bluuebunny/crossref_metadata_2025_split huggingface dataset:
ReadItAndKeep: rapid decontamination of SARS-CoV-2 sequencing reads
Authors: Hunt Martin , Swann Jeremy , Constantinides Bede , Fowler Philip W , Iqbal Zamin 
Published: January 2022

AbstractSummaryViral sequence data from clinical samples frequently contain human contamination, which must be removed prior to sharing for legal and ethical reasons. To enable host read removal for SARS-CoV-2 sequencing data on low-specification laptops, we developed ReadItAndKeep, a fast lightweight tool for Illumina and nanopore data that only keeps reads matching the SARS-CoV-2 genome. Peak RAM usage is typically below 10MB, and runtime less than one minute. We show that by excluding the polyA tail from the viral reference, ReadItAndKeep prevents bleed-through of human reads, whereas mapping to the human genome lets some reads escape. We believe our test approach (including all possible reads from the human genome, human samples from each of the 26 populations in the 1000 genomes data, and a diverse set of SARS-CoV-2 genomes) will also be useful for others.Availability and implementationReadItAndKeep is implemented in C++, released under the MIT license, and available from https://github.com/GenomePathogenAnalysisService/read-it-and-keep.
A proxy measure of striatal dopamine predicts individual differences in temporal precision
Authors: Sadibolova Renata , Monaldi Luna , Terhune Devin B. 
Published: January 2022

AbstractThe perception of time is characterized by pronounced variability across individuals, with implications for a diverse array of psychological functions. The neurocognitive sources of this variability are poorly understood but accumulating evidence suggests a role for inter-individual differences in striatal dopamine levels. Here we present a pre-registered study that tested the predictions that spontaneous eye blink rates, which provide a proxy measure of striatal dopamine availability, would be associated with aberrant interval timing (lower temporal precision or overestimation bias). Neurotypical adults (N=69) underwent resting state eye tracking and completed visual psychophysical interval timing and control tasks. Elevated spontaneous eye blink rates were associated with poorer temporal precision but not with inter-individual differences in perceived duration or performance on the control task. These results signify a role for striatal dopamine in variability in human time perception and can help explain deficient temporal precision in psychiatric populations characterized by elevated dopamine levels.
Mediating role of manufacturing strategy in the competitive strategy and firm performance: evidence from SMEs
Authors: Kharub Manjeet , Mor Rahul S. , Rana Sudhir 
Published: January 2022

PurposeThis paper examines the mediating role of manufacturing strategies in the relationship between competitive strategies and firm performance.Design/methodology/approachThis study gathered 250 responses from firms in a developing country's key manufacturing sectors, including mechanical, electronics, automotive, textile and food. First, descriptive statistics were applied to fix outliers like respondent biases, missing values and normality issues. Second, exploratory factors analysis (EFA) ensured data adequacy and homogeneity through Kaiser–Meyer–Olkin (KMO) and Bartlett tests. Finally, confirmatory factors analysis (CFA) was used to identify the interactions (direct, indirect and total effects) between latent variables representing manufacturing strategies (quality, cost, delivery and flexibility), competitive strategies (cost-leadership and differentiation) and firms' performance (sales growth and profitability). In total, two structural equation modelling (SEM) models (SEM-I, SEM-II) were created to test the hypotheses.FindingsOf the 40 items identified by the literature review, four were outliers, and three could not satisfy the EFA criteria (eigenvalue >1). Only 33 items could therefore reach CFA. SEM–I and SEM-II study results found no direct relationship between competitive strategies and firm performance (−0.03 = β = 0.08;p > 0.05). However, the findings revealed that cost-leadership could be an appropriate strategic choice and improved firms' performance if the quality and delivery are focussed (0.20 = β = 0.87;p < 0.001). While competitive strategies impact manufacturing strategies positively, the latter is only a mediator between the cost-leadership strategy and the firms' performance.Originality/valueThis research shows that the cost-leadership approach currently seems viable; however, flexibility and cost requirements were not satisfied due to infeasible product differentiation. These results will be beneficial to executives interested in investing in India's industries.
Effects of word-related factors on first and second language English readers’ incidental acquisition of vocabulary through reading an authentic novel
Authors: Reynolds Barry Lee , Ding Chen 
Published: January 2022

Purpose
The purpose of this study was to investigate the effects of word-related factors (i.e. frequency, range, dispersion and cognateness) on first-language English (L1E) readers' (n = 20) and second-language English (L2E) readers' (n = 20) incidental acquisition of vocabulary through the reading of an authentic novel.

Design/methodology/approach
Participants read A Clockwork Orange by Anthony Burgess, a 58,686 token (word) English language novel containing Slovos, that is, words from Nadsat, a futuristic, foreignized teen talk invented by Burgess. Upon finishing the novel, the participants took two unexpected vocabulary tests, one for meaning recognition and the other for meaning recall.

Findings
The results of this study indicate that word-related factors significantly correlate with the word meaning recall test scores of both groups. However, the regression models of meaning recall for the two groups showed that dispersion was the most robust predictor, which implies that the participants recalled more word meanings when the novel had a more even distribution of the unknown target words. The meaning recognition test scores showed cognates were a significant predictor for the L1E readers but not for L2E readers.

Originality/value
This study marks the first attempt in the field to investigate the relative contribution of frequency, range and dispersion – a closely bound set of word-related factors – to both L1E and L2E readers' incidental acquisition of vocabulary through reading an authentic novel. Considering the important role of dispersion, the current study suggests that developers of graded readers and children's literature should more evenly distribute unknown target words in their books. Doing so will better facilitate both L1E and L2E readers' acquisition of those words. The study also addresses a fallacy of methodology regarding incidental vocabulary acquisition by examining the effect of the cognateness of the foreignized words embedded in A Clockwork Orange. The L1E readers' sensitivity to cognates implies that cognate-word awareness-raising activities are necessary to learning a foreign language, especially if that language has many cognates in common with English, such as Spanish.
Classification of disordered patient’s voice by using pervasive computational algorithms
Authors: Maddali Anil Kumar , Khan Habibulla 
Published: January 2022

Purpose
Currently, the design, technological features of voices, and their analysis of various applications are being simulated with the requirement to communicate at a greater distance or more discreetly. The purpose of this study is to explore how voices and their analyses are used in modern literature to generate a variety of solutions, of which only a few successful models exist.

Design/methodology
The mel-frequency cepstral coefficient (MFCC), average magnitude difference function, cepstrum analysis and other voice characteristics are effectively modeled and implemented using mathematical modeling with variable weights parametric for each algorithm, which can be used with or without noises. Improvising the design characteristics and their weights with different supervised algorithms that regulate the design model simulation.

Findings
Different data models have been influenced by the parametric range and solution analysis in different space parameters, such as frequency or time model, with features such as without, with and after noise reduction. The frequency response of the current design can be analyzed through the Windowing techniques.

Original value
A new model and its implementation scenario with pervasive computational algorithms’ (PCA) (such as the hybrid PCA with AdaBoost (HPCA), PCA with bag of features and improved PCA with bag of features) relating the different features such as MFCC, power spectrum, pitch, Window techniques, etc. are calculated using the HPCA. The features are accumulated on the matrix formulations and govern the design feature comparison and its feature classification for improved performance parameters, as mentioned in the results.
Countering corruption in the context of digitalisation: criminal and criminological aspects
Authors: Serebrennikova Anna , Minyazeva Tatiana , Dobryakov Denis , Shiyаn Valentina , Afanasieva Olga 
Published: January 2022

Purpose
In today’s world, the prevention and detection of corruption offences are becoming increasingly important. The most important tasks are to create an intolerant public attitude towards this phenomenon, to monitor it in dynamics and to develop new ways of combating it, responding to the development and improvement of criminal techniques. The purpose of this paper is to study the practice of introducing e-customs, the possible prospects related to the creation of an intellectual customs office.

Design/methodology/approach
An analytical method was used, including the study of scientific literature and publications, current legislation, statistics, customs plans and practices and foreign experience.

Findings
It is indicated that the variability of the nature and methods of committing crimes in the context of the Fourth Industrial Revolution makes it appropriate to formulate corruption as a formal offence.

Practical implications
This study may be of use to students and academics, as well as practitioners in customs, law enforcement agencies and legislative bodies.

Originality/value
Suggestions have been made to improve approaches to planning work towards digitalisation in the customs sector, in terms of analysing and considering the potential for corruption-proneness and anti-corruption potential of innovations, exploring the use of blockchain for conducting procedures, maintaining registers and other record-keeping systems.
Cultivating organizational attraction: a resource view on psychological contracts of career development among interns
Authors: Cao Yinyin , Lee Junghyun , Waung Marie 
Published: January 2022

PurposeThe purpose of this study is to examine the relationship between psychological contracts and subsequent internship outcomes, with a specific focus on employer obligations with regard to career development. The study also examines the potential moderating role of person–organization (P–O) fit.Design/methodology/approachOnline surveys were administered to 196 college students both prior to and upon completing their summer internships. Moderated mediation analyses were performed following Hayes (2018).FindingsThe results show that employer fulfillment of career development is positively associated with organizational attractiveness, as mediated by intern skill acquisition. In addition, high levels of P-O fit ameliorated low developmental situations, with high P-O fit resulting in stronger attraction to the organization than low P-O fit.Practical implicationsThe study underlines the importance of career development and the associated attainment of instrumental resources in the psychological contract process between organizations and interns. For the former, the provision of career development may increase interns' attraction to the organization. For interns, such opportunities can enhance skill acquisition, with differential effects for those with high and low P-O fit.Originality/valueThis study is the first to provide an empirical assessment of the instrumental outcomes of psychological contract fulfillment with regard to career development prior to formal organizational entry. It further sheds light on the interactive effect of skill acquisition and P-O fit in predicting individual perceptions of the organization.
Investigation of suitable material and adhesion promoter combinations for fused filament fabrication on flexible silicone build plates
Authors: Herzog Thomas , Schnell Georg , Tille Carsten , Seitz Hermann 
Published: January 2022

Purpose
The extension of the vacuum-assisted multipoint moulding (VAMM) technology to a broader field of geometries makes it necessary to extend it with attachments to the enhanced vacuum-assisted multipoint moulding with additive attachments (EMMA) technology. Therefore, it is necessary to build additive manufactured attachments on a curved silicone surface by fused filament fabrication (FFF). The main challenge of FFF on a silicone-made build plate is the adhesion of the part on the build plate. Hence, the purpose of this paper is to find suitable and reliably manufacturable material and adhesion promoter combinations for the use of the FFF on silicone build plates.

Design/methodology/approach
The combinations of seven different filaments and four adhesion promoters were investigated with an experimental study. Therefore, four different specimen geometries were built with the different combinations and tested in a tensile test, and some of the specimens were analysed with a confocal laser scanning microscope (CLSM).

Findings
This study proves that the FFF on unheated silicone building plates is possible for several material combinations. As a filament material, polylactide can reliably be manufactured with all of the investigated adhesion promoters on the silicone build plate. Thereby, the highest adhesion strengths were achieved with an adhesive foil as an adhesion promoter, whereas the glue stick is the most appropriate solution. The investigations with the CLSM showed that there are large differences in the manifestation of the first layer depending on the adhesion promoter used.

Originality/value
To the best of the authors’ knowledge, this study is the first to demonstrate the manufacturing of FFF-made attachments on silicone build plates for the EMMA process. This paper provides measurement data on the build plate adhesion of the attachments on silicone-made build plates.
Foliar herbivory on plants creates soil legacy effects that impact future insect herbivore growth via changes in plant community biomass allocation
Authors: Heinen Robin , Thakur Madhav P. , Hiddes De Fries Jetske R. , Steinauer Katja , Vandenbrande Simon , Jongen Renske , Bezemer T. Martijn 
Published: January 2022

ABSTRACT

Plants leave legacy effects in the soil they grow in, which can drive important vegetation processes, including productivity, community dynamics and species turnover. Plants at the same time also face continuous pressure posed by insect herbivores. Given the intimate interactions between plants and herbivores in ecosystems, plant identity and herbivory are likely to interactively shape soil legacies. However, the mechanisms that drive such legacy effects on future generations of plants and associated herbivores are little known.

In a greenhouse study, we exposed 10 common grasses and non‐leguminous forbs individually to insect herbivory by two closely related noctuid caterpillars, Mamestra brassicae and Trichoplusia ni (Lepidoptera: Noctuidae) or kept them free of herbivores. We then used the soil legacies created by these plant individuals to grow a plant community composed of all 10 plant species in each soil and exposed these plant communities to M. brassicae. We measured conditioning plant biomass, soil respiration and chemistry of the conditioned soils, as well as individual plant, plant community and herbivore biomass responses.

At the end of the conditioning phase, soils with herbivore legacies had higher soil respiration, but only significantly so for M. brassicae. Herbivore legacies had minimal impacts on community productivity. However, path models reveal that herbivore‐induced soil legacies affected responding herbivores through changes in plant community shoot: root ratios. Soil legacy effect patterns differed between functional groups. We found strong plant species and functional group‐specific effects on soil respiration parameters, which in turn led to plant community shifts in grass: forb biomass ratios. Soil legacies were negative for the growth of plants of the same functional group.

Synthesis. We show that insect herbivory, plant species and their functional groups, all incur soil microbial responses that lead to subtle (herbivory) or strong (plants and their functional group) effects in response plant communities and associated polyphagous herbivores. Hence, even though typically ignored, our study emphasizes that legacies of previous insect herbivory in the soil can influence current soil–plant–insect community interactions.

A free Plain Language Summary can be found within the Supporting Information of this article.
Sucrose selectively regulates Streptococcus mutans polysaccharide by GcrR
Authors: Zhang Hongyu , Xia Mengying , Zhang Bin , Zhang Yue , Chen Hong , Deng Yalan , Yang Yingming , Lei Lei , Hu Tao 
Published: January 2022

SummaryStreptococcus mutans (S. mutans) is the principal etiological agent in cariogenesis because of its ability to metabolize sucrose into extracellular polysaccharides (EPS). The response regulators GcrR and VicR could regulate EPS metabolism, but with opposing regulatory functions. However, the cooperative interactions between gcrR and vicR regulating sucrose‐selective EPS metabolism have not been fully elucidated. First, we constructed several dual‐mutant strains (vicR + gcrR+, vicR and gcrR overexpression; vicR + gcrR‐, vicR overexpression and gcrR deficient; ASvicRgcrR+, vicR low‐expression and gcrR overexpression; ASvicRgcrR−, vicR low‐expression and gcrR deficient) to clarify gtfB/gtfC expression levels were modulated by gcrR regardless of the vicR gene expression levels. Next, we found gcrR deletion mutant (SmugcrR) displayed obvious auto‐aggregation and bacterial cells were densely packed in enriched EPS induced by sucrose. In the contrast, SmugcrR biofilm showed very little carbohydrate‐dependent aggregation in the absence of sucrose. The presence of sucrose amplifies the negative regulation of gcrR acting as a ‘switch‐off’. After sucrose induction, dexA gene expression was significantly enhanced in gcrR overexpression mutant (SmugcrR+). Furthermore, GcrR was shown to directly bind to the promoter region of the dexA gene. Taken together, our results reveal that GcrR interacts with VicR to block EPS biosynthesis via polysaccharide digestion by DexA, and that this process is induced in a sucrose‐selective manner. Hence, targeting GcrR is a potential strategy for the management of dental caries.
Understanding the association between frequent emergency department use and jail incarceration: A cross‐sectional analysis
Authors: Eswaran Vidya , Raven Maria C. , Wang Ralph C. , Cawley Caroline , Izenberg Jacob M. , Kanzaria Hemal K. 
Published: January 2022

AbstractBackgroundFrequent emergency department (ED) use and incarceration can be driven by underlying structural factors and social needs. If frequent ED users are at increased risk for incarceration, ED‐based interventions could be developed to mitigate this risk. The objective of this study was to determine whether frequent ED use is associated with incarceration.MethodsWe conducted a retrospective cross‐sectional study of 46,752 individuals in San Francisco Department of Public Health's interagency, integrated Coordinated Care Management System (CCMS) during fiscal year 2018–2019. The primary exposure was frequency of ED visits, and the primary outcome was presence of any county jail incarceration during the study period. We performed descriptive and multivariable analysis to determine the association between the frequency of ED use and jail encounters.ResultsThe percentage of those with at least one episode of incarceration during the study period increased with increasing ED visit frequency. Unadjusted odds of incarceration increased with ED use frequency: odds ratio (OR) = 2.14 (95% confidence interval [CI] = 1.94–2.35) for infrequent use, OR = 4.98 (95% CI = 4.43–5.60) for those with frequent ED use, and OR = 12.33 (95% CI = 9.59–15.86) for those with super‐frequent ED use. After adjustment for observable confounders, the odds of incarceration for those with super‐frequent ED use remained elevated at 2.57 (95% CI = 1.94–3.41). Of those with super‐frequent ED use and at least one jail encounter, 18% were seen in an ED within 30 days after release from jail and 25% were seen in an ED within 30 days prior to arrest.ConclusionsFrequent ED use is independently associated with incarceration. The ED may be a site for intervention to prevent incarceration among frequent ED users by addressing unmet social needs.
Posttraumatic stress disorder symptoms after respiratory and cardiovascular emergencies predict risk of hospital readmission: A prospective cohort study
Authors: Kovalsky Danielle , Roberts Michael B. , Freeze Brian , Moss Jeena , Jones Christopher W. , Kilgannon Hope , Edmondson Donald E. , Trzeciak Stephen , Fuller Brian M. , Roberts Brian W. 
Published: January 2022

AbstractBackgroundTwenty‐five percent of patients presenting to the emergency department (ED) for a respiratory or cardiovascular medical emergency develop clinically significant posttraumatic stress disorder (PTSD) symptoms. It is possible that development of PTSD symptoms in this cohort is associated with subsequent adverse physical health events. Our objective was to test whether clinically significant PTSD symptoms 30 days postdischarge are associated with increased risk for hospital readmission within 24 months after discharge among patients presenting to the ED for a respiratory or cardiovascular emergency.MethodsThis was a prospective cohort study conducted between January 1, 2018, and December 31, 2020, at a U.S. academic medical center, including adult patients presenting with acute respiratory failure or cardiovascular instability requiring a potentially life‐sustaining intervention in the ED. PTSD symptoms 30 days postdischarge were measured using the PTSD Checklist for the Diagnostic and Statistical Manual of Mental Disorders‐5. The primary outcome was all‐cause hospital readmission over the subsequent 24 months after hospital discharge from the index ED visit.ResultsOf the 99 patients included, 73% (95% confidence interval [CI] = 63% to 81%) had a hospital readmission within 24 months. In a multivariable Cox proportional hazards model adjusting for potential confounders (e.g., age, severity of illness during index ED visit, preexisting comorbid conditions) presence of clinically significant PTSD symptoms at 30 days was independently associated with increased risk for all‐cause hospital readmission at 24 months (hazards ratio = 2.19, 95% CI = 1.30 to 3.69). These results remained statistically significant across multiple sensitivity analyses.ConclusionsHospital readmission is common among survivors of acute respiratory failure and cardiovascular instability, and PTSD symptoms 30 days postdischarge are an independent predictor of hospital readmission. Survivors of medical emergencies may warrant follow‐up evaluation for PTSD symptoms, and future research is warranted to better understand the relationship between psychological trauma and hospital readmission.