bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of Key Regulators in Pancreatic Ductal Adenocarcinoma using Network theoretical Approach
Authors: Bhattacharjee Kankana , Ghosh Aryya 
Published: March 2024

AbstractPancreatic Ductal Adenocarcinoma (PDAC) is a devastating disease with poor clinical outcomes, which is mainly because of delayed disease detection, resistance to chemotherapy, and lack of specific targeted therapies. The disease’s development involves complex interactions among immunological, genetic, and environmental factors, yet its molecular mechanism remains elusive. A major challenge in understanding PDAC etiology lies in unraveling the genetic profiling that governs the PDAC network. To address this, we examined the gene expression profile of PDAC and compared it with that of healthy controls, identifying differentially expressed genes (DEGs). These DEGs formed the basis for constructing the PDAC protein interaction network, and their network topological properties were calculated. It was found that the PDAC network self-organizes into a scale-free fractal state with weakly hierarchical organization. Newman and Girvan’s algorithm (leading eigenvector (LEV) method) of community detection enumerated four communities leading to at least one motif defined by G (3,3). Our analysis revealed 33 key regulators were predominantly enriched in neuroactive ligand-receptor interaction, Cell adhesion molecules, Leukocyte transendothelial migration pathways; positive regulation of cell proliferation, positive regulation of protein kinase B signaling biological functions; G-protein beta-subunit binding, receptor binding molecular functions etc. Transcription Factor and mi-RNA of the key regulators were obtained. Recognizing the therapeutic potential and biomarker significance of PDAC Key regulators, we also identified approved drugs for specific genes. However, it is imperative to subject Key regulators to experimental validation to establish their efficacy in the context of PDAC.
Savanna-forest dynamics: Encroachment speed, model inference and spatial simulations
Authors: Zelnik Yuval R. , Yatat-Djeumen Ivric Valaire , Couteron Pierre 
Published: March 2024

1AbstractForest encroachment over savannas has been recurrently reported in the tropics over the last decades, especially in northern tropical Africa. However, process-based, spatially-explicit modelling of the phenomenon is still trailing broad scale empirical observations. In this paper, we used remotely-sensed diachronic data from Central Cameroon to calibrate a simple reaction-diffusion model, embodying dynamical interactions between grass and woody biomasses in the savanna biome. Landsat satellite image series over the Mpem and Djim National Park witnessed a dramatic extension of forest over the last five decades and our estimates of forest front speeds based on randomly sampled transects indeed yielded higher values (5-7 meters per year) than in the existing literature. We used simulations of the model to provide the first hitherto estimates of woody biomass dispersal coefficients. Since the region under study did not provide examples of savanna progression, estimates of grass dispersal proved inconsistent and we reverted to literature-based historical data to reach rough estimates. This paper demonstrates that broad scale remote sensing data allows for calibrating simple reaction-diffusion models of vegetation dynamics in the savanna biome. Once calibrated, such models become a general baseline of expected changes and a valuable tool to understand how spatial environmental factors (e.g., soil substrate) may locally modulate the overall dynamics.
Structural basis for Retriever-SNX17 assembly and endosomal sorting
Authors: Singla Amika , Boesch Daniel J. , Joyce Fung Ho Yee , Ngoka Chigozie , Enriquez Avery S. , Song Ran , Kramer Daniel A. , Han Yan , Juneja Puneet , Billadeau Daniel D. , Bai Xiaochen , Chen Zhe , Turer Emre E. , Burstein Ezra , Chen Baoyu 
Published: March 2024

AbstractDuring endosomal recycling, Sorting Nexin 17 (SNX17) facilitates the transport of numerous membrane cargo proteins by tethering them to the Retriever complex. Despite its importance, the mechanisms underlying this interaction have remained elusive. Here, we report the structure of the Retriever-SNX17 complex determined using cryogenic electron microscopy (cryo-EM). Our structure reveals that the C-terminal tail of SNX17 engages with a highly conserved interface between the VPS35L and VPS26C subunits of Retriever. Through comprehensive biochemical, cellular, and proteomic analyses, we demonstrate that disrupting this interface impairs the Retriever-SNX17 interaction, subsequently affecting the recycling of SNX17-dependent cargos and altering the composition of the plasma membrane proteome. Intriguingly, we find that the SNX17-binding pocket on Retriever can be utilized by other ligands that share a consensus acidic C-terminal tail motif. By showing how SNX17 is linked to Retriever, our findings uncover a fundamental mechanism underlying endosomal trafficking of critical cargo proteins and reveal a mechanism by which Retriever can engage with other regulatory factors.
Deciphering Immune Complexity: Single-Cell Insights into Autoimmune Myocarditis Progression
Authors: Mamdouh Farag , Abdulsahib Waleed K. , Alshaya Dalal Sulaiman , Fayad Eman , Eid Refaat A. , Alsharif Ghadi , Alshehri Mohammed A. , Otifi Hassan M. , Soltan Mohamed A. , Eldeen Muhammad Alaa 
Published: March 2024

AbstractAutoimmune myocarditis is a complex inflammatory response in the heart caused by abnormal immune system activity. We used modern single-cell technologies to analyze the complex gene expression patterns in autoimmune myocarditis tissue samples during several stages of inflammation: acute, subacute, and chronic. We identified the presence of T cell-monocyte complexes in both control and myocarditis samples from different phases using detailed analysis of vast single-cell RNA sequencing data. These complexes were notably more prevalent throughout the acute and subacute stages. Our investigation of gene ontology revealed their involvement in important processes as signal transduction, immune response control, and T cell proliferation and activation. We conducted a thorough analysis of trajectories, uncovering the step-by-step changes of macrophages into clusters linked to antigen presentation, oxidative stress responses, complement activation, and phagocytosis. Furthermore, our examination of neutrophil paths revealed their development and maturation from the bone marrow to distinct functional stages. Our analysis of cellular communication networks revealed consistent and phase-specific patterns, providing valuable information on how immune responses change as the disease progresses. We noted a substantial increase in BAFF signaling from normal to acute phases, while CHEMERIN signaling was upregulated from acute to chronic phases. The discoveries greatly improve our understanding of autoimmune myocarditis on a molecular level, providing a strong basis for creating personalized precision medicine treatments for each patient.Graphical Abstract
The repetitive genome of theIxodes ricinustick reveals transposable elements have driven genome evolution in ticks
Authors: Ronai Isobel , de Paula Baptista Rodrigo , Paulat Nicole S. , Frederick Julia C. , Azagi Tal , Bakker Julian W. , Dillon Katie C. , Sprong Hein , Ray David A. , Glenn Travis C. 
Published: March 2024

ABSTRACTTicks are obligate blood-feeding parasites associated with a huge diversity of diseases globally. The hard tickIxodes ricinusis the key vector of Lyme borreliosis and tick-borne encephalitis in Western Eurasia.Ixodesticks have large and repetitive genomes that are not yet well characterized. Here we generate two high-qualityI.ricinusgenome assemblies, with haploid genome sizes of approximately 2.15 Gbp. We find transposable elements comprise at least 69% of the twoI. ricinusgenomes, amongst the highest proportions found in animals. The transposable elements in ticks are highly diverse and novel, so we constructed a repeat library for ticks using ourI.ricinusgenomes and the genome ofI.scapularis, another major tick vector of Lyme borreliosis. To understand the impact of transposable elements on tick genomes we compared their accumulation in the twoIxodessister species. We find transposable elements in these two species to be drivers of genome evolution in ticks. TheI.ricinusgenome assemblies and our tick repeat library will be valuable resources for biological insights into this important ectoparasite. Our findings highlight that further research into the impact of transposable elements on the genomes of blood-feeding parasites is required.
Fruit-In-Sight:a deep learning-based framework for secondary metabolite class prediction using fruit and leaf images
Authors: Krishnan Neeraja M , Kumar Saroj , Panda Binay 
Published: March 2024

AbstractFruits produce a wide variety of secondary metabolites of great economic value. Analytical measurement of secondary metabolites is tedious, time-consuming and expensive. Additionally, metabolite concentration varies greatly from tree to tree, making it difficult to choose trees for fruit collection. The current study tested whether deep learning-based models can be developed using fruit and leaf images alone to predict a metabolite’s concentration class (highorlow). We collected fruits and leaves (n = 1045) from neem trees grown in the wild across 0.6 million sq km, imaged those, measured concentration of five metabolites (azadirachtin, deacetyl-salannin, salannin, nimbin and nimbolide) using high-performance liquid chromatography and used those to train deep learning models for metabolite class prediction. The best model out of the seven tested (YOLOv5,GoogLeNet,InceptionNet,EfficientNet_B0,Resnext_50,Resnet18, andSqueezeNet) provided a validationF1score of 0.93 and a testF1score of 0.88. The sensitivity and specificity of the fruit model alone in the test set were 83.52 ± 6.19 and 82.35 ± 5.96 and 79.40 ± 8.50 and 85.64 ± 6.21, for thelowand thehighclass, respectively. The sensitivity was further boosted to 92.67± 5.25 for thelowclass and 88.11 ± 9.17 for thehighclass and the specificity to 100% for both classes, using a multi-analyte framework. We incorporated the model in an Android mobile AppFruit-In-Sightthat uses fruit and leaf images to decide whether to ‘pick’ or ‘not pick’ the fruits from a specific tree based on the metabolite concentration class. Our study provides evidence that images of fruits and leaves alone can predict the concentration class of a secondary metabolite without using extensive analytical laboratory procedures and equipment and makes the process of choosing the right tree for fruit collection easy and free of equipment and additional cost.
Multivalent 28S rRNA Is the Organizer of the Nucleolus’s Multi-layered Architecture
Authors: Wei Jieli , Zhang Yize , Ye Bingcheng , Fan Xueyuan , Hu Yucen , Xiang ShengQi , Ma Weirui 
Published: March 2024

SummaryThe nucleolus widely exists in all eukaryotic species. Throughout evolution, two types of nucleoli have emerged: bipartite, which has two-layered subcompartments, and tripartite, which features three nested sub-compartments: granular component (GC), dense fibrillar component (DFC), and fibrillar center (FC). FC and DFC form a core-shell architecture and are immersed by a large GC. However, factors that mediated the formation of the three-layered architecture remain largely unknown. Here, we discovered that rRNAs have specific localizations within the nucleolus, with 28S rRNA forming assemblies surrounding the DFC. Multivalent interactions of 28S rRNA drove the formation of the hollow shell structure of DFC, which mediated the development of a three-layered structure resembling nucleolar GC-DFC-FC. Moreover, in organisms with a tripartite nucleolus, 28S rRNA has evolved to acquire a higher degree of multivalency. Our data implies that the emergence of multivalency of 28S rRNA facilitates the transition of bipartite to tripartite nucleolus.
Inclusive sponsorship activation and gender equity in sports: the case of orange company
Authors: Marceau Pascale , Pons Frank 
Published: March 2024

PurposeThis study aims to identify the determining factors of perceived altruism and attitude toward an inclusive sponsorship activation, as well as the impact of these variables on the attitude toward the sponsor.Design/methodology/approachOnline survey data were obtained from 1,228 respondents from France, the UK and South Africa. The data were analyzed using partial least squares structural equation modeling (PLS-SEM).FindingsThe results show that the cause-brand fit has a strong positive impact on the perceived altruism toward the motivations underlying inclusive activation, while skepticism toward advertising has a very weak negative impact. In return, perceived altruism positively influences the attitude toward inclusive activation and sponsor attitude. Furthermore, this attitude toward inclusive activation is positively influenced by involvement in women’s soccer and France men’s national football team identification. The attitude toward inclusive activation also positively influences the attitude toward sponsor attitude. However, contrary to what had been advanced, identification with the France women’s national football team and the nationality of the respondents (French, British or South African) had no impact on the attitude toward inclusive activation, while the perceived importance of the cause had very weak impact on attitudes toward inclusive activation.Originality/valueThis study highlights the potential benefits of investing in inclusive sponsorship activations, particularly with respect to their positive impact on consumer attitude toward sponsor attitude. It also highlights the importance of establishing, in advance, a strong association between the brand image and the cause supported, so that the motivations underlying the inclusive activations are perceived as more altruistic.
How institutional disruptions impact the choice of MNC subsidiary control systems
Authors: Elango B. 
Published: March 2024

PurposeThis study seeks to explicate how institutional disruptions impact multinational corporation (MNC) subsidiary control choices. It uses institutional theory to understand the influence of formal and informal institutions across countries on the type of control system employed in an MNC manufacturing subsidiary.Design/methodology/approachThis study’s sample is based on a unique dataset from five trustworthy sources. We use multi-level models to account for the hierarchical nature of the sample of 1,630 multinational subsidiaries spread across 26 host countries by firms from 21 home countries.FindingsThe institutional distance between the host and the home country has a negative relationship with strategic control. In contrast, the home country’s power distance has a positive relationship with strategic control.Originality/valueStudy findings indicate the need to incorporate formal and informal institutional elements in the control system’s conceptual framing and design. This notion complements existing visualizations of optimizing MNC controls through extant articulations of minimizing governance costs through organizational design choices or strategic needs.
Analysing the interplay of isomorphic pressures, perceived benefits and top management support on social responsibility performance of Belt and Road megaprojects
Authors: Alqershy Mohammed Taha , Shi Qian , Anbar Diana R. 
Published: March 2024

PurposeThis study aims to investigate the factors influencing the social responsibility performance of Belt and Road Initiative (BRI) megaprojects. Specifically, it examines the role of isomorphic pressures and the joint influence of perceived benefits and top management support on megaproject social responsibility performance (MSRP).Design/methodology/approachDrawing from institutional theory, social exchange theory, and top management literature, this study established a conceptual model featuring eleven hypotheses. Subsequently, a questionnaire survey was administered to collect data from 238 actively engaged participants in BRI megaprojects. Structural Equation Modelling was utilised to analyse the data.FindingsThe empirical findings indicate that mimetic and coercive pressures positively influence MSRP. Perceived benefits and top management support significantly enhance MSRP. Moreover, perceived benefits and top management support partially mediate the effects of coercive and mimetic pressures. However, when it comes to normative pressures, their impact on MSRP is solely channelled through the support of top management.Originality/valueThis study is one of the early endeavours to explore the factors influencing the social responsibility performance of BRI megaprojects. It sheds light on the interplay between external pressures and internal factors in shaping social responsibility efforts in these projects. These findings are of particular significance for BRI actors and stakeholders, offering guidance for enhancing social responsibility strategies within the context of BRI megaprojects.
Implementing Data Workflows and Data Model Extensions with RDF-star
Authors: Rupp Florian , Schnabel Benjamin , Eckert Kai 
Published: March 2024

Purpose
The purpose of this work is to explore the new possibilities enabled by the recent introduction of RDF-star, an extension that allows for statements about statements within the Resource Description Framework (RDF). Alongside Named Graphs, this approach offers opportunities to leverage a meta-level for data modeling and data applications.

Design/methodology/approach
In this extended paper, the authors build onto three modeling use cases published in a previous paper: (1) provide provenance information, (2) maintain backwards compatibility for existing models, and (3) reduce the complexity of a data model. The authors present two scenarios where they implement the use of the meta-level to extend a data model with meta-information.

Findings
The authors present three abstract patterns for actively using the meta-level in data modeling. The authors showcase the implementation of the meta-level through two scenarios from our research project: (1) the authors introduce a workflow for triple annotation that uses the meta-level to enable users to comment on individual statements, such as for reporting errors or adding supplementary information. (2) The authors demonstrate how adding meta-information to a data model can accommodate highly specialized data while maintaining the simplicity of the underlying model.

Practical implications
Through the formulation of data modeling patterns with RDF-star and the demonstration of their application in two scenarios, the authors advocate for data modelers to embrace the meta-level.

Originality/value
With RDF-star being a very new extension to RDF, to the best of the authors’ knowledge, they are among the first to relate it to other meta-level approaches and demonstrate its application in real-world scenarios.
ESG performance and disclosure quality: does a well-balanced board of directors matter when impression management occurs?
Authors: Hamza Sourour , Jarboui Anis 
Published: March 2024

PurposeThis paper explores how the disclosure quality, measured by the abnormal tone of environmental and social report, may determine the environmental, social and corporate governance (ESG) performance of the firm. This study also investigates the impact of the moderator “board of directors” to explore the extent to which a well-balanced board of directors may affect this association within an impression management strategy.Design/methodology/approachThis work uses a sample of 616 firm-year observations using a sample of French firms indexed on SBF120 index from 2010 to 2017. To test the developed hypotheses, the GLS regression is applied and to control for endogeneity issue and sample selection bias, the authors used, respectively, the two stage least square (2SLS) procedure and the Heckman model.FindingsFindings suggest that a well-balanced board of directors moderates the relationship between the ESG performance and the disclosure quality. The positive effect of abnormal tone management on ESG is weakened by the presence of a good structure of the board, attenuating impression management initiatives.Research limitations/implicationsThe research provides evidence of the impact of corporate social responsibility (CSR) reporting quality, in particular disclosure tone management, on the level of ESG performance in the French context. As the board of directors may have a major impact on weakening impression management strategies in particular tone management practices, in order to improve CSR report quality, the authors recommend French companies to ensure a well-balanced board of directors.Originality/valueThis study helps investors to comprehensively evaluate the information disclosed on CSR reports. It unveils that a strong board composition induces better quality of CSR report and brings better ESG performance. Thus, the study results point to the importance of a well-balanced board of directors and the regulation of the narrative disclosure of CSR information.
Can gamified e-service quality improve customer value co-creation and relationship quality in e-retailing?
Authors: Tabaeeian Reihaneh Alsadat , Mohammad Shafiee Majid , Ansari Azarnoush 
Published: March 2024

Purpose
This paper aims to investigate the effect of gamified e-service quality (GE-SQ) on customer value co-creation, relationship quality and purchase intention in e-retailing.

Design/methodology/approach
A questionnaire was used to collect data from a sample of 549 e-retailing customers who participated in a gamified online service process. A structural equation modeling approach was adopted to analyze the model.

Findings
The empirical evidence confirmed that GE-SQ encouraged customer value co-creation behavior and relationship quality. Customer value co-creation and relationship quality led to higher purchase intention. Also, value co-creation and relationship quality partially mediated the relationship between GE-SQ and purchase intention.

Originality/value
The findings increase our knowledge of GE-SQ and its behavioral consequences. Moreover, the study proposes and validates a theoretical framework based on GE-SQ, value co-creation and customer relationship quality. This study provides insight into using gamification as a practical tool in the e-retailing industry.