang Xiru , Ogilvie Huw A. , Nakhleh Luay 
Published: August 2022

AbstractCancers develop and progress as mutations accumulate, and with the advent of single-cell DNA and RNA sequencing, researchers can observe these mutations, their transcriptomic effects, and predict proteomic changes with remarkable temporal and spatial precision. However, to connect genomic mutations with their transcriptomic and proteomic consequences, cells with either only DNA data or only RNA data must be mapped to a common domain. For this purpose, we present MaCroDNA, a novel method which uses maximum weighted bipartite matching of per-gene read counts from single-cell DNA and RNA-seq data. Using ground truth information from colorectal cancer data, we demonstrate the overwhelming advantage of MaCroDNA over existing methods in accuracy and speed. Exemplifying the utility of single-cell data integration in cancer research, we propose, based on results derived using MaCroDNA, that genomic mutations of large effect size increasingly contribute to differential expression between cells as Barrett’s esophagus progresses to esophageal cancer.
Preference of CAMSAP3 for expanded microtubule lattice contributes to stabilization of the minus end
Authors: Liu Hanjin , Shima Tomohiro 
Published: August 2022

AbstractCAMSAPs are proteins that show microtubule minus-end-specific localization, decoration and stabilization. Although the mechanism for minus-end recognition via their C-terminal CKK domain has been well described in recent studies, it is unclear how CAMSAPs stabilize microtubules. Our several binding assays revealed that D2 region of CAMSAP3 specifically binds to microtubules with the expanded lattice. To investigate the relationship between this preference and the stabilization effect of CAMSAP3, we precisely measured individual microtubule lengths and found that D2-binding expanded the microtubule lattice by ∼3%. Consistent with the notion that the expanded lattice is a common feature of stable microtubules, the presence of D2 slowed the microtubule depolymerization rate to approximately 1/20, suggesting that the D2-triggered lattice expansion stabilizes microtubules. Combining these results, we propose that CAMSAP3 stabilizes microtubules by lattice expansion upon D2-binding, which further accelerates the recruitment of other CAMSAP3 molecules. Since only CAMSAP3 has D2 and the highest microtubule stabilizing effect among mammalian CAMSAPs, our model also explains the molecular basis for the functional diversity of CAMSAP family members.Summary blurbD2 region in CAMSAP3 preferentially bound to expanded microtubule lattices and also induced lattice expansion, explaining the molecular functions of CAMSAP3.
Extending and improving metagenomic taxonomic profiling with uncharacterized species with MetaPhlAn 4
Authors: Blanco-Miguez Aitor , Beghini Francesco , Cumbo Fabio , McIver Lauren J. , Thompson Kelsey N. , Zolfo Moreno , Manghi Paolo , Dubois Leonard , Huang Kun D. , Thomas Andrew Maltez , Piccinno Gianmarco , Piperni Elisa , Punčochář Michal , Valles-Colomer Mireia , Tett Adrian , Giordano Francesca , Davies Richard , Wolf Jonathan , Berry Sarah E. , Spector Tim D. , Franzosa Eric A. , Pasolli Edoardo , Asnicar Francesco , Huttenhower Curtis , Segata Nicola 
Published: August 2022

AbstractMetagenomic assembly enables novel organism discovery from microbial communities, but from most metagenomes it can only capture few abundant organisms. Here, we present a method - MetaPhlAn 4 - to integrate information from both metagenome assemblies and microbial isolate genomes for improved and more comprehensive metagenomic taxonomic profiling. From a curated collection of 1.01M prokaryotic reference and metagenome-assembled genomes, we defined unique marker genes for 26,970 species-level genome bins, 4,992 of them taxonomically unidentified at the species level. MetaPhlAn 4 explains ∼20% more reads in most international human gut microbiomes and >40% in less-characterized environments such as the rumen microbiome, and proved more accurate than available alternatives on synthetic evaluations while also reliably quantifying organisms with no cultured isolates. Application of the method to >24,500 metagenomes highlighted previously undetected species to be strong biomarkers for host conditions and lifestyles in human and mice microbiomes, and showed that even previously uncharacterized species can be genetically profiled at the resolution of single microbial strains. MetaPhlAn 4 thus integrates the novelty of metagenomic assemblies with the sensitivity and fidelity of reference-based analyses, providing efficient metagenomic profiling of uncharacterized species and enabling deeper and more comprehensive microbiome biomarker detection.
Natriuretic peptides increase cGMP around cardiomyocyte mitochondria and protect against apoptosis
Authors: Calamera Gaia , Ndongson-Dongmo Bernadin , Arunthavarajah Dulasi , Ovesen Mette , Kim Choel , Levy Finn Olav , Andressen Kjetil Wessel , Moltzau Lise Román 
Published: August 2022

AbstractNatriuretic peptides (NPs) increase cGMP, show beneficial cardiovascular effects and regulate energy metabolism in other tissues. However, little is known about their direct effect on cardiac mitochondria and cardiomyocyte apoptosis. Here, we examined whether NPs increase cGMP around mitochondria and alter apoptosis in cardiomyocytes. We constructed a novel FRET-based biosensor with high selectivity towards cGMP and found that ANP and CNP increase cGMP at the outer mitochondrial membrane. Moreover, ANP and CNP increased phosphorylation of the pro-apoptotic protein Drp1 and CNP prevented fragmentation of mitochondria. Stimulating cardiomyocytes with ANP or CNP reduced apoptosis, caspase 9 activation and cytochrome c release, suggesting that NPs decrease apoptosis through the intrinsic pathway that involves mitochondria. We suggest that cGMP increase in the outer mitochondrial membrane microdomain that inhibits the pro-apoptotic protein Drp1, leading to reduced mitochondrial fragmentation and thereby reduced apoptosis.
Airway epithelial cells and macrophages trigger IL-6-CD95/CD95L axis and mediate initial immunopathology of COVID-19
Authors: Fraga-Silva Thais F. C. , Cipriano Ualter G. , Fumagalli Marcilio J. , Correa Giseli F. , Fuzo Carlos A. , Mestriner Fabiola L. A. C. , Becari Christiane , Teixeira-Carvalho Andrea , Coelho-dos-Reis Jordana , Menegueti Mayra G. , Figueiredo Luiz T. M. , Martins-Filho Olindo A. , Dias-Baruffi Marcelo , Auxiliadora-Martins Maria , Tostes Rita , Bonato Vania L. D. 
Published: August 2022

AbstractAirway epithelial cells (AEC) are the first in contact with SARS-CoV-2 and drive the interface with macrophage to generate inflammation. To elucidate how those initial events contribute to the immunopathology or to dysregulate the immune response observed in severe and critical COVID-19, we determined the direct and indirect interactions of these cells. AEC lineage (Calu-3) infected with SARS-CoV-2 and epithelial cells (CD45-EpCAM+) from intubated COVID-19 patients showed high expression of CD95L. Infected-Calu-3 cells secreted IL-6, and expressed annexin V and caspase-3, apoptosis markers. The direct interaction of macrophages with sorted apoptotic Calu-3 cells, driven by SARS-CoV-2 infection, resulted in macrophage death and increased expression of CD95, CD95L and CD163. Macrophages exposed to tracheal aspirate supernatants from intubated COVID-19 patients or to recombinant human IL-6 exhibited decreased HLA-DR and increased CD95 and CD163 expression. IL-6 effects on macrophages were prevented by tocilizumab (anti-IL-6 receptor mAb) and Kp7-6 (CD95/CD95L antagonist). Similarly, lung inflammation and death of AEC were decreased in CD95 and IL-6 knockout mice infected with SARS-CoV-2. Our results show that the AEC-macrophage interaction via CD95/CD95L signaling is an initial key step of immunopathology of severe COVID-19 and should be considered as a therapeutic target.Abstract FigureHighlights- SARS-CoV-2-infected airway epithelial cells (AEC) secrete IL-6, express Fas/FasL and undergo apoptosis;- SARS-CoV-2-infected apoptotic AEC induces Fas/FasL expression and death in macrophages;- IL-6 induces IL-1β secretion, reduction of HLA-DR and increase of Fas and CD163 expression in macrophages;- Blockade of IL-6 signaling and Fas/FasL restores the expression of HLA-DR and reduces the expression of Fas and CD163, and secretion of IL-1β on isolated macrophages; in vivo, the deficiency of Fas and IL-6 decreases acute pulmonary inflammation in SARS-CoV-2-infected mice.
Bibliometric analysis on corporate governance topics published in the journal ofCorporate Governance: The International Journal of Business in Society
Authors: Ellili Nejla Ould Daoud 
Published: August 2022

PurposeThis study aims to highlight the current trends in the literature on corporate governance by applying a bibliometric review of papers on corporate governance topics published in the journal ofCorporate Governance: The International Journal of Business Society (Bingley).Design/methodology/approachBibliometric analysis is a quantitative and qualitative approach applied to bibliographic materials that highlights the core theoretical and empirical contributions to a specific research field. This analysis was based on keyword cartography, bibliometric authors’ citation analysis, bibliometric papers’ co-citation analysis, bibliometric references’ co-citation analysis, journals’ co-citation cartography and qualitative content analysis. It reviews 353 articles on corporate governance published in the journal ofCorporate Governance (Bingley). Bibliometric analysis was performed using VOSviewer, and content analysis was performed using WordStat.FindingsThe results identify three major clusters: corporate governance; board of directors; and firm performance. In addition, the results reveal that the journalCorporate Governance (Bingley)has experienced increasingly important growth in research papers on corporate governance topics and citations, reflecting its significant contribution to the corporate governance research field. This study also presents recommendations for future research in this field.Practical implicationsThe findings of this study have implications for corporate governance research, such as the impact of ownership structure and the board of directors on environmental, social and governance disclosure. To the best of the authors’ knowledge, this study is the only one to review the key corporate governance research topics on which papers published in the journal ofCorporate Governance (Bingley)are focused and can be largely used for corporate governance practices.Originality/valueThis study provides an overview of how the literature on corporate governance research has developed, as well as a summary of the most influential authors, along with countries, organizations and journal sources. This offers an opportunity for future research to focus on this topic.
The role of organizational justice and job satisfaction in mitigating turnover intention of emotionally exhausted employees: evidence from Vietnam
Authors: Nguyen Phong Dong , Nguyen Nguyen Phong , Nguyen Lam D. , Le Thu Ha 
Published: August 2022

PurposeThis study examines employee emotional exhaustion and turnover intention as the consequences of problematic customer behaviors and tests the role of perceived organizational justice and job satisfaction in mitigating these consequences.Design/methodology/approachA four-hypothesis model was tested using partial least squares structural equation modeling (PLS-SEM) based on a two-phase survey of 369 frontline services employees in Vietnam with a three-month time lag.FindingsThe study shows that abusive and unreasonably demanding customer behaviors have positive effects on emotional exhaustion, which, in turn, reduces job satisfaction and, subsequently, turnover intention. It also reveals that organizational justice mechanisms attenuate the positive association between emotional exhaustion and turnover intention. Job satisfaction indirectly mitigated the turnover intention of emotionally exhausted employees who had to deal with problematic customer behaviors, especially in the service sector in Vietnam, an emerging market.Originality/valueBuilding upon the social exchange theory (SET) and the conservation of resources theory (COR), this study extended the research on organizational justice with respect to emotional exhaustion in the customer service sector that received less attention previously. Rather than merely focusing on the interpersonal factors (e.g. respect and sensitivity) as organizational support does, organizational justice encompasses employees' perception of fairness of outcome and the whole process in an organization to reach decisions.
Middle ageism: when social climate and perceived employability relate to attitudes and intent to hire middle-aged employees
Authors: Binyamin Galy , Brender-Ilan Yael 
Published: August 2022

PurposeAs the global workforce ages, organizations face unprecedented challenges, especially managing effective communication between generations. The phenomenon of middle ageism (i.e. discriminating against middle-aged employees based on their age) has become more prevalent. The authors examined how contextual settings and communication affect attitudes toward middle-aged employees and hiring intentions.Design/methodology/approachData were collected from 537 employees from various organizations, via questionnaires. The moderated mediation model was analyzed using Hayes' PROCESS models.FindingsResults showed that attitudes toward middle-aged employees mediated the relationship between social climate of shared codes and language and hiring intentions. Social climate was positively related to attitudes toward their adaptability, but negatively to attitudes toward their ability. Also, decision-makers' own perceived employability moderated the relationship between attitudes toward employees' adaptability and hiring intentions, and the indirect relationship between social climate and hiring intentions.Practical implicationsSince age diversity is expected to become one of the most dominant diversity classifications in the very near future, coping with middle ageism constitutes a growing challenge for managers and HR staff. The findings indicate that in order to enhance sustainable employment and prevent discrimination, organizations need not only maintain a supportive climate for older employees, as an affirmative action, but also ensure better communication in terms of sharing codes and language that enhance positive attitudes toward middle-aged colleagues.Originality/valueIn an era where diversity and inclusion dominate human resource management decision making, this study contributes to the literature on the underexplored domain of age diversity.
Boosting engagement with healthy food on social media
Authors: Pancer Ethan , Philp Matthew , Noseworthy Theodore J. 
Published: August 2022

PurposeRecent research has demonstrated that people are more likely to engage with fatty food content online. One way health advocates might facilitate engagement with healthier, calorie-light foods is to alter how people process food media. This research paper aims to investigate the moderating role of viewer mindset on consumer responses to digital food media.Design/methodology/approachTwo experiments were conducted by manipulating the caloric density of food media content and/or one’s mindset before viewing.FindingsResults show that the relationship between nutrition and engagement is moderated by consumer mindset, where activating a more calculative mindset before exposure can elevate social media engagement for calorie-light food media content.Research limitations/implicationsThese findings contribute to the domain of obesogenic digital environments and the role of nutrition in consuming food media. By examining how mindsets interact with affective evaluations, this work demonstrates that a default mindset based on instinct can be shifted and thus alter subsequent behavioral intentions.Practical implicationsThis work provides insight into what can boost the visibility and engagement of healthy food content on social media. Marketers can help promote healthier food media by cueing consumers to think more deliberately before exposure.Originality/valueThis research builds on recent work by demonstrating how to boost engagement with healthy foods on social media by cueing a more thoughtful mindset.
Application of LSTM model optimized by individual-ordering-based adaptive genetic algorithm in stock forecasting
Authors: He Yong , Zeng Xiaohua , Li Huan , Wei Wenhong 
Published: August 2022

PurposeTo improve the accuracy of stock price trend prediction in the field of quantitative financial trading, this paper takes the prediction accuracy as the goal and avoid the enormous number of network structures and hyperparameter adjustments of long-short-term memory (LSTM).Design/methodology/approachIn this paper, an adaptive genetic algorithm based on individual ordering is used to optimize the network structure and hyperparameters of the LSTM neural network automatically.FindingsThe simulation results show that the accuracy of the rise and fall of the stock outperform than the model with LSTM only as well as other machine learning models. Furthermore, the efficiency of parameter adjustment is greatly higher than other hyperparameter optimization methods.Originality/value(1) The AGA-LSTM algorithm is used to input various hyperparameter combinations into genetic algorithm to find the best hyperparameter combination. Compared with other models, it has higher accuracy in predicting the up and down trend of stock prices in the next day. (2) Adopting real coding, elitist preservation and self-adaptive adjustment of crossover and mutation probability based on individual ordering in the part of genetic algorithm, the algorithm is computationally efficient and the results are more likely to converge to the global optimum.
Does investment in energy matter for economic growth? Evidence from BRICS countries
Authors: Tabash Mosab I. , Farooq Umar , Al-Rdaydeh Mahmoud , Al-Faryan Mamdouh Abdulaziz Saleh , El Refae Ghaleb A. 
Published: August 2022

Purpose
This study aims to explore the impact of energy investment on economic growth. Specifically, the study investigates the impact of energy consumption, foreign investment, infrastructure development, tax revenue, human capital, international tourism revenue and trade volume on economic growth.

Design/methodology/approach
To achieve the aim, the authors sample the 24-years (1996–2019) financial statistics of BRICS countries. Given the econometric recommendations supplemented by the Johnsen cointegration test, the current study uses the fully modified ordinary least square model for regression analysis and checks the robustness through robust least square model.

Findings
The statistical analysis shows a direct impact of energy investment on economic growth. In addition, the statistical results indicate a positive impact of energy consumption, foreign investment, infrastructure development, tax revenue, human capital and trade volume on economic growth.

Research limitations/implications
The results present practical implications for policymakers regarding the adequate investment in energy production that can further promote the economic growth in BRICS countries. Policy officials should enhance the volume of renewable energy production, foreign investment and tax revenue. Additionally, it is equally suggested to policymakers regarding the development of infrastructure and human capital to ensure economic growth.

Originality/value
This study supplements the novel and robust evidence on investment in energy-leading economic growth.
Work environment, HR practices and millennial employee retention in hospitality and tourism in Bangladesh
Authors: Islam Md Asadul , Hack-Polay Dieu , Rahman Mahfuzur , Hosen Mosharrof , Hunt Abigail , Shafique Sujana 
Published: August 2022

PurposeThis study examines the relationship between HR practices and millennial employee retention in the tourism industry in Bangladesh. It investigates the moderating role of the work environment in the relationship between HR practices and employee retention in the industry.Design/methodology/approachThe researchers used non-probability judgemental sampling to collect 384 questionnaires through a survey of millennial employees. Partial least square-based structural equation model (PLS-SEM) was used to analyse the data.FindingsThe results reveal that HR practices included in this paper have significant relationships with millennial employee retention in the tourism industry in Bangladesh, except employee participation in decision-making. In addition, the results show that the work environment only moderates the relationship between two HR practices (compensation, training and development) and millennial employee retention.Practical implicationsThe results suggest that managers in tourism organisations must develop HR practices and foster a positive work environment to retain millennials.Originality/valueThis is the only study that examines the moderating role of the work environment on the relationship between five selected HR practices (training and development, job security, performance appraisal, employee participation, compensation) and millennial employee retention. Previous studies used fewer HR variables.
User-centered categorization of mood in fiction
Authors: Cho Hyerim , Lee Wan-Chen , Huang Li-Min , Kohlburn Joseph 
Published: August 2022

PurposeReaders articulate mood in deeply subjective ways, yet the underlying structure of users' understanding of the media they consume has important implications for retrieval and access. User articulations might at first seem too idiosyncratic, but organizing them meaningfully has considerable potential to provide a better searching experience for all involved. The current study develops mood categories inductively for fiction organization and retrieval in information systems.Design/methodology/approachThe authors developed and distributed an open-ended survey to 76 fiction readers to understand their preferences with regard to the affective elements in fiction. From the fiction reader responses, the research team identified 161 mood terms and used them for further categorization.FindingsThe inductive approach resulted in 30 categories, including angry, cozy, dark and nostalgic. Results include three overlapping mood families: Emotion, Tone/Narrative, and Atmosphere/Setting, which in turn relate to structures that connect reader-generated data with conceptual frameworks in previous studies.Originality/valueThe inherent complexity of “mood” should not dissuade researchers from carefully investigating users' preferences in this regard. Adding to the existing efforts of classifying moods conducted by experts, the current study presents mood terms provided by actual end-users when describing different moods in fiction. This study offers a useful roadmap for creating taxonomies for retrieval and description, as well as structures derived from user-provided terms that ultimately have the potential to improve user experience.