bluuebunny/crossref_metadata_2025_split huggingface dataset:
Chromatin access regulates the formation of Müller glia-derived progenitor cells in the retina
Authors: Campbell Warren A. , El-Hodiri Heithem M. , Torres Diego , Hawthorn Evan C. , Kelly Lisa E. , Volkov Leo , Akanonu David , Fischer Andy J. 
Published: June 2022

AbstractChromatin access and epigenetic control over gene expression play important roles in regulating developmental processes. However, little is known about how chromatin access and epigenetic gene silencing influence mature glial cells and retinal regeneration. Herein we investigate the expression and functions of S-Adenosylhomocysteine Hydrolase (SAHH; AHCY) and Histone Methyltransferases (HMTs) during the formation of Müller glia-derived progenitor cells (MGPCs) in the chick and mouse retinas. In chick, AHCY, AHCYL1, AHCYL2 and many different HMTs are dynamically expressed by MG and MGPCs in damaged retinas. Inhibition of SAHH reduced levels of H3K27me3 and potently blocks the formation of proliferating MGPCs. By using a combination of single cell RNA-seq and single cell ATAC-seq, we find significant changes in gene expression and chromatin access in MG with SAHH inhibition and NMDA-treatment; many of these genes are associated with glial and neuronal differentiation. A strong correlation across gene expression, chromatin access, and transcription factor motif access in MG was observed for transcription factors known to covey glial identity and promote retinal development. By comparison, in the mouse retina, inhibition of SAHH has no influence on the formation of neuron-like cells from Ascl1-overexpressing MG. We conclude that in the chick, but not the mouse, the activity of SAHH and HMTs are required for the reprogramming of MG into MGPCs by regulating chromatin access to transcription factors associated with glial differentiation and retinal development.
Pop-in: the inversion of pop-out for a feature dimension during visual search in area V4 of the monkey cortex
Authors: Klink P. Christiaan , Teeuwen Rob R.M. , Lorteije Jeannette A.M. , Roelfsema Pieter R. 
Published: June 2022

AbstractDuring visual search, it is important to reduce the interference of distracting objects in the scene. The neuronal responses elicited by the search target stimulus are typically enhanced. However, it is equally important to suppress the representations of distracting stimuli, especially if they are salient and capture attention. We trained monkeys to make an eye movement to a unique ‘pop-out’ shape stimulus among an array of distracting stimuli. One of these distractors had a salient color that varied across trials and differed from the color of the other stimuli, causing it to also pop-out. The monkeys were able to select the pop-out shape target with high accuracy and actively avoided the pop-out color distractor. This behavioral pattern was reflected in the activity of neurons in area V4. Responses to the shape targets were enhanced, while the activity evoked by the pop-out color distractor was only briefly enhanced, directly followed by a sustained period of pronounced suppression. These behavioral and neuronal results demonstrate a cortical selection mechanism that rapidly inverts a pop-out signal to ‘pop-in’ for an entire feature dimension thereby facilitating goal-directed visual search in the presence of salient distractors.Significance statementGoal-directed behaviors like visual search involve both the selection of behaviorally relevant targets and the suppression of task-irrelevant distractors. This is especially important if distractors are salient and capture attention. Here we demonstrate that non-human primates suppress a salient color distractor while searching for a target that is defined by shape, i.e. another feature dimension. The neuronal activity of V4 neurons revealed the temporal evolution of target selection and distractor suppression. The neuronal responses elicited by the pop-out target stimuli were enhanced whereas responses elicited by salient pop-out color distractors were suppressed, after an initial brief phase of response enhancement. Our results reveal a ‘pop-in’ mechanism by which the visual cortex inverts an attentional capture signal into suppression to facilitate visual search.
Neurons in the postrhinal cortex encode nonspatial context during visual biconditional discrimination
Authors: Heimer-McGinn Victoria R. , Trettel Sean G. , Kent Brendon , Singh Maya A. , Burwell Rebecca D. 
Published: June 2022

SummarySpatial context, or the physical surroundings that form the background of an experience, is an essential component of episodic memory. The rodent postrhinal cortex and its primate homolog, the parahippocampal cortex, are thought to preferentially process visuospatial information to represent the spatial features of contexts and scenes. In this study, we addressed open questions about postrhinal function and about how context modulates behavior and cognition. The first question was whether the postrhinal cortex also represents nonspatial contexts. The second question was how representations of context might interact with other cues in the environment. We recorded postrhinal neurons as rats performed a visual nonspatial biconditional discrimination task in which the pattern on the floor determined which object in a pair was correct. Critically, this task design allowed dissociation of location from non-spatial context. We found that postrhinal ensembles and neurons signaled changes in non-spatial context and coded for conjunctions of non-spatial context and objects. Importantly, postrhinal neurons coded for conjunctions of context and objects more often than they coded for conjunctions of location and object. The pattern of findings suggests that postrhinal representations of context may behave like occasion setters by modulating the meaning of other cues in the environment.
SARS-CoV-2 vaccine breakthrough by Omicron and Delta variants: comparative assessments with New York State genomic surveillance data
Authors: Keyel Alexander C. , Russell Alexis , Plitnick Jonathan , Rowlands Jemma V. , Rosenberg Eli , Lamson Daryl M. , McDonough Kathleen A. , George Kirsten St. 
Published: June 2022

AbstractBackgroundRecently emerged variants of SARS-CoV-2 have shown greater potential to cause vaccine breakthrough infections.MethodsA matched cohort analysis used a genomic sequence dataset linked with demographic and vaccination information from New York State (NYS). Two sets of conditional logistic regression analyses were performed, one during the emergence of Delta and another during the emergence of Omicron. For each set, cases were defined as individuals with the emerging lineage, and controls were individuals infected with any other lineage. The adjusted associations of vaccination status, vaccine type, time since vaccination, and age with lineage were assessed using odds ratios (OR) and 95% confidence intervals (CI).ResultsFully vaccinated status (OR: 3, 95% CI: 2.0 - 4.9) and Boosted status (OR 6.7, 95% CI: 3.4 – 13.0) were significantly associated with having the Omicron lineage during the Omicron emergence period. Risk of Omicron infection relative to Delta generally decreased with increasing age (OR: 0.964, 95% CI 0.950 – 0.978). The Delta emergence analysis had low statistical power for the observed effect size.ConclusionsVaccines offered less protection against Omicron, thereby increasing the number of potential hosts for the emerging variant.Lay SummaryThere are different variants, or types, of the virus that causes COVID-19. These variants may differ in their ability to infect a person, cause severe disease, or evade vaccine protection. From previous studies, we know that vaccines provide substantial protection against the original COVID-19 virus. In this study, we wanted to know how some of the new variants compare to one another in this regard. We found that the Omicron variant could break through vaccine protection more effectively than the Delta variant. The data suggested that Delta may be better able to break through vaccines compared to previous variants, including Alpha, but our sample sizes were low, so this pattern was not statistically significant.Individuals with a booster shot had much stronger protection against Delta compared to their protection against Omicron. We also found that younger people were more likely to be infected with Omicron than Delta.
Evaluation and analysis of digital language archives development platforms: a parametric approach
Authors: Bharti Sneha , Singh Ranjeet Kumar 
Published: June 2022

Purpose
While the obstacles of archiving endangered languages are significant, the question of which platform is best for building a digital language archive is constantly present. The purpose of this study is to evaluate and analyse digital language archives development platforms, such as content management systems (CMSs), digital repositories and archival collections management systems (ACMSs) using parameters that have been specified. The authors selected Mukurtu CMS, which is based on Drupal CMS; DSpace as the digital repository software; and ArchivesSpace as an ACMS in this study.

Design/methodology/approach
The current research is supported by a study of the literature and a detailed exploration of different systems used to develop digital language archives. The whole research is carried out in three steps: literature searching; identification of relevant literature; and parameter identification, exploration of tools and data reporting and analysis.

Findings
Following the technical and feature analysis of these tools, it can be concluded that they are more or less comparable, as well as constantly evolving, updating and having a bigger community base. It may be determined that DSpace is the most popular platform, but the other two, particularly ArchivesSpaces, are fierce competitors.

Research limitations/implications
This study outlines the technical prerequisites for creating a digital language archive, which will be useful to IT personnel working on these projects. The research is also useful for tool developers as it allows them to incorporate missing functionality and technical standards by comparing them to alternatives. The parameters established in this study can be used for similar studies in other domains, as well as for evaluating existing digital language archives.

Practical implications
The findings of this study have broad practical implications, and they can assist archivists, linguists, language communities and library and information science professionals in choosing an appropriate platform for building a digital language archive.

Originality/value
This study finds that there is relatively little effort made towards reviewing digital language archiving and the systems that are used to do it; thus, this study is carried out to assess and analyse digital language archive creation systems based on defined parameters. The parameters were discovered through a combination of the available literature and tool discovery. Using a parametric approach to evaluate tools yields unique insights and quickly reveals system flaws.
Configurations of financing instruments for supply chain cost reduction: evidence from Chinese manufacturing companies
Authors: Li Lixu , Wang Zhiqiang , Zhao Xiande 
Published: June 2022

PurposeAlthough supply chain finance (SCF) aims to optimize capital flows in the supply chain process, its effectiveness in improving cost performance remains controversial. From the perspective of efficiency motives, this study aims to explore how the combinations of SCF solutions and traditional financing instruments lead to supply chain cost reduction.Design/methodology/approachA mixed-method approach is used in this study. First, using the fuzzy-set qualitative comparative analysis (fsQCA), the authors analyze 405 survey data across four industries in China and identify the configurations of financing instruments for supply chain cost reduction. Second, to better understand the reasons behind each configuration, the authors conduct the content analysis on the interview data composed of 24 Chinese companies.FindingsThe authors find that the effectiveness of SCF solutions for supply chain cost reduction is related to the focal company's use of traditional financing instruments. Moreover, compared with guaranteed financing, companies that use credit financing are more likely to adopt SCF solutions to achieve supply chain cost reduction. Finally, the effectiveness of SCF solutions in reducing supply chain costs varies greatly across industries.Practical implicationsThe study’s findings provide insights for policymakers and SCF practitioners in the aspects of simplifying the SCF application.Originality/valueThis study contributes to the current literature by addressing the theory–practice gap related to SCF. The study also provides new understandings of factors related to supply chain cost reduction, as well as factors that influence SCF adoption.
Portfolio diversification impact of oil and asymmetric interaction between oil, equity and bonds in the global market: fresh evidence from alternative approaches
Authors: Hatemi-J Abdulnasser , Roca Eduardo , Mustafa Alan 
Published: June 2022

PurposeIn addition to the seminal approach of Markowitz (1952) that is based on finding the optimal budget shares for minimizing risk, the authors also make use of the approach developed by Hatemi-J and El-Khatib (2015), which is built on finding the weights as budget shares for maximizing the risk-adjusted return of the underlying portfolio. For testing the stability of the portfolio benefits, the asymmetric interaction between oil, equity and bonds is tested.Design/methodology/approachOil is a major investment commodity. The literature shows mixed results regarding oils' ability to provide diversification benefits. This paper re-examines this issue by applying a new portfolio optimization approach.FindingsThe authors find that oil still yields portfolio diversification benefits; contrary to the traditional Markowitz portfolio approach, the asymmetric causality test results show that oil does not cause bonds for either positive or negative changes; however, oil does cause stocks but only for stocks' negative changes. Hence, oil can still make the returns of a portfolio of stocks and bonds unstable through oil's effect on stocks.Originality/valueThis is the first attempt to investigate the potential portfolio diversification benefits of stocks, bonds and oil by using the combination of risk and return explicitly in the optimization problem. The new insights provided by this article might be valuable to the investors, financial institutions and policy makers.
The primacy of corporate brand trust for new market entrants
Authors: Mal Carmen Iuliana , Davies Gary 
Published: June 2022

Purpose
The purpose of this paper is to test if the order in which potential customers receive company related information and product related information about a new brand can influence their trust and purchase intentions towards that brand. The empirical context is when both product and company are new to a market and share a brand name.

Design/methodology/approach
Two experiments, each involving a different product type, are used to test whether higher trust and purchase intentions towards a new brand are likely when company related information is provided first compared to when product related information is provided first.

Findings
Company related information is more diagnostic than product related information and carries more weight in initial consumer trust judgements particularly when it is evaluated first. There is a similar primacy effect on purchase intentions but one mediated by initial trust. The effect is more pronounced for product types that involve a higher perceived risk when buying.

Research limitations/implications
This paper adds to our understanding of the respective roles of corporate and product communication in the process of brand trust formation for newly launched brands by evidencing and explaining primacy effects related to the greater diagnosticity of corporate brand information.

Practical implications
Market entrants should communicate information about their company before promoting their products.

Originality/value
While prior work has shown that both company and product related information can influence customers’ trust towards a new brand, there has been no assessment of the benefits from ordering these communications. The focus here is then on the processes involved in brand trust formation, rather than on identifying specific antecedents of brand trust.
Enrichment Mechanism and Prospects of Deep Oil and Gas
Authors: HAO Fang 
Published: June 2022

AbstractWith the deepening of oil and gas exploration, the importance of depth is increasingly highlighted. The risk of preservation of storage space in deep reservoirs is greater than that in shallow and medium layers. Deep layers mean older strata, more complex structural evolution and more complex hydrocarbon accumulation processes, and even adjustment and transformation of oil and gas reservoirs. This paper systematically investigates the current status and research progress of deep oil and gas exploration around the world and looks forward to the future research focus of deep oil and gas. In the deep, especially the ultra‐deep layers, carbonate reservoirs play a more important role than clastic rocks. Karst, fault‐karst and dolomite reservoirs are the main types of deep and ultra‐deep reservoirs. The common feature of most deep large and medium‐sized oil and gas reservoirs is that they formed in the early with shallow depth. Fault activity and evolution of trap highs are the main ways to cause physical adjustment of oil and gas reservoirs. Crude oil cracking and thermochemical sulfate reduction (TSR) are the main chemical modification effects in the reservoir. Large‐scale high‐quality dolomite reservoirs is the main direction of deep oil and gas exploration. Accurate identification of oil and gas charging, adjustment and reformation processes is the key to understanding deep oil and gas distribution. High‐precision detection technology and high‐precision dating technology are an important guarantee for deep oil and gas research.
The Role of Seal and Source Rocks in Fluid‐rock Interactions and their Reservoir Effects within the Carbonate Deep Burial Realm
Authors: LI Jie , CAI Zhongxian 
Published: June 2022

AbstractDiscoveries of deep high‐quality carbonate reservoirs challenged the general understanding on the evolution of porosity decreasing with depth. New mechanisms of pore generation and preservation in the deep realm require to be proposed. Dolostones in the Feixianguan and Dengying Formations experienced maximum depths in excess of 8000 m, but still retained high porosity. Petrographic observation and homogenization temperatures help to identify products of deep fluid‐rock interactions, visual and experimental porosity were used to quantify reservoir effects, the distribution of products finally being plotted to unravel the mechanisms. Th data reveal that thermochemical sulfate reduction (TSR), burial dissolution and quartz cementation are typical deep fluid‐rock interactions. The SO42– of residual porewater sourced from the evaporative dolomitizing fluid was supplied for TSR in the hydrocarbon column, the TSR‐inducing calcite cements were homogeneously dispersed in the hydrocarbon column. Quartz cementation was caused by the increasing acidity and Si‐rich residual porewater in the oil column. Burial dissolution is forced by organic acid and limited in oil–water contact. This study suggests that seal and source rocks not only play important roles in hydrocarbon accumulation, but also have a general control on the deep fluid‐rock interactions and porosity evolution in the deep burial realm.
Meta‐analysis: risk of hepatitis C virus infection associated with hospital‐based invasive procedures
Authors: Henriot Paul , Castry Mathieu , Luong Nguyen Liem Binh , Shimakawa Yusuke , Jean Kévin , Temime Laura 
Published: June 2022

SummaryBackgroundHealthcare settings, where invasive procedures are frequently performed, may play an important role in the transmission dynamics of blood‐borne pathogens when compliance with infection control precautions is suboptimal.AimsTo understand and quantify the role of hospital‐based invasive procedures on hepatitis C virus (HCV) transmission.MethodsWe conducted a systematic review and meta‐analysis to identify recent studies reporting association measures of HCV infection risk that are linked to iatrogenic procedures. Based on expert opinion, invasive procedures were categorised into 10 groups for which pooled measures were calculated. Finally, the relationship between pooled measures and the country‐level HCV prevalence or the Healthcare Access and Quality (HAQ) index was assessed by meta‐regression.ResultsWe included 71 studies in the analysis. The most frequently evaluated procedures were blood transfusion (66 measures) and surgery (43 measures). The pooled odds ratio (OR) of HCV infection varied widely, ranging from 1.46 (95% confidence interval: 1.14–1.88) for dental procedures to 3.22 (1.7–6.11) for transplantation. The OR for blood transfusion was higher for transfusions performed before 1998 (3.77, 2.42–5.88) than for those without a specified/recent date (2.20, 1.77–2.75). In procedure‐specific analyses, the HCV infection risk was significantly negatively associated with the HAQ for endoscopy and positively associated with HCV prevalence for endoscopy and surgery.ConclusionsVarious invasive procedures were significantly associated with HCV infection. Our results provide a ranking of procedures in terms of HCV risk that may be used for prioritisation of infection control interventions, especially in high HCV prevalence settings.
GATA2 deficiency and MDS/AML: Experimental strategies for disease modelling and future therapeutic prospects
Authors: Kotmayer Lili , Romero‐Moya Damia , Marin‐Bejar Oskar , Kozyra Emilia , Català Albert , Bigas Anna , Wlodarski Marcin W. , Bödör Csaba , Giorgetti Alessandra 
Published: June 2022

SummaryThe importance of predisposition to leukaemia in clinical practice is being increasingly recognized. This is emphasized by the establishment of a novel WHO disease category in 2016 called “myeloid neoplasms with germline predisposition”. A major syndrome within this group is GATA2 deficiency, a heterogeneous immunodeficiency syndrome with a very high lifetime risk to develop myelodysplastic syndrome (MDS) and acute myeloid leukaemia (AML). GATA2 deficiency has been identified as the most common hereditary cause of MDS in adolescents with monosomy 7. Allogenic haematopoietic stem cell transplantation is the only curative option; however, chances of survival decrease with progression of immunodeficiency and MDS evolution. Penetrance and expressivity within families carrying GATA2 mutations is often variable, suggesting that co‐operating extrinsic events are required to trigger the disease. Predictive tools are lacking, and intrafamilial heterogeneity is poorly understood; hence there is a clear unmet medical need. On behalf of the ERAPerMed GATA2 HuMo consortium, in this review we describe the genetic, clinical, and biological aspects of familial GATA2‐related MDS, highlighting the importance of developing robust disease preclinical models to improve early detection and clinical decision‐making of GATA2 carriers.