bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrated analyses of single-cell RNA-seq public data reveal the gene regulatory network landscape of respiratory epithelial and peripheral immune cells in COVID-19 patients
Authors: Zhang Lin , Nishi Hafumi , Kinoshita Kengo 
Published: March 2023

AbstractIntroductionInfection with SARS-CoV-2 leads to coronavirus disease 2019 (COVID-19), which can result in acute respiratory distress syndrome and multiple organ failure. However, its comprehensive influence on pathological immune responses in the respiratory epithelium and peripheral immune cells is not yet fully understood.MethodsIn this study, we integrated multiple public scRNA-seq datasets of nasopharyngeal swab and peripheral blood results to investigate the gene regulatory networks (GRNs) of healthy individuals and COVID-19 patients with mild/moderate and severe disease, respectively. Similar and dissimilar regulons were identified within or between epithelial and immune cells during COVID-19 severity progression. The relative transcription factors (TFs) and their targets were used to construct GRNs among different infection sites and conditions.ResultsBetween respiratory epithelial and peripheral immune cells, different TFs tended to be used to regulate the activity of a cell between healthy individuals and COVID-19 patients, although they had some TFs in common. For example, XBP1, FOS, STAT1, and STAT2 were activated in both the epithelial and immune cells of virus-infected individuals. In contrast, severe COVID-19 cases exhibited activation of CEBPD in peripheral immune cells, while CEBPB was exclusively activated in respiratory epithelial cells. Moreover, in patients with severe COVID-19, CEBPD upregulated S100A8 and S100A9 in CD14 and CD16 monocytes, while S100A9 genes were co-upregulated by different regulators (SPEDEF and ELF3) in goblet and squamous cells. The cell-cell communication analysis suggested that epidermal growth factor receptor signaling among epithelial cells contributes to mild/moderate disease, and chemokine signaling among immune cells contributes to severe disease.ConclusionsThis study identified cell type- and condition-specific regulons in a wide range of cell types from the initial infection site to the peripheral blood, and clarified the diverse mechanisms of maladaptive responses to SARS-CoV-2 infection.
Availability and utilization of new technologies for prevention and control of healthcare-associated infections
Authors: Veríssimo Pérola Figueiredo , da Silva André Ricardo Araujo 
Published: March 2023

AbstractBackground and AimRecently new technologies have emerged to improve prevention and control of healthcare-associated infections. Our aim is to verify availability and use of new technologies for infection controllers.MethodsWe conducted a survey in infection controllers from the whole state of Rio de Janeiro state, Brazil, by invitation of a social media group, in August 2022. Nine different technologies were evaluated about availability and use. Categoricals and continuous variables were evaluated by the chi-square test and Mann-Whitney U test, respectively. A value of p less than .05 was considered as statistically significant.ResultsOne hundred-eight persons answered the questionnaire. The mean age was 42.8 years (24-64 years) and 53/108 (49.1%) reported most workload in public hospitals, 45/108 (41.7%) in private hospitals and 10/108 (9.2%) reported the same workload in public and private hospitals. Out of 108, 63% reported teaching activities in his institutions. There was no correlation between the existence of teaching activities and hospital profile (p=0.42). The most common new technology available was molecular biology (PCR) for microbiological samples research for 73/108 (67.6%) participants. The second new technology available was APP for HAI prevention and control for 33/108 (30.6%), 19/108 (17.6%) reported availability of none technology.ConclusionMolecular biology (PCR) for microbiological samples research was the most common technology available for infection controllers of an important state of Brazil.
Engineered allostery in light-regulated LOV-Turbo enables precise spatiotemporal control of proximity labeling in living cells
Authors: Lee Song-Yi , Cheah Joleen S. , Zhao Boxuan , Xu Charles , Roh Heegwang , Kim Christina K. , Cho Kelvin F. , Udeshi Namrata D. , Carr Steven A. , Ting Alice Y. 
Published: March 2023

AbstractThe incorporation of light-responsive domains into engineered proteins has enabled control of protein localization, interactions, and function with light. We integrated optogenetic control into proximity labeling (PL), a cornerstone technique for high-resolution proteomic mapping of organelles and interactomes in living cells. Through structure-guided screening and directed evolution, we installed the light-sensitive LOV domain into the PL enzyme TurboID to rapidly and reversibly control its labeling activity with low-power blue light. “LOV-Turbo” works in multiple contexts and dramatically reduces background in biotin-rich environments such as neurons. We used LOV-Turbo for pulse-chase labeling to discover proteins that traffick between endoplasmic reticulum, nuclear, and mitochondrial compartments under cellular stress. We also showed that instead of external light, LOV-Turbo can be activated by BRET from luciferase, enabling interaction-dependent PL. Overall, LOV-Turbo increases the spatial and temporal precision of PL, expanding the scope of experimental questions that can be addressed with PL.
A single C-terminal residue controls SARS-CoV-2 spike trafficking and virion assembly
Authors: Dey Debajit , Qing Enya , He Yanan , Chen Yihong , Jennings Benjamin , Cohn Whitaker , Singh Suruchi , Gakhar Lokesh , Schnicker Nicholas J. , Pierce Brian G. , Whitelegge Julian P. , Doray Balraj , Orban John P. , Gallagher Tom , Hasan S. Saif 
Published: March 2023

ABSTRACTThe spike (S) protein of SARS-CoV-2 is delivered to the virion assembly site in the ER-Golgi Intermediate Compartment (ERGIC) from both the ER and cis-Golgi in infected cells1-3. However, the relevance and modulatory mechanism of this bidirectional trafficking are unclear. Here, using structure-function analyses, we show that S incorporation into virions and viral fusogenicity are determined by coatomer-dependent S delivery from the cis-Golgi and restricted by S-coatomer dissociation. Although S mimicry of the host coatomer-binding dibasic motif ensures retrograde trafficking to the ERGIC, avoidance of the host-like C-terminal acidic residue is critical for S-coatomer dissociation and therefore incorporation into virions or export for cell-cell fusion. Because this C-terminal residue is the key determinant of SARS-CoV-2 assembly and fusogenicity, our work provides a framework for the export of S protein encoded in genetic vaccines for surface display and immune activation.
Sustainable digitalisation and implementation of ISO standards for facilities management
Authors: Lok Ka Leung , van der Pool Ian , Smith Andrew J. , Opoku Alex , Cheung Ka Lam 
Published: March 2023

Purpose
This viewpoint paper aims to discuss sustainable digitalisation of facilities management (FM) through the implementation of the newly recognised International Organization for Standardization (ISO) standards within the ISO 41000 series.

Design/methodology/approach
This viewpoint paper provides a review of the literature of the recent ISO documents and academic study. The content is also dependent on the authors’ opinions and interpretation.

Findings
FM is currently shifting emphasis towards a strategic focus through the adoption of the new recognised international ISO standards that consider sustainable digitalisation in business decisions. However, the FM sector is encountering potential risks to the implementation of the new recognised international ISO standards. Digitalisation is one kind of force that has shaped the management of the built environment and FM recently and rapidly, especially in the Covid-19 period. This is impacting the FM industry. As standardisation aims at establishing a constantly evolving baseline of proven practices, standardisation can be considered a part of sustainable FM. It is believed that standardised and strategic level support is crucial for the smooth adoption of sustainable FM practices and processes. Standards such as the ISO standards, applied to the global FM industry, help in objectively quantifying the added value of FM to the core business. Advanced technology and digitalisation can contribute to the sustainability of any profession and industry, but it also requires a community to tackle the problems.

Originality/value
This paper contributes to the FM industry by making recommendations for improvement in the use of digitalisation. In summary, the significant finding of this viewpoint paper is that digitalisation offers both possibilities and problems in the application of the new recognised international ISO standards within the FM industry.
Explaining IFRS reluctance with case study vignettes
Authors: Hsu Yu-Lin , Reid Gavin C. 
Published: March 2023

PurposeThis study aims to analyze why listed Taiwanese firms uniquely rejected the early adoption of International Financial Reporting Standards (IFRS) in 2012. It investigates the underlying decision-making processes behind this policy reluctance to further understand the continuous phenomenon of rare voluntary IFRS adoption.Design/methodology/approachIt reports on fieldwork evidence obtainedin situby in-depth interviewing in Mandarin. It uses qualitative methods, complemented by quantitative cost-benefit metrics of IFRS adoption. It presents five diverse illustrative case-study vignettes, using a judgment sample based on expert opinion.FindingsWhile the net-benefits of implementing IFRS varied across firms, this study’s unanimous finding was that no firms (in the sample or population) adopted IFRS early, despite stated intentions to the contrary. The key reasons for shunning early IFRS adoption were found to be frequent changes in regulations, insufficient benefits from adopting IFRS and the undermining of comparability across companies, compounded with scarce preparation time. Further, this study found that the Taiwanese accounting regulator’s reluctance toward IFRS adoption, partly caused by a long-standing US influence, contributed to this anomalous outcome.Practical implicationsThis study recommends two critical policy changes: more realistic timelines and less frequent regulatory changes.Originality/valueTo the best of the authors’ knowledge, this is the first study to investigate the reasons behind the anomaly of no early adoption of IFRS in Taiwan, using new primary data and illustrative case studies. Its novelty lies in extending understanding beyond the existing quantitative literature on accounting standards, using new “thick” qualitative evidence on motives for such choices and decision-making processes, which have been neglected in previous work.
Open data-set identifier for open innovation and knowledge management
Authors: Ortiz-de-Urbina-Criado Marta , Abella Alberto , García-Luna Diego 
Published: March 2023

Purpose
This paper aims to highlight the importance of open data and the role that knowledge management and open innovation can play in its identification and use. Open data has great potential to create social and economic value, but its main problem is that it is often not easily reusable. The aim of this paper is to propose a unique identifier for open data-sets that would facilitate search and access to them and help to reduce heterogeneity in the publication of data in open data portals.

Design/methodology/approach
Considering a model of the impact process of open data reuse and based on the digital object identifier system, this paper develops a proposal of a unique identifier for open data-sets called Open Data-set Identifier (OpenDatId).

Findings
This paper presents some examples of the application and advantages of OpenDatId. For example, users can easily consult the available content catalogues, search the data in an automated way and examine the content for reuse. It is also possible to find out where this data comes from, solving the problems caused by the increasingly frequent federation of data in open data portals and enabling the creation of additional services based on open data.

Originality/value
From an integrated perspective of knowledge management and open innovation, this paper presents a new unique identifier for open data-sets (OpenDatId) and a new concept for data-set, the FAIR Open Data-sets.
Doctor sahab: Doctors and the public in the ‘golden era’ of the Indian medical profession
Authors: Kumbhar Kiran 
Published: March 2023

AbstractThis essay analyses and historicises a contemporary dominant narrative among India’s biomedical doctors, that the early post‐independence period (1940s–1970s) was characterised by immense public trust and confidence in the biomedical profession, with the patient‐doctor relationship experiencing a ‘golden era’. By exploring people’s experiences with and perceptions of doctors during these decades, I show that contrary to contemporary understanding, public dissatisfaction with doctors was substantial even in the early post‐independence period. I argue that the dominance of privileged‐caste and ‐class Indians in the medical profession nurtured a caste privilege‐based elitist outlook within the mainstream profession and its leadership and created an insurmountable socioeconomic distance between doctors and the large majority of the public. What doctors deemed as people’s ‘trust’ in them and their profession was often simply a manifestation of people’s general deference towards the elites of the society. This incorrect interpretation of patient‐doctor dynamics in the past has been a constant feature of mainstream narratives around the doctor‐society relationship in post‐independence India and has remained largely under‐explored and under‐historicised in the medical, scholarly and public discourses.
The genetic era of childhood cancer: Identification of high‐risk patients and germline sequencing approaches
Authors: Alonso‐Luna Oscar , Mercado‐Celis Gabriela E , Melendez‐Zajgla Jorge , Zapata‐Tarres Marta , Mendoza‐Caamal Elvia 
Published: March 2023

AbstractChildhood cancer is a leading cause of death by disease in children ages 5–14, for which there are no preventive strategies. Due to early‐age of diagnosis and short period of exposure to environmental factors, increasing evidence suggests childhood cancer could have strong association with germline alterations in predisposition cancer genes but, their frequency and distribution are largely unknown. Several efforts have been made to develop tools to identify children with increased risk of cancer who may benefit from genetic testing but their validation and application on a large scale is necessary. Research on genetic bases of childhood cancer is ongoing, in which several approaches for the identification of genetic variants related to cancer predisposition have been used. In this paper, we discuss the updated efforts, strategies, molecular mechanisms and clinical implications for germline predisposition gene alterations and the characterization of risk variants in childhood cancer.
A de novo low‐frequency mosaic variant of KIF1A causes hereditary spastic paraplegia: A literature review
Authors: Liu Mengyuan , Li Bing , Wang Xiaona , Li Dongxiao , Xie Zhenhua , Li Yuke , Gao Yang , Chen Baiyun , Zhang Huichun , Wang Yanli , Gao Chao 
Published: March 2023

AbstractObjectiveThe objective of this study was to investigate the pathogenesis and inheritance pattern of a Chinese Han family with hereditary spastic paraplegia and to retrospectively analyze the characteristics of KIF1A gene variants and related clinical manifestations.MethodsHigh‐throughput whole‐exome sequencing was performed on members of a Chinese Han family with a clinical diagnosis of hereditary spastic paraplegia, and the sequencing results were validated by Sanger sequencing. Deep high‐throughput sequencing was performed on subjects with suspected mosaic variants. The previously reported pathogenic variant loci of the KIF1A gene with complete data were collected, and the clinical manifestations and characteristics of the pathogenic KIF1A gene variant were analyzed.ResultsA pathogenic heterozygous variant located in the neck coil of the KIF1A gene (c.1139G>C, p.Arg380Pro) was identified in the proband and four additional members of the family. It was derived from the de novo low‐frequency somatic‐gonadal mosaicism of the proband's grandmother and had a rate of 10.95%.InterpretationThis study helps us to better understand the pathogenic mode and characteristics of mosaic variants, and to understand the location and clinical characteristics of pathogenic variants in KIF1A.
HRAS‐related epidermal nevus syndromes: Expansion of the spectrum with first branchial arch defects
Authors: Beyens Aude , Lietaer Charlotte , Claes Kathleen , De Baere Elfride , Goeteyn Marleen , Lerut Bob , Syryn Hannes , Vanakker Olivier , Van der Meulen Joni , Vanwalleghem Lieve , Callewaert Bert 
Published: March 2023

AbstractEpidermal nevus syndrome (ENS) comprises a heterogeneous group of neurocutaneous syndromes associated with the presence of epidermal nevi and variable extracutaneous manifestations. Postzygotic activating HRAS pathogenic variants were previously identified in nevus sebaceous (NS), keratinocytic epidermal nevus (KEN), and different ENS, including Schimmelpenning–Feuerstein–Mims and cutaneous‐skeletal‐hypophosphatasia syndrome (CSHS). Skeletal involvement in HRAS‐related ENS ranges from localized bone dysplasia in association with KEN to fractures and limb deformities in CSHS. We describe the first association of HRAS‐related ENS and auricular atresia, thereby expanding the disease spectrum with first branchial arch defects if affected by the mosaic variant. In addition, this report illustrates the first concurrent presence of verrucous EN, NS, and nevus comedonicus (NC), indicating the possibility of mosaic HRAS variation as an underlying cause of NC. Overall, this report extends the pleiotropy of conditions associated with mosaic pathogenic variants in HRAS affecting ectodermal and mesodermal progenitor cells.
Earnings losses of displaced workers in times of crisis
Authors: Hovhannisyan Nune , Méndez Fabio 
Published: March 2023

AbstractWe utilize data from the 1979 National Longitudinal Survey of Youth and the Bureau of Labor Statistics to study how the earnings losses experienced by displaced workers vary in times of economic crisis. Relative to an economy that operates at full potential, our results show that a 1% increase in the real gross domestic product gap observed at the time of displacement is associated with an additional increase in the estimated earnings losses experienced by displaced workers of approximately 4.3% in the year immediately following displacement, and with similar increases in the estimated losses for up to 5 years after.
The use of parental alienation constructs by family justice system professionals: A survey of belief systems and practice implications
Authors: Kline Pruett Marsha , Johnston Janet R. , Saini Michael , Sullivan Matt , Salem Peter 
Published: March 2023

AbstractParent–child contact problems (PCCP) after separation and divorce are the focus of heated debate in academia and the popular media as to how best to identify, assess and respond to children who resist or refuse time with a parent. Practitioners disagree about the extent to which parental alienation (PA) is a valid and widespread phenomenon versus a legal strategy to counter IPV and child abuse allegations. This study sheds light on prevailing attitudes by surveying the opinions and beliefs of 1049 interdisciplinary family law professionals who deal directly with these matters in practice. These experienced practitioners were confident about their understanding of PCCPs despite little formal instruction on relevant issues. They were less clear about the differentiation between similarly used terms, research evidence, and interventions to address the problems. Emergent themes provide insight into practitioners' beliefs about the harm caused by a parent's alienating behaviors, the extent to which PA is a real phenomenon vs. a litigation strategy, the quality of social science empirical evidence, views of the child in PA cases, and recommended interventions. Responses demonstrate practitioners taking moderate positions that balance competing interests, struggling with ambiguities and contradictions rife in PA cases and PA‐related practice in family law.
Constructing subjects that matter: A case of conditional recognition for Pakistani Khawajasiras
Authors: Awan Muhammad Aqeel , Pianezzi Daniela 
Published: March 2023

AbstractThis paper examines how media discourses on gender and work play a part in regulating the lives of a community of Pakistani gender diverse people, calledKhawajasiras.Developing a critical discourse analysis of media news, we show how this regulatory process results in discursive mechanisms positioning Khawajasiras' work as “dirty” and in need of “respectable” and exclusively “feminine” alternatives. This regulatory process revolves around delegitimizing Khawajasiras' non‐normative work and their gender fluidity in the job market. Khawajasiras' recognition is thus conditional upon their reproduction of a socially heteronormative notion of work and gender. We conclude that this regulatory process not only forecloses possibilities of resignification for this historically disenfranchised community but also risks producing new forms of abjection by enforcing notions of “fake” (with an implicitly assumed notion of “authentic”) Khawajasira. The findings of this paper ultimately problematize contemporary ideals of recognition of non‐normative gendered groups.